FB2021_01, released Feb 18, 2021

Gene: Dmel\lark

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General Information
Symbol
Dmel\lark
Species
D. melanogaster
Name
lark
Annotation Symbol
CG8597
Feature Type
protein_coding_gene
FlyBase ID
FBgn0011640
Gene Model Status
Current
Stock Availability
5 publicly available
Gene Snapshot
lark (lark) encodes an essential RNA-binding protein of the RNA recognition motif (RRM) class. It is implicated in both RNA splicing and translational control. It contributes to oogenesis, tissue development and circadian behavior. [Date last reviewed: 2019-03-14]
Other Summaries
Key Links
Genomic Location
Cytogenetic map
65F5-65F5
Sequence location
3L:7,339,266..7,341,893 [+]
Recombination map

3-20

RefSeq locus
NT_037436 REGION:7339266..7341893
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (23 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables RNA binding
inferred from direct assay
(Huang et al., 2014)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
enables mRNA binding
inferred from biological aspect of ancestor with PANTHER:PTN002751717
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred from sequence or structural similarity
(Lasko, 2000)
enables RNA binding
inferred from biological aspect of ancestor with PANTHER:PTN000567445
(assigned by GO_Central )
(Gaudet et al., 2011)
non-traceable author statement
(assigned by UniProt )
(McNeil et al., 2004)
enables zinc ion binding
inferred from electronic annotation with InterPro:IPR001878
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Biological Process (15 terms)
Terms Based on Experimental Evidence (12 terms)
CV Term
Evidence
References
involved_in actin cytoskeleton organization
inferred from mutant phenotype
(assigned by UniProt )
(McNeil et al., 2004)
involved_in circadian rhythm
inferred from mutant phenotype
(Newby and Jackson, 1993)
involved_in cytoplasmic transport, nurse cell to oocyte
inferred from mutant phenotype
(assigned by UniProt )
(McNeil et al., 2004)
involved_in eclosion rhythm
inferred from mutant phenotype
(assigned by UniProt )
(Newby and Jackson, 1996)
inferred from mutant phenotype
(Newby and Jackson, 1993)
involved_in embryo development ending in birth or egg hatching
inferred from mutant phenotype
(assigned by UniProt )
(Newby and Jackson, 1993)
involved_in locomotor rhythm
inferred from mutant phenotype
(Sundram et al., 2012)
involved_in mitotic cell cycle
inferred from high throughput mutant phenotype
(Ducat et al., 2008)
involved_in negative regulation of eclosion
inferred from mutant phenotype
(Newby and Jackson, 1993)
inferred from mutant phenotype
(assigned by UniProt )
(Newby and Jackson, 1996)
involved_in positive regulation of cytoplasmic translation
inferred from mutant phenotype
(Huang et al., 2014)
involved_in protein localization
inferred from mutant phenotype
(assigned by UniProt )
(McNeil et al., 2004)
involved_in regulation of circadian rhythm
inferred from mutant phenotype
(Huang et al., 2014)
inferred from genetic interaction with FLYBASE:dco; FB:FBgn0002413
(Huang et al., 2014)
involved_in regulation of embryonic development
inferred from mutant phenotype
(Newby and Jackson, 1993)
Terms Based on Predictions or Assertions (6 terms)
CV Term
Evidence
References
involved_in circadian rhythm
non-traceable author statement
(Sokolowski, 2001)
involved_in eclosion rhythm
traceable author statement
(Stanewsky, 2003, Panda et al., 2002)
non-traceable author statement
(Sokolowski, 2001)
involved_in eclosion
traceable author statement
(Hendricks, 2003)
involved_in locomotor rhythm
traceable author statement
(Panda et al., 2002)
involved_in mRNA splicing, via spliceosome
inferred from biological aspect of ancestor with PANTHER:PTN000567445
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred by curator from GO:0071011,GO:0071013
(Herold et al., 2009)
NOT involved_in locomotion
traceable author statement
(Hendricks, 2003)
Cellular Component (5 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
part_of catalytic step 2 spliceosome
inferred from high throughput direct assay
(Herold et al., 2009)
located_in cytoplasm
inferred from direct assay
(assigned by UniProt )
(McNeil et al., 1998)
located_in nucleus
inferred from direct assay
(assigned by UniProt )
(McNeil et al., 2001, McNeil et al., 1998)
part_of precatalytic spliceosome
inferred from high throughput direct assay
(Herold et al., 2009)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in nuclear speck
inferred from biological aspect of ancestor with PANTHER:PTN000567445
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Protein Function (UniProtKB)
Essential RNA-binding protein. May be required for circadian repression of eclosion. Also essential for nurse cell dumping during oogenesis, the process whereby the cytoplasmic contents of nurse cells are transferred to the oocyte late in it's development.
(UniProt, Q94901)
Gene Model and Products
Number of Transcripts
5
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\lark for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.45

Gene model reviewed during 5.55

Sequence Ontology: Class of Gene
gene_with_edited_transcript
(Graveley et al., 2011)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
lark-RA
FBtr0076841
NM_079233
1837
352
lark-RB
FBtr0076842
NM_168202
1650
352
lark-RC
FBtr0076843
NM_168203
1784
352
lark-RD
FBtr0076844
NM_168204
1758
352
lark-RE
FBtr0076845
NM_168205
2087
352
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
lark-PA
FBpp0076552
39.9
352
9.30
NP_523957
AAF50578
lark-PB
FBpp0076553
39.9
352
9.30
NP_729237
AAN12053
lark-PC
FBpp0076554
39.9
352
9.30
NP_729238
AAN12054
lark-PD
FBpp0076555
39.9
352
9.30
NP_729239
AAN12055
lark-PE
FBpp0076556
39.9
352
9.30
NP_729240
AAN12056
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

352 aa isoforms: lark-PA, lark-PB, lark-PC, lark-PD, lark-PE
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\lark using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 6
organism | ubiquitous | uniform
(McNeil et al., 1999)
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
ventral nerve cord
(Fisher et al., 2012)
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 4
organism

Comment: reference stages 0-2 hr AEL

(McNeil et al., 1999)
embryonic stage 17
organism

Comment: reference stages 16-18 hr AEL

(McNeil et al., 1999)
pupal stage
organism
(McNeil et al., 1999)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 4
embryonic cortex
(McNeil et al., 1999)
embryonic stage 5 -- 11
cell
(McNeil et al., 1999)
embryonic stage 4 -- 11
organism | ubiquitous
(McNeil et al., 1999)
adult stage | female & oogenesis
egg chamber | ubiquitous
(McNeil et al., 1999)
follicle cell
(McNeil et al., 1999)
oogenesis & adult stage | female
nurse cell
(McNeil et al., 1999)
oocyte
(McNeil et al., 1999)
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
day 7 of adulthood -- day 49 of adulthood
adult heart
(Cammarato et al., 2011)
adult stage
adult head
(Aradska et al., 2015)
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
unfertilized egg stage
unfertilized egg
(McNeil et al., 1999)
embryonic stage 1 -- 8
organism

Comment: 0-3.5 hr AEL

(McNeil et al., 1999)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
part_of catalytic step 2 spliceosome
inferred from high throughput direct assay
(Herold et al., 2009)
located_in cytoplasm
inferred from direct assay
(assigned by UniProt )
(McNeil et al., 1998)
located_in nucleus
inferred from direct assay
(assigned by UniProt )
(McNeil et al., 2001, McNeil et al., 1998)
part_of precatalytic spliceosome
inferred from high throughput direct assay
(Herold et al., 2009)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\lark in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 15 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 18 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of lark
Transgenic constructs containing regulatory region of lark
Aberrations (Deficiencies and Duplications) ( 2 )
Inferred from experimentation
Gene duplicated in
Dp(3;Y)A76
(Newby and Jackson, 1996)
Gene disrupted in
Df(3L)BSC33
(Cook, 2015.11.25)
Inferred from location
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal
lethal (with Df(3L)BSC33)
lethal | recessive
lethal - all die before end of P-stage, with Scer\GAL4elav-C155
lethal - all die before end of pupal stage, with Scer\GAL4Act5C.PHb
lethal - all die before end of pupal stage, with Scer\GAL4Act5C.PU
lethal - all die during embryonic stage | recessive
partially lethal - majority die, with Scer\GAL4386Y
partially lethal - majority die, with Scer\GAL4dimm-929
viable, with Scer\GAL4Act5C.PU
viable, with Scer\GAL4CCAP.PP
viable, with Scer\GAL4P2.4.Pdf
viable, with Scer\GAL4ple.PF
viable, with Scer\GAL4tim.PE
Sterility
Allele
female fertile, with lark1
female fertile, with larkcMa.Tag:HA
female fertile, with larkRRM1.RNP2.Tag:HA
female sterile, with lark1
female sterile, with larkRRM1+RTZF.Tag:HA
female sterile, with larkRRM2.RNP2.Tag:HA
female sterile, with larkRRM2+RTZF.Tag:HA
male fertile, with lark1
male fertile, with larkcMa.Tag:HA
male fertile, with larkRRM1.RNP2.Tag:HA
male fertile, with larkRRM1+RTZF.Tag:HA
male fertile, with larkRRM2.RNP2.Tag:HA
male fertile, with larkRRM2+RTZF.Tag:HA
Other Phenotypes
Allele
abnormal behavior | dominant
abnormal eclosion | dominant
abnormal eclosion rhythm, with Scer\GAL4CCAP.PP
abnormal eclosion rhythm, with Scer\GAL4Eh.2.4
abnormal eclosion rhythm, with Scer\GAL4phm.PO
abnormal eclosion rhythm, with Scer\GAL4tim.PE
abnormal eclosion rhythm, with Scer\GAL4tim.UAS
abnormal flight, with lark1
abnormal flight, with larkRRM2.RNP2.Tag:HA
abnormal locomotor rhythm, with Scer\GAL4P2.4.Pdf
abnormal locomotor rhythm, with Scer\GAL4P2.4.Pdf, lark1
abnormal locomotor rhythm, with Scer\GAL4P2.4.Pdf, larkdsRNA.UAS.cSb
abnormal locomotor rhythm, with Scer\GAL4tim.PE
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4dimm-929
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4dimm-929, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4dimm-929, larkdsRNA.UAS.cSb
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4elav-C155
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4elav-C155, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4elav-C155, larkdsRNA.UAS.cSb
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4Mai179
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4Mai179, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4Mai179, larkdsRNA.UAS.cSb
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4nrv2.PS
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4nrv2.PS, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4nrv2.PS, larkdsRNA.UAS.cSb
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4P2.4.Pdf, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4P2.4.Pdf, larkdsRNA.UAS.cSb
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4tim.UAS
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4tim.UAS, lark1
abnormal locomotor rhythm | heat sensitive, with Scer\GAL4tim.UAS, larkdsRNA.UAS.cSb
flightless, with lark1
flightless, with larkRRM1+RTZF.Tag:HA
flightless, with larkRRM2+RTZF.Tag:HA
flightless, with larkZF.Tag:HA
some die during embryonic stage | recessive
some die during pharate adult stage, with Scer\GAL4386Y
some die during pharate adult stage, with Scer\GAL4dimm-929
some die during pharate adult stage, with Scer\GAL4elav-C155
some die during pupal stage, with Scer\GAL4Act5C.PHb
some die during pupal stage, with Scer\GAL4Act5C.PU
visible, with lark1
visible, with larkRRM2.RNP2.Tag:HA
visible, with larkRRM2+RTZF.Tag:HA
visible, with larkZF.Tag:HA
visible, with Scer\GAL4386Y
visible, with Scer\GAL4bbg-C96
visible, with Scer\GAL4CCAP.PP
visible, with Scer\GAL4Eh.2.4
wild-type
Phenotype manifest in
Allele
adult cuticle, with Scer\GAL4386Y
adult cuticle, with Scer\GAL4CCAP.PP
adult cuticle, with Scer\GAL4Eh.2.4
adult cuticle, with Scer\GAL4elav-C155
embryo | germline clone
posterior scutellar bristle, with lark1
posterior scutellar bristle, with larkZF.Tag:HA
scutellar bristle, with lark1
scutellar bristle, with larkRRM2.RNP2.Tag:HA
scutellar bristle, with larkRRM2+RTZF.Tag:HA
scutellar bristle, with larkZF.Tag:HA
scutellar bristle | ectopic, with lark1
scutellar bristle | ectopic, with larkZF.Tag:HA
wing, with lark1
wing, with larkRRM2.RNP2.Tag:HA
wing, with larkRRM2+RTZF.Tag:HA
wing, with larkZF.Tag:HA
wing, with Scer\GAL4386Y
wing, with Scer\GAL4bbg-C96
wing, with Scer\GAL4CCAP.PP
wing, with Scer\GAL4Eh.2.4
wing, with Scer\GAL4elav-C155
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (24)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\RBM4
10 of 15
Yes
Yes
1  
Hsap\RBM4B
9 of 15
No
Yes
Hsap\RBM14
4 of 15
No
Yes
Hsap\RBM14-RBM4
3 of 15
No
Yes
Hsap\ELAVL1
1 of 15
No
No
2  
Hsap\ELAVL3
1 of 15
No
No
2  
Hsap\ELAVL4
1 of 15
No
No
2  
Hsap\HNRNPCL1
1 of 15
No
No
Hsap\HNRNPR
1 of 15
No
No
Hsap\MIR4785
1 of 15
No
Yes
Hsap\MIR7705
1 of 15
No
Yes
Hsap\PABPC1L2A
1 of 15
No
No
Hsap\PABPC1L2B
1 of 15
No
No
Hsap\PABPC1L
1 of 15
No
No
Hsap\PABPC3
1 of 15
No
No
Hsap\PABPC4
1 of 15
No
No
Hsap\PABPC4L
1 of 15
No
No
Hsap\PABPC5
1 of 15
No
No
Hsap\RBM24
1 of 15
No
Yes
Hsap\RBM34
1 of 15
No
No
Hsap\RBM38
1 of 15
No
Yes
Hsap\RBMS2
1 of 15
No
No
1  
Hsap\RBMS3
1 of 15
No
No
Hsap\SYNCRIP
1 of 15
No
No
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (22)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Rbm4b
11 of 15
Yes
Yes
Mmus\Rbm4
9 of 15
No
Yes
Mmus\Gm21992
3 of 15
No
Yes
Mmus\Rbm14
3 of 15
No
Yes
Mmus\Elavl1
1 of 15
No
No
Mmus\Elavl3
1 of 15
No
No
Mmus\Elavl4
1 of 15
No
No
Mmus\Hnrnpr
1 of 15
No
No
Mmus\Pabpc1l
1 of 15
No
No
Mmus\Pabpc1
1 of 15
No
No
Mmus\Pabpc2
1 of 15
No
No
Mmus\Pabpc4l
1 of 15
No
No
Mmus\Pabpc4
1 of 15
No
No
Mmus\Pabpc5
1 of 15
No
No
Mmus\Pabpc6
1 of 15
No
No
Mmus\Rbm24
1 of 15
No
Yes
Mmus\Rbm34
1 of 15
No
No
Mmus\Rbm38
1 of 15
No
Yes
Mmus\Rbms1
1 of 15
No
No
Mmus\Rbms2
1 of 15
No
No
Mmus\Rbms3
1 of 15
No
No
Mmus\Syncrip
1 of 15
No
No
Rattus norvegicus (Norway rat) (20)
Rnor\Rbm4b
6 of 13
Yes
Yes
Rnor\Rbm4
4 of 13
No
Yes
Rnor\Rbm14
4 of 13
No
Yes
Rnor\Elavl1
1 of 13
No
No
Rnor\Elavl3
1 of 13
No
No
Rnor\Elavl4
1 of 13
No
No
Rnor\Hnrnpr
1 of 13
No
No
Rnor\Pabpc1l
1 of 13
No
No
Rnor\Pabpc1
1 of 13
No
No
Rnor\Pabpc2
1 of 13
No
No
Rnor\Pabpc4l
1 of 13
No
No
Rnor\Pabpc4
1 of 13
No
No
Rnor\Pabpc5
1 of 13
No
No
Rnor\Pabpc6
1 of 13
No
No
Rnor\Rbm34
1 of 13
No
No
Rnor\Rbm38
1 of 13
No
Yes
Rnor\Rbms1
1 of 13
No
No
Rnor\Rbms2
1 of 13
No
No
Rnor\Rbms3
1 of 13
No
No
Rnor\Syncrip
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (16)
Xtro\rbm4b
8 of 12
Yes
Yes
Xtro\rbm14
5 of 12
No
Yes
Xtro\rbm4
2 of 12
No
Yes
Xtro\elavl1
1 of 12
No
No
Xtro\elavl3
1 of 12
No
No
Xtro\elavl4
1 of 12
No
No
Xtro\hnrnpr
1 of 12
No
No
Xtro\pabpc1l
1 of 12
No
No
Xtro\pabpc1
1 of 12
No
No
Xtro\pabpc4
1 of 12
No
No
Xtro\rbm24
1 of 12
No
Yes
Xtro\rbm34
1 of 12
No
No
Xtro\rbm38
1 of 12
No
Yes
Xtro\rbms1
1 of 12
No
No
Xtro\rbms2
1 of 12
No
No
Xtro\syncrip
1 of 12
No
No
Danio rerio (Zebrafish) (25)
Drer\rbm4.2
11 of 15
Yes
Yes
Drer\rbm4.1
10 of 15
No
Yes
Drer\rbm4.3
9 of 15
No
Yes
Drer\zgc:77262
8 of 15
No
Yes
Drer\rbm14a
5 of 15
No
Yes
Drer\rbm14b
4 of 15
No
Yes
Drer\elavl1a
1 of 15
No
No
Drer\elavl1b
1 of 15
No
No
Drer\elavl3
1 of 15
No
No
Drer\elavl4
1 of 15
No
No
Drer\hnrnpr
1 of 15
No
No
Drer\pabpc1a
1 of 15
No
No
Drer\pabpc1b
1 of 15
No
No
Drer\pabpc1l
1 of 15
No
No
Drer\pabpc4
1 of 15
No
No
Drer\rbm24a
1 of 15
No
No
Drer\rbm24b
1 of 15
No
Yes
Drer\rbm34
1 of 15
No
No
Drer\rbm38
1 of 15
No
Yes
Drer\rbms1a
1 of 15
No
No
Drer\rbms2a
1 of 15
No
No
Drer\rbms2b
1 of 15
No
No
Drer\rbms3
1 of 15
No
No
Drer\syncrip
1 of 15
No
No
Drer\syncripl
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (3)
Cele\rnp-1
9 of 15
Yes
Yes
Cele\exc-7
1 of 15
No
No
Cele\sup-12
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (13)
Atha\AT5G52045
1 of 9
Yes
Yes
Atha\AtRZ-1b
1 of 9
Yes
Yes
Atha\CP31B
1 of 9
Yes
No
Atha\NUC-L2
1 of 9
Yes
Yes
Atha\RBP31
1 of 9
Yes
No
Atha\RS2Z32
1 of 9
Yes
Yes
Atha\RS2Z33
1 of 9
Yes
Yes
Atha\RS31a
1 of 9
Yes
Yes
Atha\RS31
1 of 9
Yes
Yes
Atha\RS40
1 of 9
Yes
Yes
Atha\RSZ21
1 of 9
Yes
No
Atha\RSZ22a
1 of 9
Yes
No
Atha\RSZ22
1 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\SPBC1861.04c
1 of 12
Yes
No
Spom\tcg1
1 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190CB2 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00007243
Drosophila simulans
Dsim\GD29539
Drosophila erecta
Dere\GG26453
Drosophila yakuba
Dyak\GE27329
Drosophila ananassae
Dana\GF26462
Drosophila pseudoobscura pseudoobscura
Dpse\GA21193
Drosophila willistoni
Dwil\GK27821
Drosophila virilis
Dvir\GJ26000
Drosophila mojavensis
Dmoj\GI12985
Drosophila mojavensis
Dmoj\GI25488
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150AV9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17023652
Glossina morsitans
Tsetse fly
Gmor\GMOY003846
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_03467
Mayetiola destructor
Hessian fly
Mdes\Mdes002638
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL013982
Anopheles darlingi
American malaria mosquito
Adar\ADAC001514
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ009028
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0CGH )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA007410
Bombyx mori
Silkmoth
Bmor\BGIBMGA007418
Danaus plexippus
Monarch butterfly
Dple\DPOGS213215-PA
Danaus plexippus
Monarch butterfly
Dple\DPOGS213222-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL017088
Heliconius melpomene
Postman butterfly
Hmel\HMEL017077
Apis florea
Little honeybee
Aflo\2985342964
Apis florea
Little honeybee
Aflo\2985342900
Apis mellifera
Western honey bee
Amel\LOC408441
Apis mellifera
Western honey bee
Amel\GB41674
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP12750
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP12752
Bombus terrestris
Buff-tailed bumblebee
Bter\15206717
Bombus terrestris
Buff-tailed bumblebee
Bter\15206716
Linepithema humile
Argentine ant
Lhum\LH22860
Linepithema humile
Argentine ant
Lhum\LH22859
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:002d47
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:002d48
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG002440
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG002443
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_12024
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_12027
Tribolium castaneum
Red flour beetle
Tcas\TC034848
Tribolium castaneum
Red flour beetle
Tcas\TC006476
Tribolium castaneum
Red flour beetle
Tcas\TC005644
Pediculus humanus
Human body louse
Phum\PHUM127280
Pediculus humanus
Human body louse
Phum\PHUM127250
Rhodnius prolixus
Kissing bug
Rpro\RPRC004065
Rhodnius prolixus
Kissing bug
Rpro\RPRC014260
Cimex lectularius
Bed bug
Clec\CLEC012360
Cimex lectularius
Bed bug
Clec\CLEC012359
Cimex lectularius
Bed bug
Clec\CLEC008070
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI003989
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI003756
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI008316
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI060559
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI010087
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_17217
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_04523
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0CE9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR004399
Ixodes scapularis
Black-legged tick
Isca\ISCW021148
Stegodyphus mimosarum
African social velvet spider
Smim\KFM60217.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM71389.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM58991.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur07g05720
Tetranychus urticae
Two-spotted spider mite
Turt\tetur32g01790
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_45130
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0JQC )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Rbm14
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Adka
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Adk_1
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Adk_2
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000004452
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000008757
Gallus gallus
Domestic chicken
Ggal\ADK
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (23)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG5213
2 of 10
CG7903
2 of 10
mod
2 of 10
B52
1 of 10
CG1316
1 of 10
CG3335
1 of 10
CG4612
1 of 10
CG14230
1 of 10
cocoon
1 of 10
fne
1 of 10
hfp
1 of 10
pAbp
1 of 10
Rbp1-like
1 of 10
Rbp1
1 of 10
Rbp9
1 of 10
Rsf1
1 of 10
SC35
1 of 10
SF2
1 of 10
shep
1 of 10
Spx
1 of 10
ssx
1 of 10
TBPH
1 of 10
x16
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    RBM4; RNA binding motif protein 4
    10 of 15
    602571
         
        RBM4B; RNA binding motif protein 4B
        9 of 15
            RBM14; RNA binding motif protein 14
            4 of 15
            612409
                RBM14-RBM4; RBM14-RBM4 readthrough
                3 of 15
                    Functional Complementation Data
                    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
                    Interactions
                    Summary of Physical Interactions
                    esyN Network Diagram
                    Show neighbor-neighbor interactions:
                    Select Layout:
                    Legend:
                    Protein
                    RNA
                    Selected Interactor(s)
                    Interactions Browser
                    View in Interactions Browser
                    Please see the Physical Interaction reports below for full details
                    protein-protein
                    Physical Interaction
                    Assay
                    References
                    lark - Fmr1
                    anti bait coimmunoprecipitation, western blot
                    (Sofola et al., 2008)
                    lark - Nipped-B
                    pull down, western blot, anti bait coimmunoprecipitation
                    (Swain et al., 2016)
                    lark - Pi3K21B
                    anti tag coimmunoprecipitation, Identification by mass spectrometry
                    (Vinayagam et al., 2016)
                    lark - Pur-α
                    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
                    (Rhee et al., 2014)
                    lark - Ras85D
                    anti tag coimmunoprecipitation, peptide massfingerprinting
                    (Friedman et al., 2011)
                    lark - drk
                    anti tag coimmunoprecipitation, peptide massfingerprinting
                    (Friedman et al., 2011)
                    lark - qkr58E-1
                    anti tag coimmunoprecipitation, anti tag western blot
                    (Stoiber et al., 2015)
                    lark - vtd
                    pull down, western blot
                    (Swain et al., 2016)
                    RNA-protein
                    Physical Interaction
                    Assay
                    References
                    lark - Ae2
                    pull down, quantitative reverse transcription pcr
                    (Swain et al., 2016)
                    lark - ct
                    pull down, quantitative reverse transcription pcr
                    (Swain et al., 2016)
                    lark - dco
                    anti bait coimmunoprecipitation, primer specific pcr, nucleic acid uv cross-linking assay, autoradiography
                    (Huang et al., 2014)
                    lark - path
                    pull down, quantitative reverse transcription pcr
                    (Swain et al., 2016)
                    lark - rho
                    pull down, quantitative reverse transcription pcr
                    (Swain et al., 2016)
                    lark - trol
                    pull down, quantitative reverse transcription pcr
                    (Swain et al., 2016)
                    Summary of Genetic Interactions
                    esyN Network Diagram
                    esyN Network Key:
                    Suppression
                    Enhancement
                    View in Interactions Browser
                    Please look at the allele data for full details of the genetic interactions
                    Starting gene(s)
                    Interaction type
                    Interacting gene(s)
                    Reference
                    lark
                    suppressible
                    dco
                    (Huang et al., 2014)
                    lark
                    enhanceable
                    dco
                    (Huang et al., 2014)
                    Starting gene(s)
                    Interaction type
                    Interacting gene(s)
                    Reference
                    N
                    enhanceable
                    lark
                    (Kankel et al., 2007)
                    External Data
                    Linkouts
                    BioGRID - A database of protein and genetic interactions.
                    DroID - A comprehensive database of gene and protein interactions.
                    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
                    MIST (genetic) - An integrated Molecular Interaction Database
                    MIST (protein-protein) - An integrated Molecular Interaction Database
                    Pathways
                    Signaling Pathways (FlyBase)
                    Metabolic Pathways
                    External Data
                    Linkouts
                    Genomic Location and Detailed Mapping Data
                    Chromosome (arm)
                    3L
                    Recombination map

                    3-20

                    Cytogenetic map
                    65F5-65F5
                    Sequence location
                    3L:7,339,266..7,341,893 [+]
                    FlyBase Computed Cytological Location
                    Cytogenetic map
                    Evidence for location
                    65F5-65F5
                    Limits computationally determined from genome sequence between P{lacW}Cdc27L7123 and P{EP}larkEP3259&P{lacW}l(3)j1D5j1D5
                    Experimentally Determined Cytological Location
                    Cytogenetic map
                    Notes
                    References
                    65E-65F
                    (Newby, 1996.5.29)
                    Experimentally Determined Recombination Data
                    Location

                    3-20

                    (FlyBase, 2016)

                    3-17.1

                    (Comeron et al., 2012)

                    3-

                    (Newby, 1996.5.29)

                    3-17.8

                    (Newby and Jackson, 1993)
                    Left of (cM)
                    Right of (cM)
                    Notes
                    Stocks and Reagents
                    Stocks (5)
                    Genomic Clones (14)
                     

                    Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

                    cDNA Clones (103)
                     

                    Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

                    cDNA clones, fully sequenced
                    BDGP DGC clones
                    Other clones
                    Drosophila Genomics Resource Center cDNA clones

                    For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

                    cDNA Clones, End Sequenced (ESTs)
                    BDGP DGC clones
                    Other clones
                    RNAi and Array Information
                    Linkouts
                    DRSC - Results frm RNAi screens
                    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                    Antibody Information
                    Laboratory Generated Antibodies
                     

                    polyclonal

                    (Swain et al., 2016, Newby and Jackson, 1996)
                    Commercially Available Antibodies
                     
                    Other Information
                    Relationship to Other Genes
                    Source for database identify of
                    Source for database merge of
                    Additional comments
                    Other Comments

                    The lark RNA-binding protein oscillates in abundance during the circadian cycle.

                    (McNeil et al., 1998)

                    Results from mRNA expression pattern studies and gene dosage experiments suggest lark is required for the posttranscriptional repression of genes encoding other elements of the clock output pathway.

                    (Newby and Jackson, 1996)

                    The lark gene encodes an essential embryonic product which is also required later in development for the daily timing of adult eclosion. The lark protein is a repressor, a member of the RNP (RMM) class of RNA-binding proteins, which mediates inhibition of eclosion until an appropriate time of day.

                    (Newby and Jackson, 1995)

                    Mutants of lark alter the timing of eclosion but do not perturb circadian period or the expression of the activity rhythm. lark gene product has an essential function and is one element of the output pathway mediating the pacemaker control of eclosion.

                    (Newby and Jackson, 1993)
                    Origin and Etymology
                    Discoverer
                    Etymology
                    Identification
                    External Crossreferences and Linkouts ( 60 )
                    Sequence Crossreferences
                    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
                    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
                    GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
                    RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
                    UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
                    Other crossreferences
                    BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
                    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
                    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
                    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
                    Flygut - An atlas of the Drosophila adult midgut
                    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
                    InterPro - A database of protein families, domains and functional sites
                    KEGG Genes - Molecular building blocks of life in the genomic space.
                    modMine - A data warehouse for the modENCODE project
                    Linkouts
                    BioGRID - A database of protein and genetic interactions.
                    DPiM - Drosophila Protein interaction map
                    DroID - A comprehensive database of gene and protein interactions.
                    DRSC - Results frm RNAi screens
                    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
                    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
                    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                    FlyMine - An integrated database for Drosophila genomics
                    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
                    MIST (genetic) - An integrated Molecular Interaction Database
                    MIST (protein-protein) - An integrated Molecular Interaction Database
                    Synonyms and Secondary IDs (5)
                    Datasets (0)
                    Study focus (0)
                    Experimental Role
                    Project
                    Project Type
                    Title
                    References (114)