Igsf9b immunoglobulin superfamily, member 9B [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Igsf9bprovided by MGI
Official Full Name: immunoglobulin superfamily, member 9Bprovided by MGI
Primary source: MGI:MGI:2685354
See related: Ensembl:ENSMUSG00000034275 AllianceGenome:MGI:2685354
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: Gm508; AI854107; mKIAA1030
Summary: Enables kinase binding activity. Involved in synaptic membrane adhesion. Acts upstream of or within homophilic cell adhesion via plasma membrane adhesion molecules and positive regulation of inhibitory postsynaptic potential. Located in several cellular components, including GABA-ergic synapse; inhibitory synapse; and neuronal cell body. Is expressed in hippocampus CA1. Orthologous to human IGSF9B (immunoglobulin superfamily member 9B). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in cerebellum adult (RPKM 6.7), cortex adult (RPKM 5.5) and 19 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 A4; 9 12.69 cM

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (27210400..27268845)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (27299104..27357549)

Chromosome 9 - NC_000075.7 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?

Prickle2 and Igsf9b Coordinately Regulate the Cytoarchitecture of the Axon Initial Segment.
Title: Prickle2 and Igsf9b Coordinately Regulate the Cytoarchitecture of the Axon Initial Segment.
IgSF9b is a key regulator of inhibition in the amygdala and IgSF9b-expressing synapses in the CeM may represent a target for anxiolytic therapies.
Title: IgSF9b regulates anxiety behaviors through effects on centromedial amygdala inhibitory synapses.
Here we report that IgSF9b is a novel, brain-specific, homophilic adhesion molecule that is strongly expressed in GABAergic interneurons.
Title: The adhesion protein IgSF9b is coupled to neuroligin 2 via S-SCAM to promote inhibitory synapse development.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (2)
Gene trapped (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables kinase binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of inhibitory postsynaptic potential	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synaptic membrane adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in synaptic membrane adhesion	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in GABA-ergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in inhibitory synapse	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic specialization of symmetric synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protein turtle homolog B

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_001326702.1 → NP_001313631.1 protein turtle homolog B isoform 2 precursor

Status: VALIDATED

Source sequence(s)

AC117198, AC154374

Consensus CDS

CCDS52746.2

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

UniProtKB/TrEMBL

A0A1L1SR84

Related

ENSMUSP00000149356.2, ENSMUST00000214357.2

Conserved Domains (6) summary

cd00063
Location:510 → 605

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 ...

pfam07679
Location:139 → 225

I-set; Immunoglobulin I-set domain

pfam13927
Location:228 → 307

Ig_3; Immunoglobulin domain

cd00096
Location:438 → 502

Ig; Immunoglobulin domain

cl11960
Location:353 → 414

Ig; Immunoglobulin domain

cl26464
Location:898 → 1246

Atrophin-1; Atrophin-1 family
NM_001384263.1 → NP_001371192.1 protein turtle homolog B isoform 3 precursor

Status: VALIDATED

Source sequence(s)

AC117198, AC154374

UniProtKB/TrEMBL

D3Z169

Related

ENSMUSP00000110902.2, ENSMUST00000115247.8

Conserved Domains (5) summary

cd00063
Location:510 → 601

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 ...

pfam07679
Location:139 → 225

I-set; Immunoglobulin I-set domain

pfam13927
Location:228 → 307

Ig_3; Immunoglobulin domain

cd00096
Location:139 → 142

Ig; Ig strand A [structural motif]

cl11960
Location:429 → 505

Ig; Immunoglobulin domain
NM_001384264.1 → NP_001371193.1 protein turtle homolog B isoform 4 precursor

Status: VALIDATED

Source sequence(s)

AC117198, AC154374

Conserved Domains (4) summary

pfam07679
Location:139 → 225

I-set; Immunoglobulin I-set domain

pfam13927
Location:228 → 307

Ig_3; Immunoglobulin domain

cd00096
Location:139 → 142

Ig; Ig strand A [structural motif]

cl11960
Location:429 → 505

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_000075.7 Reference GRCm39 C57BL/6J

Range

27210400..27268845

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006510195.4 → XP_006510258.1 protein turtle homolog B isoform X3

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:894 → 1242

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:510 → 601

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:438 → 502

Ig; Immunoglobulin domain

pfam07679
Location:139 → 225

I-set; Immunoglobulin I-set domain

cl11960
Location:229 → 321

Ig; Immunoglobulin domain
XM_030244284.1 → XP_030100144.1 protein turtle homolog B isoform X7

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:782 → 1130

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:394 → 489

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:322 → 386

Ig; Immunoglobulin domain

pfam07679
Location:23 → 109

I-set; Immunoglobulin I-set domain

cl11960
Location:113 → 205

Ig; Immunoglobulin domain
XM_011242481.2 → XP_011240783.1 protein turtle homolog B isoform X6

See identical proteins and their annotated locations for XP_011240783.1

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:868 → 1346

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:512 → 607

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:440 → 504

Ig; Immunoglobulin domain

pfam07679
Location:141 → 227

I-set; Immunoglobulin I-set domain

cl11960
Location:231 → 323

Ig; Immunoglobulin domain
XM_011242475.1 → XP_011240777.1 protein turtle homolog B isoform X1

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:900 → 1248

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:512 → 607

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:440 → 504

Ig; Immunoglobulin domain

pfam07679
Location:141 → 227

I-set; Immunoglobulin I-set domain

cl11960
Location:231 → 323

Ig; Immunoglobulin domain
XM_011242479.1 → XP_011240781.1 protein turtle homolog B isoform X5

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:868 → 1351

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:512 → 607

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:440 → 504

Ig; Immunoglobulin domain

pfam07679
Location:141 → 227

I-set; Immunoglobulin I-set domain

cl11960
Location:231 → 323

Ig; Immunoglobulin domain
XM_011242477.1 → XP_011240779.1 protein turtle homolog B isoform X4

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:887 → 1235

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:512 → 607

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:440 → 504

Ig; Immunoglobulin domain

pfam07679
Location:141 → 227

I-set; Immunoglobulin I-set domain

cl11960
Location:231 → 323

Ig; Immunoglobulin domain
XM_011242476.1 → XP_011240778.1 protein turtle homolog B isoform X2

UniProtKB/Swiss-Prot

E9PZ19, Q5DU06

Conserved Domains (5) summary

PHA03247
Location:896 → 1244

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:512 → 603

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:440 → 504

Ig; Immunoglobulin domain

pfam07679
Location:141 → 227

I-set; Immunoglobulin I-set domain

cl11960
Location:231 → 323

Ig; Immunoglobulin domain
XM_017313303.1 → XP_017168792.1 protein turtle homolog B isoform X8

Conserved Domains (2) summary

PHA03247
Location:303 → 651

PHA03247; large tegument protein UL36; Provisional

cd00063
Location:26 → 108

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 ...

RNA

XR_004935397.1 RNA Sequence
XR_003947865.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001033323.3: Suppressed sequence

Description

NM_001033323.3: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
NM_001129787.1: Suppressed sequence

Description

NM_001129787.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
NR_027907.1: Suppressed sequence

Description

NR_027907.1: This RefSeq was removed because it is primarily UTR sequence.