Sema5b MGI Mouse Gene Detail - MGI:107555 - sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5B

Symbol

Sema5b
Name

sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5B
Synonyms

mKIAA1445, Semag, SemG, SemG

Feature Type

protein coding gene
IDs

MGI:107555
NCBI Gene: 20357
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr16:35361517-35485103 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 16, 25.37 cM
Mapping Data

1 experiment

SNPs within 2kb

3429 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_107555	protein coding gene	Chr16:35361515-35485103 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0022769	protein coding gene	Chr16:33855597-33997153 (+)
A/J	MGP_AJ_G0022734	protein coding gene	Chr16:32217263-32345607 (+)
AKR/J	MGP_AKRJ_G0022707	protein coding gene	Chr16:33341500-33470710 (+)
BALB/cJ	MGP_BALBcJ_G0022736	protein coding gene	Chr16:32348980-32473808 (+)
C3H/HeJ	MGP_C3HHeJ_G0022501	protein coding gene	Chr16:33488800-33615058 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0023185	protein coding gene	Chr16:34580678-34726585 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0020703	protein coding gene	Chr16:32579813-32702645 (+)
CAST/EiJ	MGP_CASTEiJ_G0022029	protein coding gene	Chr16:33697210-33827970 (+)
CBA/J	MGP_CBAJ_G0022471	protein coding gene	Chr16:35991841-36137954 (+)
DBA/2J	MGP_DBA2J_G0022604	protein coding gene	Chr16:32046464-32172097 (+)
FVB/NJ	MGP_FVBNJ_G0022579	protein coding gene	Chr16:32050215-32174983 (+)
LP/J	MGP_LPJ_G0022671	protein coding gene	Chr16:33592662-33730370 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0022598	protein coding gene	Chr16:35277232-35428348 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0023197	protein coding gene	Chr16:33402224-33540357 (+)
PWK/PhJ	MGP_PWKPhJ_G0021770	protein coding gene	Chr16:32444003-32569732 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0021601	protein coding gene	Chr16:33191114-33322016 (+)
WSB/EiJ	MGP_WSBEiJ_G0022073	protein coding gene	Chr16:33329197-33465202 (+)

Human Ortholog

SEMA5B, semaphorin 5B

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SEMA5B, semaphorin 5B
Synonyms

SEMAG, SemG
Links

HGNC:10737

NCBI Gene ID: 54437

neXtProt AC: NX_Q9P283

UniProt: Q9P283
Chr Location

3q21.1; chr3:122909082-123028605 (-) GRCh38

MGI Vertebrate Homology

Sema5b stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: SEMA5B
Gene Tree

Sema5b

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Phenotype Summary

4 phenotypes from 2 alleles in 3 genetic backgrounds
11 phenotypes from multigenic genotypes
15 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

103
Endonuclease-mediated

1
Gene trapped

98
Targeted

4
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

80 strains or lines available

Mice homozygous for a null mutation display defects in neurite arborization of multiple retinal cell types.

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All GO Annotations

17
GO References

4

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

787
Tissues

62
cDNA Data

34
Literature Summary

24

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase sema5b

ZFIN sema5ba

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All Sequences

49
RefSeq

11
UniProt

1
CCDS

CCDS28140.1

Ensembl

ENSMUSG00000052133 (Evidence)
NCBI Gene

20357

			Length	Strain/Species	Flank
genomic	20357	NCBI Gene Model \| MGI Sequence Detail	123587	C57BL/6J	± kb
transcript	NM_013661	RefSeq \| MGI Sequence Detail	5104	C57BL/6
polypeptide	Q60519	UniProt \| EBI \| MGI Sequence Detail	1093	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000014628 semaphorin-5B

(term hierarchy)
InterPro Domains

IPR002165 Plexin repeat

IPR016201 PSI domain

IPR001627 Sema domain

IPR036352 Sema domain superfamily

IPR027231 Semaphorin

IPR000884 Thrombospondin type-1 (TSP1) repeat

IPR036383 Thrombospondin type-1 (TSP1) repeat superfamily

IPR015943 WD40/YVTN repeat-like-containing domain superfamily
GlyGen

Q60519 13 sites, 3 N-linked glycans (5 sites)

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All nucleic 38

cDNA 34

Primer pair 1

Other 3

Microarray probesets 4

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MGD-MRK-36126, MGI:2146519

Summaries

All 63

Developmental Gene Expression 24

Gene Ontology 4

Phenotypes 15
Earliest

J:25500 Puschel AW, et al., Murine semaphorin D/collapsin is a member of a diverse gene family and creates domains inhibitory for axonal extension. Neuron. 1995 May;14(5):941-8
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Sema5b:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr138217	Chr16:35361645-35361709 (+)	160 bp
Tssr4863	Chr16:35388531-35388534 (+)	27,016 bp
Tssr138218	Chr16:35401205-35401209 (+)	39,690 bp
Tssr138219	Chr16:35405708-35405713 (+)	44,194 bp
Tssr138220	Chr16:35432750-35432752 (+)	71,234 bp
Tssr138221	Chr16:35481480-35481482 (+)	119,964 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24