FlyBase Gene Report: Dmel\Trim9

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 Summary

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] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

dTrim9, asap

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

JBrowse GBrowse

Help me choose

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (13 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables 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

enables ubiquitin protein ligase activity

inferred from sequence or structural similarity with UniProtKB:Q9C026

(FlyBase Curators, 2008-)

enables 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

involved_in axon guidance

inferred from mutant phenotype

(Song et al., 2011)

involved_in axon midline choice point recognition

inferred from mutant phenotype

(Song et al., 2011)

inferred from mutant phenotype

(assigned by UniProt )

(Yang et al., 2014, Morikawa et al., 2011)

involved_in axonogenesis

inferred from mutant phenotype

(Morikawa et al., 2011)

involved_in 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)

involved_in 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)

involved_in 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)

involved_in 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)

involved_in 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

involved_in proteasome-mediated ubiquitin-dependent protein catabolic process

inferred from sequence or structural similarity with HGNC:16288

(Song et al., 2011)

Cellular Component (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in 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 (0 terms)

Gene Group (FlyBase)

TRIM UBIQUITIN LIGASES

Protein Family (UniProt)

Belongs to the TRIM/RBCC family. (M9MRI4)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

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

Number of Unique Polypeptides

Please see 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

Structure New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry M9MRI4)

If you don't see the viewer to the right, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

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

Nucleotide / Polypeptide Records

UniProt

M9MRI4

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.

Trim9_1

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 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)

larval 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

larval dorsal multidendritic neuron ddaC

(Morikawa et al., 2011)

larval ventral multidendritic neuron vdaB

(Morikawa et al., 2011)

embryonic stage 15 -- 17

larval multidendritic class IV neuron

(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

located_in 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

Reporter: P{GawB}Trim9^NP4638

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

larval multidendritic class IV neuron | subset

(Song et al., 2011)

larval dorsal multidendritic neuron ddaC

(Song et al., 2011)

abdominal anterior ventral multidendritic neuron vdaa

(Song et al., 2011)

larval ventral multidendritic neuron vdaB

(Song et al., 2011)

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

View exonic expression by developmental stage for Dmel\Trim9

View exonic expression by tissue for Dmel\Trim9

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

FBgn0051721

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

34453/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0051721

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0051721

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0051721

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG31721

Flygut - An atlas of the Drosophila adult midgut

FBgn0051721

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Trim9

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, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 22 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 13 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Trim9

Transgenic constructs containing regulatory region of Trim9

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2L)Exel8026

(Ryder, 2004.4.26)

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal

Trim9^GD10343

lethal | recessive

Trim9^{MI12525-FF.GT-mCh}

viable

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Trim9^GD10343

viable, with Scer\GAL4^pnr-MD237

Trim9^GD10343

viable, with Scer\GAL4^tin.CΔ4

Trim9^GD10343

Sterility

Allele

fertile

Other Phenotypes

Allele

abnormal locomotor behavior | third instar larval stage

Trim9⁹¹

abnormal neuroanatomy

Trim9⁴⁶

abnormal neuroanatomy | embryonic stage

abnormal neuroanatomy | embryonic stage (with Df(2L)Exel8026)

abnormal neuroanatomy | larval stage

abnormal neuroanatomy | larval stage (with Df(2L)Exel8026)

abnormal neuroanatomy | somatic clone

Trim9^unspecified

abnormal neuroanatomy | somatic clone, with Scer\GAL4^ppk.PU

Trim9^UAS.cMa

abnormal neuroanatomy | somatic clone | third instar larval stage, with Scer\GAL4^ppk.PG

Trim9^UAS.Tag:HA

abnormal neuroanatomy | third instar larval stage

abnormal neuroanatomy | third instar larval stage (with Df(2L)Exel8026)

visible, with Scer\GAL4^pnr-MD237

Trim9^GD10343

Phenotype manifest in

Allele

abdominal anterior ventral multidendritic neuron vdaa | somatic clone | third instar larval stage, with Scer\GAL4^ppk.PG

Trim9^UAS.Tag:HA

commissure

Trim9⁴⁶

dendritic branch | larval stage, with Scer\GAL4²²¹

dopaminergic neuron

Trim9⁴⁶

ganglion mother cell | larval stage

Trim9^GD10343

larval dorsal multidendritic neuron ddaC | third instar larval stage (with Df(2L)Exel8026)

Trim9⁹¹

larval dorsal multidendritic neuron ddaE, with Scer\GAL4²²¹

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

Trim9^unspecified

larval ventral multidendritic neuron vdaB | somatic clone, with Scer\GAL4^ppk.PU

Trim9^UAS.cMa

larval ventral multidendritic neuron vdaB | third instar larval stage (with Df(2L)Exel8026)

Trim9⁹¹

larval ventral nerve cord commissure (with Df(2L)Exel8026)

Trim9^f00152

larval ventral nerve cord commissure | ectopic | somatic clone | third instar larval stage, with Scer\GAL4^ppk.PG

Trim9^UAS.Tag:HA

larval ventral nerve cord commissure | embryonic stage

larval ventral nerve cord commissure | embryonic stage (with Df(2L)Exel8026)

larval ventral nerve cord commissure | third instar larval stage

larval ventral nerve cord commissure | third instar larval stage (with Df(2L)Exel8026)

microtubule plus-end | larval stage, with Scer\GAL4²²¹

trichogen cell, with Scer\GAL4^pnr-MD237

Trim9^GD10343

wing

Trim9⁴⁶

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (32)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\TRIM9

12 of 15

Yes

Hsap\TRIM67

11 of 15

Yes

Hsap\FSD1

2 of 15

Yes

Hsap\FSD1L

2 of 15

Yes

Hsap\FSD2

2 of 15

Yes

Hsap\MID1

2 of 15

Yes

Hsap\MID2

2 of 15

Yes

Hsap\TRIM36

2 of 15

Yes

Hsap\TRIM46

2 of 15

Yes

Hsap\CMYA5

1 of 15

Yes

Hsap\RNF207

1 of 15

Yes

Hsap\TRIM2

1 of 15

Hsap\TRIM3

1 of 15

Hsap\TRIM5

1 of 15

Yes

Hsap\TRIM10

1 of 15

Yes

Hsap\TRIM14

1 of 15

Yes

Hsap\TRIM17

1 of 15

Yes

Hsap\TRIM22

1 of 15

Yes

Hsap\TRIM25

1 of 15

Yes

Hsap\TRIM27

1 of 15

Yes

Hsap\TRIM31

1 of 15

Yes

Hsap\TRIM38

1 of 15

Yes

Hsap\TRIM42

1 of 15

Yes

Hsap\TRIM50

1 of 15

Yes

Hsap\TRIM54

1 of 15

Yes

Hsap\TRIM55

1 of 15

Yes

Hsap\TRIM59

1 of 15

Hsap\TRIM60

1 of 15

Yes

Hsap\TRIM62

1 of 15

Yes

Hsap\TRIM63

1 of 15

Yes

Hsap\TRIM69

1 of 15

Yes

Hsap\TRIM75P

1 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (32)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Trim9

12 of 15

Yes

Mmus\Trim67

11 of 15

Yes

Mmus\Fsd1l

2 of 15

Yes

Mmus\Fsd1

2 of 15

Yes

Mmus\Fsd2

2 of 15

Yes

Mmus\Mid1

2 of 15

Yes

Mmus\Mid2

2 of 15

Yes

Mmus\Trim36

2 of 15

Yes

Mmus\Trim46

2 of 15

Yes

Mmus\Cmya5

1 of 15

Yes

Mmus\Rnf207

1 of 15

Yes

Mmus\Trim2

1 of 15

Mmus\Trim3

1 of 15

Mmus\Trim8

1 of 15

Yes

Mmus\Trim12c

1 of 15

Yes

Mmus\Trim13

1 of 15

Yes

Mmus\Trim14

1 of 15

Yes

Mmus\Trim16

1 of 15

Yes

Mmus\Trim17

1 of 15

Yes

Mmus\Trim25

1 of 15

Yes

Mmus\Trim30a

1 of 15

Yes

Mmus\Trim31

1 of 15

Yes

Mmus\Trim38

1 of 15

Yes

Mmus\Trim42

1 of 15

Yes

Mmus\Trim50

1 of 15

Yes

Mmus\Trim54

1 of 15

Yes

Mmus\Trim55

1 of 15

Yes

Mmus\Trim59

1 of 15

Mmus\Trim62

1 of 15

Yes

Mmus\Trim69

1 of 15

Yes

Mmus\Trim75

1 of 15

Yes

Mmus\Trim80

1 of 15

Yes

Rattus norvegicus (Norway rat) (23)

Rnor\Trim67

10 of 13

Yes

Rnor\Trim9

8 of 13

Yes

Rnor\Fsd2

2 of 13

Yes

Rnor\Mid1

2 of 13

Yes

Rnor\Trim36

2 of 13

Yes

Rnor\Cmya5

1 of 13

Yes

Rnor\Fsd1l

1 of 13

Yes

Rnor\Fsd1

1 of 13

Yes

Rnor\Mid2

1 of 13

Yes

Rnor\Rnf207

1 of 13

Yes

Rnor\Trim2

1 of 13

Rnor\Trim3

1 of 13

Rnor\Trim5

1 of 13

Yes

Rnor\Trim17

1 of 13

Yes

Rnor\Trim25

1 of 13

Yes

Rnor\Trim39

1 of 13

Yes

Rnor\Trim42

1 of 13

Yes

Rnor\Trim46

1 of 13

Yes

Rnor\Trim50

1 of 13

Yes

Rnor\Trim54

1 of 13

Yes

Rnor\Trim55

1 of 13

Yes

Rnor\Trim59

1 of 13

Rnor\Trim69

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (6)

Xtro\trim9

6 of 12

Yes

Xtro\trim67

5 of 12

Yes

Xtro\fsd1l

1 of 12

Yes

Xtro\fsd2

1 of 12

Yes

Xtro\mid1

1 of 12

Yes

Xtro\trim36

1 of 12

Yes

Danio rerio (Zebrafish) (76)

Drer\trim9

10 of 15

Yes

Drer\trim67

10 of 15

Yes

Drer\cmya5

2 of 15

Yes

Drer\fsd1

2 of 15

Yes

Drer\mid1

2 of 15

Yes

Drer\mid2

2 of 15

Yes

Drer\trim36

2 of 15

Yes

Drer\trim46a

2 of 15

Yes

Drer\trim46b

2 of 15

Yes

Drer\btr06

1 of 15

Yes

Drer\btr09

1 of 15

Yes

Drer\btr12

1 of 15

Yes

Drer\btr20

1 of 15

Yes

Drer\btr22

1 of 15

Yes

Drer\btr29

1 of 15

Yes

Drer\btr33

1 of 15

Yes

Drer\bty

1 of 15

Yes

Drer\fsd1l

1 of 15

Yes

Drer\ftr14

1 of 15

Yes

Drer\ftr20

1 of 15

Drer\ftr41

1 of 15

Yes

Drer\ftr43

1 of 15

Yes

Drer\ftr56

1 of 15

Yes

Drer\ftr70

1 of 15

Yes

Drer\ftr72

1 of 15

Yes

Drer\ftr73

1 of 15

Yes

Drer\ftr81

1 of 15

Yes

Drer\ftr82

1 of 15

Yes

Drer\ftr83

1 of 15

Yes

Drer\ftr84

1 of 15

Yes

Drer\LOC558300

1 of 15

Yes

Drer\LOC100006839

1 of 15

Yes

Drer\si:ch73-106l15.2

1 of 15

Yes

Drer\si:ch211-12p12.2

1 of 15

Yes

Drer\si:ch211-175l6.2

1 of 15

Yes

Drer\si:ch211-216p19.6

1 of 15

Yes

Drer\si:ch211-276c2.4

1 of 15

Yes

Drer\si:dkey-46i9.6

1 of 15

Yes

Drer\spryd4

1 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

Yes

Drer\trim13

1 of 15

Yes

Drer\trim25

1 of 15

Yes

Drer\trim35-3

1 of 15

Yes

Drer\trim35-4

1 of 15

Yes

Drer\trim35-10

1 of 15

Yes

Drer\trim35-13

1 of 15

Yes

Drer\trim35-19

1 of 15

Yes

Drer\trim35-20

1 of 15

Yes

Drer\trim35-21

1 of 15

Yes

Drer\trim35-22

1 of 15

Yes

Drer\trim35-23

1 of 15

Yes

Drer\trim35-24

1 of 15

Yes

Drer\trim35-25

1 of 15

Yes

Drer\trim35-28

1 of 15

Yes

Drer\trim35-29

1 of 15

Yes

Drer\trim35-31

1 of 15

Yes

Drer\trim35-34

1 of 15

Yes

Drer\trim35-35

1 of 15

Yes

Drer\trim35-36

1 of 15

Yes

Drer\trim35-39

1 of 15

Yes

Drer\trim47

1 of 15

Yes

Drer\trim54

1 of 15

Yes

Drer\trim55a

1 of 15

Yes

Drer\trim55b

1 of 15

Yes

Drer\trim59

1 of 15

Yes

Drer\trim62.1

1 of 15

Yes

Drer\trim63a

1 of 15

Yes

Drer\trim63b

1 of 15

Yes

Drer\trim101

1 of 15

Yes

Drer\trim109

1 of 15

Yes

Drer\zgc:92594

1 of 15

Yes

Drer\zgc:172170

1 of 15

Yes

Drer\zgc:173581

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\madd-2

13 of 15

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.

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (6)

Gene Symbol

Score

Source

Alignment

1 of 10

1 of 10

1 of 10

1 of 10

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?

TRIM9; tripartite motif containing 9

12 of 15

606555

TRIM67; tripartite motif containing 67

11 of 15

610584

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

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

anti tag coimmunoprecipitation, anti tag western blot, two hybrid

(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

enhanceable

fra

(Song et al., 2011)

Trim9

suppressible

fra

(Morikawa et al., 2011, 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

suppressible

(Ham et al., 2021)

suppressible

(Ham et al., 2021)

suppressible

(Ham et al., 2021)

suppressible

(Ham et al., 2021)

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.

60532

DroID - A comprehensive database of gene and protein interactions.

FBgn0051721

MIST (genetic) - An integrated Molecular Interaction Database

Trim9

MIST (protein-protein) - An integrated Molecular Interaction Database

Trim9

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0051721

External Data

Linkouts

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Genomic Location and Detailed Mapping Data

Chromosome (arm)

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)k09116^k09116&P{lacW}Fatp^k10307 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)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

44178

y¹ w^*; Mi{MIC}Trim9^MI07192

58593

y¹ w^*; Mi{MIC}Trim9^MI12525

40767

y¹ w^*; Mi{MIC}Trim9^MI04215/SM6a

13540

y¹ w^67c23; P{SUPor-P}Trim9^KG05017

23451

w¹¹¹⁸; Mi{ET1}CG6138^MB02537 Trim9^MB02537

77463

y¹ w^*; Mi{FlipFlop.0}Trim9^{MI12525-FF.GT-mCh}/CyO

77462

y¹ w^*; Mi{FlipFlop.0}Trim9^{MI12525-FF.PT-EGFP}/CyO

58029

y¹ w^*; Mi{MIC}Trim9^MI13171 CG34161^MI13171

Kyoto

104724

w^*; P{GawB}Trim9^NP4638 / CyO

VDRC

v100767

P{KK108524}VIE-260B

v21405

w¹¹¹⁸; P{GD10343}v21405

v21406

w¹¹¹⁸; P{GD10343}v21406

More stocks available...

Genomic Clones (73)

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

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 sequenced

BDGP DGC clones

RE22018

Other clones

MIP35207

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.

FBgn0051721

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0051721

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

34453

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 ( 55 )

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.

34453

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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

M9MRI4

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

M9MRI4

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

M9MRI4

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0051721

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0051721

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

34453/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0051721

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Trim9_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0051721

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0051721

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG31721

Flygut - An atlas of the Drosophila adult midgut

FBgn0051721

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0051721

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

34453

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC007563

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG31721

MARRVEL_MODEL - MARRVEL (model organism gene)

34453

modMine - A data warehouse for the modENCODE project

FBgn0051721

Linkouts

BioGRID - A database of protein and genetic interactions.

60532

DroID - A comprehensive database of gene and protein interactions.

FBgn0051721

DRSC - Results frm RNAi screens

FBgn0051721

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0051721

FlyMine - An integrated database for Drosophila genomics

FBgn0051721

MIST (genetic) - An integrated Molecular Interaction Database

Trim9

MIST (protein-protein) - An integrated Molecular Interaction Database

Trim9

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Synonyms and Secondary IDs (11)

Reported As

Symbol Synonym

Asap

(Morikawa et al., 2011)

CG13145

CG31721

(Neuert et al., 2017, Hosono et al., 2015, Marin, 2012, Morikawa et al., 2011, Ying et al., 2011, Keleman et al., 2009.8.5, Sardiello et al., 2008, Burnette et al., 2005, Cygnar et al., 2005, Inlow and Restifo, 2004, Giot et al., 2003)

CG6256

(Brody et al., 2002, Li et al., 2001)

TRIM9

(Ham et al., 2021)