Igsf9 immunoglobulin superfamily, member 9 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Igsf9provided by MGI
Official Full Name: immunoglobulin superfamily, member 9provided by MGI
Primary source: MGI:MGI:2135283
See related: Ensembl:ENSMUSG00000037995 AllianceGenome:MGI:2135283
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: NRT1; Dasm1; Ncaml; 644ETD8; mKIAA1355; Kiaa1355-hp
Summary: Enables cell-cell adhesion mediator activity. Acts upstream of or within dendrite development; homophilic cell adhesion via plasma membrane adhesion molecules; and regulation of synapse organization. Located in axon; dendrite; and inhibitory synapse. Is expressed in several structures, including alimentary system; central nervous system; limb; sensory organ; and urinary system. Orthologous to human IGSF9 (immunoglobulin superfamily member 9). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in duodenum adult (RPKM 132.1), small intestine adult (RPKM 112.2) and 10 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 H3; 1 79.86 cM

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (172307616..172326444)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (172481573..172498877)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

MRCKbeta links Dasm1 to actin rearrangements to promote dendrite development.
Title: MRCKβ links Dasm1 to actin rearrangements to promote dendrite development.
These results provide genetic evidence for a specific role of IgSF9 in inhibitory synapse development/maintenance, presumably by its cell adhesion molecule-like activity.
Title: Genetic evidence for the adhesion protein IgSF9/Dasm1 to regulate inhibitory synapse development independent of its intracellular domain.
dendrite arborization phenotype was caused by off-target effects and that Dasm-1 is dispensable for hippocampal dendrite arborization
Title: The protein dendrite arborization and synapse maturation 1 (Dasm-1) is dispensable for dendrite arborization.
Review. Dasm1, a protein likely to function as a neuronal cell-surface receptor, plays an important role in both shaping the dendritic tree and affecting the fraction of electrically active glutamatergic synapses.
Title: Dasm1: a receptor that shapes neuronal dendrites and turns on silent synapses?

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Gene trapped (1)
Targeted (2) 1 citation

General gene information

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Markers

Igsf9 (e-PCR), detects polymorphism
- UniSTS:547988

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables cell-cell adhesion mediator activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within dendrite development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of synapse maturation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IMP Inferred from Mutant Phenotype more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
located_in inhibitory synapse	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protein turtle homolog A

Names: NCAM-like protein NRT1; dendrite arborization and synapse maturation protein 1; igSF9A; immunoglobulin superfamily member 9A

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001145800.1 → NP_001139272.1 protein turtle homolog A precursor

See identical proteins and their annotated locations for NP_001139272.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants encode the same protein.

Source sequence(s)

AC121551, BC040281

Consensus CDS

CCDS15515.1

UniProtKB/Swiss-Prot

Q05BQ1, Q8R1J8, Q925P4

Related

ENSMUSP00000058275.7, ENSMUST00000052629.13

Conserved Domains (5) summary

smart00410
Location:28 → 110

IG_like; Immunoglobulin like

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:436 → 500

Ig; Immunoglobulin domain

pfam13927
Location:227 → 305

Ig_3; Immunoglobulin domain

cl11960
Location:136 → 223

Ig; Immunoglobulin domain
NM_033608.3 → NP_291086.2 protein turtle homolog A precursor

See identical proteins and their annotated locations for NP_291086.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Both variants encode the same protein.

Source sequence(s)

AC121551, BC040281

Consensus CDS

CCDS15515.1

UniProtKB/Swiss-Prot

Q05BQ1, Q8R1J8, Q925P4

Related

ENSMUSP00000106866.3, ENSMUST00000111235.8

Conserved Domains (5) summary

smart00410
Location:28 → 110

IG_like; Immunoglobulin like

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:436 → 500

Ig; Immunoglobulin domain

pfam13927
Location:227 → 305

Ig_3; Immunoglobulin domain

cl11960
Location:136 → 223

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000067.7 Reference GRCm39 C57BL/6J

Range

172307616..172326444

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036154500.1 → XP_036010393.1 protein turtle homolog A isoform X2

Conserved Domains (6) summary

smart00409
Location:28 → 110

IG; Immunoglobulin

PHA03247
Location:939 → 1128

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:226 → 305

Ig_3; Immunoglobulin domain

cd00096
Location:228 → 231

Ig; Ig strand A [structural motif]

cl11960
Location:136 → 223

Ig; Immunoglobulin domain
XM_030243785.2 → XP_030099645.1 protein turtle homolog A isoform X1

UniProtKB/Swiss-Prot

Q05BQ1, Q8R1J8, Q925P4

Conserved Domains (5) summary

smart00410
Location:28 → 110

IG_like; Immunoglobulin like

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:436 → 500

Ig; Immunoglobulin domain

pfam13927
Location:227 → 305

Ig_3; Immunoglobulin domain

cl11960
Location:136 → 223

Ig; Immunoglobulin domain
XM_006497056.5 → XP_006497119.1 protein turtle homolog A isoform X1

See identical proteins and their annotated locations for XP_006497119.1

UniProtKB/Swiss-Prot

Q05BQ1, Q8R1J8, Q925P4

Conserved Domains (5) summary

smart00410
Location:28 → 110

IG_like; Immunoglobulin like

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:436 → 500

Ig; Immunoglobulin domain

pfam13927
Location:227 → 305

Ig_3; Immunoglobulin domain

cl11960
Location:136 → 223

Ig; Immunoglobulin domain
XM_030243786.1 → XP_030099646.1 protein turtle homolog A isoform X3

Conserved Domains (4) summary

cd00063
Location:562 → 652

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:163 → 242

Ig_3; Immunoglobulin domain

cd00096
Location:165 → 168

Ig; Ig strand A [structural motif]

cl11960
Location:73 → 160

Ig; Immunoglobulin domain
XM_036154499.1 → XP_036010392.1 protein turtle homolog A isoform X2

Conserved Domains (6) summary

smart00409
Location:28 → 110

IG; Immunoglobulin

PHA03247
Location:939 → 1128

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:625 → 715

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:226 → 305

Ig_3; Immunoglobulin domain

cd00096
Location:228 → 231

Ig; Ig strand A [structural motif]

cl11960
Location:136 → 223

Ig; Immunoglobulin domain
XM_006497057.2 → XP_006497120.1 protein turtle homolog A isoform X3

Conserved Domains (4) summary

cd00063
Location:562 → 652

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:163 → 242

Ig_3; Immunoglobulin domain

cd00096
Location:165 → 168

Ig; Ig strand A [structural motif]

cl11960
Location:73 → 160

Ig; Immunoglobulin domain
XM_036154506.1 → XP_036010399.1 protein turtle homolog A isoform X4

Conserved Domains (4) summary

cd00063
Location:498 → 588

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:99 → 178

Ig_3; Immunoglobulin domain

cd00096
Location:101 → 104

Ig; Ig strand A [structural motif]

cl11960
Location:9 → 96

Ig; Immunoglobulin domain
XM_036154505.1 → XP_036010398.1 protein turtle homolog A isoform X3

Conserved Domains (4) summary

cd00063
Location:562 → 652

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13927
Location:163 → 242

Ig_3; Immunoglobulin domain

cd00096
Location:165 → 168

Ig; Ig strand A [structural motif]

cl11960
Location:73 → 160

Ig; Immunoglobulin domain