FB2020_01, released Feb 12, 2020

Gene: Dmel\Trim9

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General Information
Symbol
Dmel\Trim9
Species
D. melanogaster
Name
Tripartite motif containing 9
Annotation Symbol
CG31721
Feature Type
protein_coding_gene
FlyBase ID
FBgn0051721
Gene Model Status
Current
Stock Availability
15 publicly available
Gene Snapshot
Tripartite motif containing 9 (Trim9) encodes a ring finger domain-containing E3 ubiquitin ligase that contributes to neurogenesis, axon guidance, eye development and regulation of locomotive behaviour. [Date last reviewed: 2019-03-14]
Other Summaries
Key Links
Genomic Location
Cytogenetic map
31F5-32A2
Sequence location
2L:10,544,883..10,628,054 [+]
Recombination map

2-43

RefSeq locus
NT_033779 REGION:10544883..10628054
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 Group (FlyBase)
Protein Family (UniProt)
Belongs to the TRIM/RBCC family. (M9MRI4)
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
protein binding
Predictions / Assertions
ubiquitin protein ligase activity; zinc ion binding
Summaries
Gene Group (FlyBase)
TRIM UBIQUITIN LIGASES -
E3 (ubiquitin) ligases interact with both ubiquitin-E2 (ubiquitin-conjugating) enzymes and the target protein, transferring the ubiquitin from the E2 to the substrate. The TRIM family are E3 ligases characterized a TRIpartite Motif, which consists of a RING domain, one or two B-box motifs and a coiled-coil region. As well as ubiquitination, TRIM proteins are also involved in ubiquitin-like modifications such as SUMOylation and ISGylation. (Adapted from PMID:18673550).
Protein Function (UniProtKB)
E3 ubiquitin-protein ligase activity (By similarity). During embryonic and larval development, regulates the pattern of axonal projections of class IV nociceptive sensory neurons (C4da) downstream of netrin receptor fra (PubMed:22084112, PubMed:21338947). Regulates fine-scale topography of C4da axon terminals upon neuronal activity (PubMed:24746793). During eye development, consolidates the attachment of R8 photoreceptor growth cones to the target medulla layer, probably downstream of fra (PubMed:27743477).
(UniProt, M9MRI4)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the GBrowse view of Dmel\Trim9 or the JBrowse view of Dmel\Trim9 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 5.48

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Trim9-RA
FBtr0080096
NM_164935
3103
729
Trim9-RB
FBtr0304114
NM_001201857
3816
740
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
Trim9-PA
FBpp0079685
79.0
729
5.76
NP_723600
AAF52977
Trim9-PB
FBpp0293057
80.2
740
5.67
NP_001188786
ADV37036
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Interacts (via fibronectin type-III domain) with pico. Interacts (via SPRY domain) with netrin receptor fra.

(UniProt, M9MRI4)
Domain

The fibronectin type-III, SPRY and coil-coil domains are necessary for C4da axon patterning.

(UniProt, M9MRI4)
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\Trim9 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (14 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
protein binding
inferred from physical interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Morikawa et al., 2011)
inferred from physical interaction with UniProtKB:Q9VWB7
(assigned by UniProt )
(Morikawa et al., 2011)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
ubiquitin protein ligase activity
inferred from sequence or structural similarity with UniProtKB:Q9C026
(assigned by UniProt )
(UniProt Curators, 2002-)
zinc ion binding
inferred from electronic annotation with InterPro:IPR000315, InterPro:IPR001841
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
inferred from sequence model
(Ying et al., 2011)
Biological Process (9 terms)
Terms Based on Experimental Evidence (8 terms)
CV Term
Evidence
References
axon guidance
inferred from mutant phenotype
(Song et al., 2011)
axon midline choice point recognition
inferred from mutant phenotype
(assigned by UniProt )
(Yang et al., 2014, Morikawa et al., 2011)
inferred from mutant phenotype
(Song et al., 2011)
axonogenesis
inferred from mutant phenotype
(Morikawa et al., 2011)
compound eye development
inferred from mutant phenotype
(assigned by UniProt )
(Akin and Zipursky, 2016)
inferred from genetic interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Akin and Zipursky, 2016)
netrin-activated signaling pathway
inferred from mutant phenotype
(assigned by UniProt )
(Song et al., 2011)
inferred from genetic interaction with FLYBASE:fra; FB:FBgn0011592
(Morikawa et al., 2011)
inferred from physical interaction with FLYBASE:fra; FB:FBgn0011592
(Morikawa et al., 2011)
inferred from physical interaction with FLYBASE:pico; FB:FBgn0261811
(Morikawa et al., 2011)
peripheral nervous system neuron axonogenesis
inferred from mutant phenotype
(assigned by UniProt )
(Yang et al., 2014, Morikawa et al., 2011)
inferred from genetic interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Morikawa et al., 2011)
regulation of axonogenesis
inferred from mutant phenotype
(assigned by UniProt )
(Yang et al., 2014, Morikawa et al., 2011)
inferred from genetic interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Morikawa et al., 2011)
regulation of locomotion involved in locomotory behavior
inferred from mutant phenotype
(assigned by UniProt )
(Morikawa et al., 2011)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
proteasome-mediated ubiquitin-dependent protein catabolic process
inferred from sequence or structural similarity with HGNC:16288
(Song et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
axonal growth cone
inferred from mutant phenotype
(assigned by UniProt )
(Akin and Zipursky, 2016)
inferred from genetic interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Akin and Zipursky, 2016)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
intracellular
inferred from electronic annotation with InterPro:IPR000315, InterPro:IPR003649
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
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 4 -- 6
central brain anlage in statu nascendi
(Fisher et al., 2012)
dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
ventral ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
antennal anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
dorsal head epidermis anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
visual anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(Fisher et al., 2012)
embryonic stage 9 -- 10
antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 11 -- 12
anterior midgut primordium
(Fisher et al., 2012)
central brain primordium
(Fisher et al., 2012)
embryonic neuroblast of ventral nerve cord primordium
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
posterior midgut primordium
(Fisher et al., 2012)
procephalic neuroblast
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
embryonic/larval midgut
(Fisher et al., 2012)
embryonic/larval nervous system
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
sensory nervous system primordium
(Fisher et al., 2012)
ventral nerve cord
(Fisher et al., 2012)
ventral sensory complex primordium
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 15 -- 17
larval multidendritic class IV neuron
(Morikawa et al., 2011)
embryonic stage 15
larval dorsal multidendritic neuron ddaC
(Morikawa et al., 2011)
larval ventral multidendritic neuron vdaB
(Morikawa et al., 2011)
Additional Descriptive Data

Trim9 is expressed predominantly in the nervous system. It is first detected in PNS neurons in stage 13-14 embryos and persists in later embryonic stages. It is detected in a a subset of neurons including class IV dendritic arborizing (C4da) neurons. Expression is stronger in ddaC and vdaB neurons than in v'ada neurons.

(Morikawa et al., 2011)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
axonal growth cone
inferred from mutant phenotype
(assigned by UniProt )
(Akin and Zipursky, 2016)
inferred from genetic interaction with UniProtKB:A1Z920
(assigned by UniProt )
(Akin and Zipursky, 2016)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Trim9 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
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 22 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 10 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Trim9
Transgenic constructs containing regulatory region of Trim9
Deletions and Duplications ( 1 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal
lethal | recessive
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
fertile
Other Phenotypes
Allele
locomotor behavior defective | third instar larval stage
neuroanatomy defective
neuroanatomy defective | embryonic stage
neuroanatomy defective | embryonic stage (with Df(2L)Exel8026)
neuroanatomy defective | larval stage
neuroanatomy defective | larval stage (with Df(2L)Exel8026)
neuroanatomy defective | somatic clone
neuroanatomy defective | somatic clone, with Scer\GAL4ppk.PU
neuroanatomy defective | somatic clone | third instar larval stage, with Scer\GAL4ppk.PG
neuroanatomy defective | third instar larval stage
neuroanatomy defective | third instar larval stage (with Df(2L)Exel8026)
visible, with Scer\GAL4pnr-MD237
Phenotype manifest in
Allele
abdominal anterior ventral multidendritic neuron vdaa | somatic clone | third instar larval stage, with Scer\GAL4ppk.PG
dopaminergic neuron
ganglion mother cell | larval stage
larval dorsal multidendritic neuron ddaC | third instar larval stage (with Df(2L)Exel8026)
larval multidendritic class IV neuron | embryonic stage
larval multidendritic class IV neuron | embryonic stage (with Df(2L)Exel8026)
larval multidendritic class IV neuron | third instar larval stage
larval multidendritic class IV neuron | third instar larval stage (with Df(2L)Exel8026)
larval ventral multidendritic neuron vdaB | somatic clone
larval ventral multidendritic neuron vdaB | somatic clone, with Scer\GAL4ppk.PU
larval ventral multidendritic neuron vdaB | third instar larval stage (with Df(2L)Exel8026)
midline crossing tract
trichogen cell, with Scer\GAL4pnr-MD237
ventral nerve cord commissure (with Df(2L)Exel8026)
ventral nerve cord commissure | ectopic | somatic clone | third instar larval stage, with Scer\GAL4ppk.PG
ventral nerve cord commissure | embryonic stage
ventral nerve cord commissure | embryonic stage (with Df(2L)Exel8026)
ventral nerve cord commissure | third instar larval stage
ventral nerve cord commissure | third instar larval stage (with Df(2L)Exel8026)
wing
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (31)
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\TRIM9
14 of 15
Yes
Yes
Hsap\TRIM67
13 of 15
No
Yes
Hsap\FSD1
3 of 15
No
Yes
Hsap\FSD1L
3 of 15
No
Yes
Hsap\MID1
3 of 15
No
Yes
Hsap\MID2
3 of 15
No
Yes
Hsap\TRIM36
3 of 15
No
Yes
Hsap\TRIM46
3 of 15
No
Yes
Hsap\FSD2
2 of 15
No
Yes
Hsap\TRIM54
2 of 15
No
Yes
Hsap\TRIM55
2 of 15
No
Yes
Hsap\TRIM63
2 of 15
No
Yes
Hsap\CMYA5
1 of 15
No
Yes
Hsap\SPRYD4
1 of 15
No
Yes
Hsap\TRIM2
1 of 15
No
No
Hsap\TRIM3
1 of 15
No
No
Hsap\TRIM5
1 of 15
No
Yes
Hsap\TRIM10
1 of 15
No
Yes
Hsap\TRIM14
1 of 15
No
Yes
Hsap\TRIM17
1 of 15
No
Yes
Hsap\TRIM22
1 of 15
No
Yes
Hsap\TRIM25
1 of 15
No
Yes
Hsap\TRIM27
1 of 15
No
Yes
Hsap\TRIM31
1 of 15
No
Yes
Hsap\TRIM38
1 of 15
No
Yes
Hsap\TRIM42
1 of 15
No
Yes
Hsap\TRIM50
1 of 15
No
Yes
Hsap\TRIM59
1 of 15
No
No
Hsap\TRIM60
1 of 15
No
Yes
Hsap\TRIM62
1 of 15
No
Yes
Hsap\TRIM69
1 of 15
No
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (33)
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\Trim9
13 of 15
Yes
Yes
Mmus\Trim67
13 of 15
Yes
Yes
Mmus\Fsd1l
3 of 15
No
Yes
Mmus\Fsd1
3 of 15
No
Yes
Mmus\Mid1
3 of 15
No
Yes
Mmus\Mid2
3 of 15
No
Yes
Mmus\Trim36
3 of 15
No
Yes
Mmus\Trim46
3 of 15
No
Yes
Mmus\Fsd2
2 of 15
No
Yes
Mmus\Trim54
2 of 15
No
Yes
Mmus\Trim55
2 of 15
No
Yes
Mmus\Cmya5
1 of 15
No
Yes
Mmus\Spryd4
1 of 15
No
Yes
Mmus\Trim2
1 of 15
No
No
Mmus\Trim3
1 of 15
No
No
Mmus\Trim8
1 of 15
No
Yes
Mmus\Trim12c
1 of 15
No
Yes
Mmus\Trim13
1 of 15
No
Yes
Mmus\Trim14
1 of 15
No
Yes
Mmus\Trim16
1 of 15
No
Yes
Mmus\Trim17
1 of 15
No
Yes
Mmus\Trim25
1 of 15
No
Yes
Mmus\Trim30a
1 of 15
No
Yes
Mmus\Trim31
1 of 15
No
Yes
Mmus\Trim38
1 of 15
No
Yes
Mmus\Trim42
1 of 15
No
Yes
Mmus\Trim50
1 of 15
No
Yes
Mmus\Trim59
1 of 15
No
No
Mmus\Trim62
1 of 15
No
Yes
Mmus\Trim63
1 of 15
No
Yes
Mmus\Trim69
1 of 15
No
Yes
Mmus\Trim75
1 of 15
No
Yes
Mmus\Trim80
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (24)
Rnor\Trim67
12 of 13
Yes
Yes
Rnor\Trim9
9 of 13
No
Yes
Rnor\Mid1
3 of 13
No
Yes
Rnor\Trim36
3 of 13
No
Yes
Rnor\Fsd1l
2 of 13
No
Yes
Rnor\Fsd2
2 of 13
No
Yes
Rnor\Mid2
2 of 13
No
Yes
Rnor\Trim46
2 of 13
No
Yes
Rnor\Trim54
2 of 13
No
Yes
Rnor\Trim55
2 of 13
No
Yes
Rnor\Cmya5
1 of 13
No
Yes
Rnor\Fsd1
1 of 13
No
Yes
Rnor\Spryd4
1 of 13
No
Yes
Rnor\Trim2
1 of 13
No
No
Rnor\Trim3
1 of 13
No
No
Rnor\Trim5
1 of 13
No
Yes
Rnor\Trim17
1 of 13
No
Yes
Rnor\Trim25
1 of 13
No
Yes
Rnor\Trim39
1 of 13
No
Yes
Rnor\Trim42
1 of 13
No
Yes
Rnor\Trim50
1 of 13
No
Yes
Rnor\Trim59
1 of 13
No
No
Rnor\Trim63
1 of 13
No
Yes
Rnor\Trim69
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (7)
Xtro\trim9
6 of 12
Yes
Yes
Xtro\trim67
5 of 12
No
Yes
Xtro\fsd1l
1 of 12
No
Yes
Xtro\mid1
1 of 12
No
Yes
Xtro\trim36
1 of 12
No
Yes
Xtro\trim55
1 of 12
No
Yes
Xtro\trim63
1 of 12
No
Yes
Danio rerio (Zebrafish) (77)
Drer\trim9
11 of 15
Yes
Yes
Drer\trim67
9 of 15
No
Yes
Drer\fsd1
3 of 15
No
Yes
Drer\mid1
3 of 15
No
Yes
Drer\mid2
3 of 15
No
Yes
Drer\trim36
3 of 15
No
Yes
Drer\trim46a
3 of 15
No
Yes
Drer\trim46b
3 of 15
No
Yes
Drer\cmya5
2 of 15
No
Yes
Drer\fsd1l
2 of 15
No
Yes
Drer\trim54
2 of 15
No
Yes
Drer\trim55a
2 of 15
No
Yes
Drer\trim55b
2 of 15
No
Yes
Drer\trim63a
2 of 15
No
Yes
Drer\trim63b
2 of 15
No
Yes
Drer\trim101
2 of 15
No
Yes
Drer\btr06
1 of 15
No
Yes
Drer\btr09
1 of 15
No
Yes
Drer\btr12
1 of 15
No
Yes
Drer\btr20
1 of 15
No
Yes
Drer\btr22
1 of 15
No
Yes
Drer\btr29
1 of 15
No
Yes
Drer\btr33
1 of 15
No
Yes
Drer\bty
1 of 15
No
Yes
Drer\ftr14
1 of 15
No
Yes
Drer\ftr24
1 of 15
No
Yes
Drer\ftr41
1 of 15
No
Yes
Drer\ftr43
1 of 15
No
Yes
Drer\ftr56
1 of 15
No
Yes
Drer\ftr70
1 of 15
No
Yes
Drer\ftr72
1 of 15
No
Yes
Drer\ftr73
1 of 15
No
Yes
Drer\ftr82
1 of 15
No
Yes
Drer\ftr83
1 of 15
No
Yes
Drer\ftr84
1 of 15
No
Yes
Drer\LOC558300
1 of 15
No
Yes
Drer\LOC100006839
1 of 15
No
Yes
Drer\si:ch73-106l15.2
1 of 15
No
Yes
Drer\si:ch73-166o21.1
1 of 15
No
Yes
Drer\si:ch211-12p12.2
1 of 15
No
Yes
Drer\si:ch211-175l6.2
1 of 15
No
Yes
Drer\si:ch211-216p19.6
1 of 15
No
Yes
Drer\si:ch211-276c2.4
1 of 15
No
Yes
Drer\si:ch1073-398f15.1
1 of 15
No
Yes
Drer\si:dkey-21p1.3
1 of 15
No
Yes
Drer\si:dkey-46i9.6
1 of 15
No
Yes
Drer\trim2a
1 of 15
No
No
Drer\trim3a
1 of 15
No
No
Drer\trim3b
1 of 15
No
No
Drer\trim8b
1 of 15
No
Yes
Drer\trim13
1 of 15
No
Yes
Drer\trim25
1 of 15
No
Yes
Drer\trim35-3
1 of 15
No
Yes
Drer\trim35-10
1 of 15
No
Yes
Drer\trim35-13
1 of 15
No
Yes
Drer\trim35-19
1 of 15
No
Yes
Drer\trim35-20
1 of 15
No
Yes
Drer\trim35-21
1 of 15
No
Yes
Drer\trim35-22
1 of 15
No
Yes
Drer\trim35-23
1 of 15
No
Yes
Drer\trim35-24
1 of 15
No
Yes
Drer\trim35-25
1 of 15
No
Yes
Drer\trim35-28
1 of 15
No
Yes
Drer\trim35-29
1 of 15
No
Yes
Drer\trim35-31
1 of 15
No
Yes
Drer\trim35-34
1 of 15
No
Yes
Drer\trim35-35
1 of 15
No
Yes
Drer\trim35-36
1 of 15
No
Yes
Drer\trim35-39
1 of 15
No
Yes
Drer\trim47
1 of 15
No
Yes
Drer\trim59
1 of 15
No
Yes
Drer\trim62
1 of 15
No
Yes
Drer\trim109
1 of 15
No
Yes
Drer\zgc:92594
1 of 15
No
Yes
Drer\zgc:136302
1 of 15
No
Yes
Drer\zgc:172170
1 of 15
No
Yes
Drer\zgc:173581
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\madd-2
14 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091903HP )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\Trim9
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00001833
Drosophila simulans
Dsim\GD23717
Drosophila sechellia
Dsec\GM18593
Drosophila erecta
Dere\GG23655
Drosophila yakuba
Dyak\GE18473
Drosophila ananassae
Dana\GF15809
Drosophila pseudoobscura pseudoobscura
Dpse\GA19383
Drosophila persimilis
Dper\GL26617
Drosophila willistoni
Dwil\GK14605
Drosophila virilis
Dvir\GJ23856
Drosophila mojavensis
Dmoj\GI23370
Drosophila grimshawi
Dgri\GH10418
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091504HS )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17004699
Musca domestica
House fly
Mdoa\17017202
Musca domestica
House fly
Mdoa\17019317
Glossina morsitans
Tsetse fly
Gmor\GMOY008494
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_05266
Mayetiola destructor
Hessian fly
Mdes\Mdes011325
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL002642
Anopheles darlingi
American malaria mosquito
Adar\ADAC006301
Anopheles gambiae
Malaria mosquito
Agam\AGAP008750
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ006598
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ006597
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W01QS )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA010615
Danaus plexippus
Monarch butterfly
Dple\DPOGS213702-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL016417
Apis florea
Little honeybee
Aflo\2736854388
Apis mellifera
Western honey bee
Amel\GB44072
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP21357
Bombus terrestris
Buff-tailed bumblebee
Bter\15215816
Linepithema humile
Argentine ant
Lhum\LH16780
Linepithema humile
Argentine ant
Lhum\LH16782
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:00217c
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010571
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_01282
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_01255
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_00910
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_04989
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_04988
Tribolium castaneum
Red flour beetle
Tcas\GLEAN_07563
Pediculus humanus
Human body louse
Phum\PHUM349810
Rhodnius prolixus
Kissing bug
Rpro\RPRC008546
Rhodnius prolixus
Kissing bug
Rpro\RPRC013563
Rhodnius prolixus
Kissing bug
Rpro\RPRC005584
Cimex lectularius
Bed bug
Clec\CLEC006500
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI23114
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI007249
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_17560
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X01OS )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR009008
Strigamia maritima
European centipede
Smar\SMAR009007
Strigamia maritima
European centipede
Smar\SMAR009005
Strigamia maritima
European centipede
Smar\SMAR009014
Strigamia maritima
European centipede
Smar\SMAR009010
Strigamia maritima
European centipede
Smar\SMAR013971
Ixodes scapularis
Black-legged tick
Isca\ISCW017399
Ixodes scapularis
Black-legged tick
Isca\ISCW017400
Stegodyphus mimosarum
African social velvet spider
Smim\KFM69617.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM69616.1
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_225606
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0PBB )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-trim9
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-trimL_1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000025035
Gallus gallus
Domestic chicken
Ggal\TRIM67
Gallus gallus
Domestic chicken
Ggal\TRIM9
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (1)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
mtgo
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 ( 2 )
    Human Ortholog
    Disease
    Evidence
    References
    TRIM36; tripartite motif containing 36
    model of  anencephaly
    IEA
    (FlyBase, 2019-)
    MID1; midline 1
    model of  Opitz-GBBB syndrome
    IEA
    (FlyBase, 2019-)
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v7.1 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?
    TRIM9; tripartite motif containing 9
    14 of 15
    606555
        TRIM67; tripartite motif containing 67
        13 of 15
        610584
            FSD1; fibronectin type III and SPRY domain containing 1
            3 of 15
            609828
                FSD1L; fibronectin type III and SPRY domain containing 1 like
                3 of 15
                609829
                    MID1; midline 1
                    3 of 15
                    300552
                    MID2; midline 2
                    3 of 15
                    300204
                      TRIM36; tripartite motif containing 36
                      3 of 15
                      609317
                      TRIM46; tripartite motif containing 46
                      3 of 15
                      600986
                          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
                          Trim9 - fra
                          two hybrid
                          (Morikawa et al., 2011)
                          Trim9 - pico
                          two hybrid, anti tag coimmunoprecipitation, anti tag western blot
                          (Morikawa et al., 2011)
                          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
                          Trim9
                          suppressible
                          fra
                          (Morikawa et al., 2011, Song et al., 2011)
                          Trim9
                          enhanceable
                          fra
                          (Song et al., 2011)
                          Trim9
                          enhanceable
                          fra|robo1
                          (Song et al., 2011)
                          Trim9
                          suppressible
                          robo1
                          (Song et al., 2011)
                          Starting gene(s)
                          Interaction type
                          Interacting gene(s)
                          Reference
                          External Data
                          Subunit Structure (UniProtKB)
                          Interacts (via fibronectin type-III domain) with pico. Interacts (via SPRY domain) with netrin receptor fra.
                          (UniProt, M9MRI4 )
                          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
                          Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
                          Genomic Location and Detailed Mapping Data
                          Chromosome (arm)
                          2L
                          Recombination map

                          2-43

                          Cytogenetic map
                          31F5-32A2
                          Sequence location
                          2L:10,544,883..10,628,054 [+]
                          FlyBase Computed Cytological Location
                          Cytogenetic map
                          Evidence for location
                          31F5-32A2
                          Limits computationally determined from genome sequence between P{lacW}l(2)k09116k09116&P{lacW}Fatpk10307 and P{PZ}dbf1
                          Experimentally Determined Cytological Location
                          Cytogenetic map
                          Notes
                          References
                          Experimentally Determined Recombination Data
                          Location

                          2-43

                          (FlyBase, 2016)

                          2-36.0

                          (Comeron et al., 2012)
                          Left of (cM)
                          Right of (cM)
                          Notes
                          Stocks and Reagents
                          Stocks (15)
                          Genomic Clones (73)
                          cDNA Clones (24)
                           

                          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 sequences
                          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

                          (Morikawa et al., 2011)
                          Commercially Available Antibodies
                           
                          Other Information
                          Relationship to Other Genes
                          Source for database identify of

                          Source for identity of: Trim9 CG31721

                          (FlyBase, 1996-)
                          Source for database merge of

                          Source for merge of: CG13145 CG6256

                          (FlyBase Genome Annotators, 2002-2003)
                          Additional comments

                          Annotations CG13145 and CG6256 merged as CG31721 in release 3 of the genome annotation.

                          (FlyBase Genome Annotators, 2002-2003)

                          Source for identity of Trim9 CG31721 was sequence comparison ( date:030807 ).

                          (FlyBase, 1996-)
                          Other Comments

                          Trim9 functions cell autonomously in midline guidance.

                          (Song et al., 2011)

                          One of 42 Drosophila genes identified as being most likely to reveal molecular and cellular mechanisms of nervous system development or plasticity relevant to human Mental Retardation disorders.

                          (Inlow and Restifo, 2004)
                          Origin and Etymology
                          Discoverer
                          Etymology
                          Identification
                          External Crossreferences and Linkouts ( 49 )
                          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.
                          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
                          Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
                          Synonyms and Secondary IDs (9)
                          Datasets (0)
                          Study focus (0)
                          Experimental Role
                          Project
                          Project Type
                          Title
                          References (67)