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Gene: Sema4d (semaphorin 4D) Rattus norvegicus

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Symbol:

Sema4d

Name:

semaphorin 4D

RGD ID:

1310554

Description:

Predicted to enable identical protein binding activity; signaling receptor binding activity; and transmembrane signaling receptor activity. Predicted to be involved in several processes, including negative regulation of osteoblast differentiation; positive regulation of intracellular signal transduction; and positive regulation of nervous system development. Predicted to act upstream of or within positive regulation of axonogenesis. Is active in postsynaptic membrane. Orthologous to human SEMA4D (semaphorin 4D); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC103694042; LOC306790; sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D; semaphorin-4D; uncharacterized LOC103694042

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SEMA4D (semaphorin 4D)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Sema4d (sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sema4d (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SEMA4D (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SEMA4D (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sema4d (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SEMA4D (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SEMA4D (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sema4d (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Sema4d (semaphorin 4D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	STIM2 (stromal interaction molecule 2)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	SEMA4D (semaphorin 4D)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sema4d (sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sema4d (sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Sema2a	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER)
Caenorhabditis elegans (roundworm):	smp-1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	sema4d	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	sema4d	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	13,582,085 - 13,688,889 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	17	13,582,098 - 13,688,891 (+)	Ensembl				GRCr8
mRatBN7.2	17	13,430,324 - 13,537,146 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	13,430,379 - 13,537,138 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	17	13,427,656 - 13,450,343 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	15,038,325 - 15,061,123 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	13,354,447 - 13,377,136 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	13,516,276 - 13,538,513 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	13,488,376 - 13,553,974 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	17	15,590,977 - 15,613,214 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	17	19,352,632 - 19,373,179 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	17	13,255,006 - 13,277,562 (+)	NCBI		Celera
RGSC_v3.1	17	19,332,919 - 19,373,283 (+)	NCBI
Cytogenetic Map	17	p14	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2-hydroxypropanoic acid (ISO)

2-methylcholine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amiodarone (ISO)

amitrole (EXP)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP)

buta-1,3-diene (ISO)

butanal (ISO)

Butylbenzyl phthalate (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chloroprene (ISO)

cisplatin (ISO)

cocaine (EXP)

copper atom (ISO)

copper(0) (ISO)

Cuprizon (EXP)

dioxygen (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

folic acid (ISO)

FR900359 (ISO)

gentamycin (EXP)

hydrogen peroxide (ISO)

kainic acid (EXP)

lipopolysaccharide (ISO)

lycorine (ISO)

maneb (ISO)

methapyrilene (ISO)

methimazole (EXP)

methotrexate (ISO)

Monobutylphthalate (EXP)

nickel atom (ISO)

nickel sulfate (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

paraquat (ISO)

perfluorohexanesulfonic acid (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

progesterone (ISO)

rac-lactic acid (ISO)

rotenone (EXP)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

SB 431542 (ISO)

silicon dioxide (EXP,ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

temozolomide (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

tungsten (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axon guidance (IBA)

bone trabecula morphogenesis (IEA,ISO)

cell differentiation (IEA)

leukocyte aggregation (IEA,ISO)

negative chemotaxis (IBA)

negative regulation of cell adhesion (IEA,ISO)

negative regulation of osteoblast differentiation (IEA,ISO)

negative regulation of transcription by RNA polymerase II (IEA,ISO)

nervous system development (IEA)

neural crest cell migration (IBA)

ossification involved in bone maturation (IEA,ISO)

positive regulation of axonogenesis (IEA,ISO)

positive regulation of cell migration (IBA,IEA,ISO)

positive regulation of collateral sprouting (IEA,ISO)

positive regulation of GTPase activity (ISO)

positive regulation of inhibitory synapse assembly (IEA,ISO)

positive regulation of intracellular signal transduction (IEA)

positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (IEA,ISO)

positive regulation of protein phosphorylation (ISO)

positive regulation of Rho protein signal transduction (IEA,ISO)

regulation of cell projection organization (IEA,ISO)

regulation of cell shape (IEA,ISO)

regulation of dendrite morphogenesis (IEA,ISO)

regulation of plasma membrane bounded cell projection organization (IEA)

regulation of synapse assembly (IEA,ISO)

semaphorin-plexin signaling pathway (IBA,IEA,ISO)

Cellular Component

extracellular space (IBA,IEA,ISO)

GABA-ergic synapse (IEA,ISO)

membrane (IEA)

plasma membrane (IBA,IEA,ISO)

postsynaptic membrane (IDA,IEP)

semaphorin receptor complex (IEA,ISO)

Molecular Function

chemorepellent activity (IBA)

identical protein binding (ISO)

neuropilin binding (IBA)

protein binding (ISO)

receptor ligand activity (IEA,ISO)

semaphorin receptor binding (IBA,IEA,ISO)

signaling receptor activity (IEA,ISO)

signaling receptor binding (IEA,ISO)

transmembrane signaling receptor activity (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Semaphorin 4D/plexin-B1 induces endothelial cell migration through the activation of PYK2, Src, and the phosphatidylinositol 3-kinase-Akt pathway.	Basile JR, etal., Mol Cell Biol. 2005 Aug;25(16):6889-98.
2.	Sema4D induces angiogenesis through Met recruitment by Plexin B1.	Conrotto P, etal., Blood. 2005 Jun 1;105(11):4321-9. Epub 2005 Jan 4.
3.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	The transmembrane semaphorin Sema4D/CD100, an inhibitor of axonal growth, is expressed on oligodendrocytes and upregulated after CNS lesion.	Moreau-Fauvarque C, etal., J Neurosci. 2003 Oct 8;23(27):9229-39.
7.	Sema4D localizes to synapses and regulates GABAergic synapse development as a membrane-bound molecule in the mammalian hippocampus.	Raissi AJ, etal., Mol Cell Neurosci. 2013 Nov;57:23-32. doi: 10.1016/j.mcn.2013.08.004. Epub 2013 Sep 10.
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8876214	PMID:8889548	PMID:11254688	PMID:15218527	PMID:15330859	PMID:15613544	PMID:19788569	PMID:20610402	PMID:20877282	PMID:22019888	PMID:23699507	PMID:23949850
PMID:24549858	PMID:26489627	PMID:28624895	PMID:29981480	PMID:36970799

Genomics

Comparative Map Data

Sema4d
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	13,582,085 - 13,688,889 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	17	13,582,098 - 13,688,891 (+)	Ensembl				GRCr8
mRatBN7.2	17	13,430,324 - 13,537,146 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	13,430,379 - 13,537,138 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	17	13,427,656 - 13,450,343 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	15,038,325 - 15,061,123 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	13,354,447 - 13,377,136 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	13,516,276 - 13,538,513 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	13,488,376 - 13,553,974 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	17	15,590,977 - 15,613,214 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	17	19,352,632 - 19,373,179 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	17	13,255,006 - 13,277,562 (+)	NCBI		Celera
RGSC_v3.1	17	19,332,919 - 19,373,283 (+)	NCBI
Cytogenetic Map	17	p14	NCBI

SEMA4D
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	89,360,787 - 89,498,113 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	89,360,787 - 89,498,167 (-)	Ensembl			hg38	GRCh38
GRCh37	9	91,975,702 - 92,113,028 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	91,181,972 - 91,284,431 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	9	89,221,705 - 89,324,165	NCBI
Celera	9	62,560,599 - 62,677,697 (-)	NCBI		Celera
Cytogenetic Map	9	q22.2	NCBI
HuRef	9	61,809,649 - 61,812,817 (-)	NCBI		HuRef
HuRef	9	61,823,373 - 61,926,322 (-)	NCBI		HuRef
CHM1_1	9	92,124,533 - 92,243,431 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	101,524,564 - 101,662,071 (-)	NCBI		T2T-CHM13v2.0

Sema4d
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	51,839,565 - 51,947,823 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	51,839,565 - 51,947,783 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	13	51,685,529 - 51,793,678 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	51,685,529 - 51,793,747 (-)	Ensembl			mm10	GRCm38
MGSCv37	13	51,796,617 - 51,889,013 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	13	51,713,744 - 51,806,140 (-)	NCBI		MGSCv36	mm8
Celera	13	52,773,981 - 52,868,989 (-)	NCBI		Celera
Cytogenetic Map	13	A5	NCBI
cM Map	13	26.16	NCBI

Sema4d
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955515	2,608,331 - 2,689,326 (+)	Ensembl
ChiLan1.0	NW_004955515	2,573,816 - 2,676,387 (+)	NCBI	ChiLan1.0	ChiLan1.0

SEMA4D
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	11	49,962,438 - 50,099,628 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	49,964,928 - 50,102,016 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	60,451,420 - 60,588,519 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	88,497,528 - 88,611,374 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	88,497,528 - 88,560,811 (-)	Ensembl			panPan2	panpan1.1

SEMA4D
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	96,825,963 - 96,878,956 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	96,814,674 - 96,878,968 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	97,278,644 - 97,342,104 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	97,427,590 - 97,490,619 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	97,432,133 - 97,490,753 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	97,055,805 - 97,118,887 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	96,774,870 - 96,838,078 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	97,533,063 - 97,596,441 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Sema4d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404944	11,158,121 - 11,231,467 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936780	317,948 - 350,113 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936780	317,926 - 350,113 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SEMA4D
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	957,081 - 1,078,508 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	14	957,074 - 1,078,522 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	1,174,861 - 1,259,699 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SEMA4D
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	12	99,872,725 - 99,951,441 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	99,874,189 - 99,900,982 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666038	88,195,884 - 88,316,203 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sema4d
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624765	23,197,462 - 23,229,922 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624765	23,097,771 - 23,244,778 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Sema4d
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	14	70,055,995 - 70,132,133 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Sema4d
749 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	629
Count of miRNA genes:	276
Interacting mature miRNAs:	344
Transcripts:	ENSRNOT00000018378
Prediction methods:	Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	43999106	Rat
2300002	Iddm36	Insulin dependent diabetes mellitus QTL 36	1.98		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	9266755	40968173	Rat
2293664	Bmd28	Bone mineral density QTL 28	5.1	0.0001	femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	17	4360057	27233623	Rat
8552966	Pigfal18	Plasma insulin-like growth factor 1 level QTL 18	8.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	12860942	57860942	Rat
1300123	Bp194	Blood pressure QTL 194	2.82		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	2120843	42054133	Rat
1582224	Epfw4	Epididymal fat weight QTL 4	3.5	0.0058	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	17	9206505	23859062	Rat
1582225	Bw67	Body weight QTL 67	6.2	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	17	9206505	23859062	Rat
2302377	Scl61	Serum cholesterol level QTL 61	4.36		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	17	6221998	58177198	Rat
1582226	Bw64	Body weight QTL 64	4.2	0.0017	body mass (VT:0001259)	body weight (CMO:0000012)	17	9206505	23859062	Rat
9589151	Insul30	Insulin level QTL 30	8.82	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	12860942	57860942	Rat
10401807	Kidm52	Kidney mass QTL 52			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	17	1	31706603	Rat
10054088	Scort28	Serum corticosterone level QTL 28	2.04	0.0102	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	4733534	49733534	Rat
9589057	Scfw6	Subcutaneous fat weight QTL 6	8.62	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	17	12860942	57860942	Rat
1582208	Kidm32	Kidney mass QTL 32	3.9	0.0018	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	17	9206505	23859062	Rat
9590154	Scort9	Serum corticosterone level QTL 9	23.57	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	12860942	57860942	Rat
9590088	Insglur7	Insulin/glucose ratio QTL 7	20.38	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	17	12860942	57860942	Rat
1549900	Iddm20	Insulin dependent diabetes mellitus QTL 20	3.7		pancreas integrity trait (VT:0010560)	percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)	17	1	22181410	Rat
2317053	Aia25	Adjuvant induced arthritis QTL 25	2.69		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	10604694	55604694	Rat
1354613	Kidm14	Kidney mass QTL 14	6.2		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	17	1	36045694	Rat
7411666	Foco31	Food consumption QTL 31	11.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	17	12860942	57860942	Rat
2324619	Coatc4	Coat color QTL 4		0.001	coat/hair pigmentation trait (VT:0010463)	pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)	17	1	21499218	Rat
2303627	Vencon8	Ventilatory control QTL 8		0.001	respiration trait (VT:0001943)	tidal volume (CMO:0000222)	17	4733534	49733534	Rat
1581553	Pur14	Proteinuria QTL 14	5.3	0.0001	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	17	7985243	16523460	Rat
70184	BpQTLcluster14	Blood pressure QTL cluster 14	3.38		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	8574342	32199534	Rat
1582258	Bw76	Body weight QTL 76	4.6	0.0005	body mass (VT:0001259)	body weight (CMO:0000012)	17	9206505	23859062	Rat
631207	Niddm41	Non-insulin dependent diabetes mellitus QTL 41			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	17	1	38037084	Rat
1582199	Insul5	Insulin level QTL 5	3.4	0.0119	blood insulin amount (VT:0001560)	calculated serum insulin level (CMO:0000359)	17	9206505	23859062	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	43999106	Rat
2293648	Bmd31	Bone mineral density QTL 31	4.5	0.0001	femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	17	4360057	27233623	Rat
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	43999106	Rat
1641902	Colcr7	Colorectal carcinoma resistance QTL 7	3.35	0.0044	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	17	2120843	22087569	Rat
1582241	Bw70	Body weight QTL 70	4.6	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	17	9206505	23859062	Rat
1582245	Bw73	Body weight QTL 73	4.6	0.0004	body mass (VT:0001259)	body weight (CMO:0000012)	17	9206505	23859062	Rat
9590316	Scort21	Serum corticosterone level QTL 21	4.75	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	1	22877318	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001170563	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095640	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095641	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095642	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095643	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095644	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095645	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095647	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095648	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095649	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095650	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095651	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095652	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276348	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276349	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276350	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276351	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276352	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BQ780932	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO395136	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO404183	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DN935876	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211736	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212166	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000018378 ⟹ ENSRNOP00000018378

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	17	13,582,146 - 13,688,888 (+)	Ensembl
mRatBN7.2 Ensembl	17	13,499,205 - 13,521,684 (+)	Ensembl
Rnor_6.0 Ensembl	17	13,516,456 - 13,537,114 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076019

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	13,488,376 - 13,516,561 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000076794 ⟹ ENSRNOP00000068126

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	17	13,582,098 - 13,688,887 (+)	Ensembl
mRatBN7.2 Ensembl	17	13,430,379 - 13,537,138 (+)	Ensembl
Rnor_6.0 Ensembl	17	13,519,130 - 13,553,974 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000101493 ⟹ ENSRNOP00000079766

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	17	13,621,067 - 13,673,436 (+)	Ensembl
mRatBN7.2 Ensembl	17	13,499,025 - 13,521,684 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000106280 ⟹ ENSRNOP00000091940

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	17	13,582,261 - 13,688,891 (+)	Ensembl
mRatBN7.2 Ensembl	17	13,430,379 - 13,537,138 (+)	Ensembl

RefSeq Acc Id:

NM_001170563 ⟹ NP_001164034

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,650,781 - 13,673,435 (+)	NCBI
mRatBN7.2	17	13,499,025 - 13,521,684 (+)	NCBI
Rnor_6.0	17	13,516,276 - 13,538,513 (+)	NCBI
Rnor_5.0	17	15,590,977 - 15,613,214 (+)	NCBI
Celera	17	13,255,006 - 13,277,562 (+)	NCBI

Sequence:

show sequence

GTTGTAAAAGTGGCCTTTGCTAACCTGACATGTGGGGACTCAAGAACCCCACTCCCTATGGGCT
CCAGTCTGTGCTGCTGGCCCCAGCTCTGGGGCTCTGAGAGGTTCCTGCTGCTACACCACAGCAG
CCCACTGCCATTCATGTGTGTCTGTTGCTGAAGGCCTCGGTGGCCCCTGCCCATGAAGATGTGT
GCCCCCGTCAGGGGGCTGTTCTTGGCCCTGGTGGCTGTGTGGAGGACCGCGGTGGCATTCGCCC
CTGTGCCTCGGATCACCTGGGAGCACGGAGAGGTAGGTCTGGTGAAGTTTCACGAGCCAGGCAT
CTTTAACTACTCTTCCTTGCTGATGAGTGAAGACAAAGACACTCTGTATGTGGGTGCCCGGGAA
GCTGTCTTTGCAGTGAATGCGCTGGACATCTCTGAGAAGCAACATGAGGTATACTGGAAGGTCT
CTGAAGACAAAAAATCCAAGTGCGCAGAGAAGGGGAAATCAAAGCAGACGGAGTGCCTTAACTA
CATCCGAGTGCTGCAACCGCTTAGCAGCACTTCCCTCTACGTGTGTGGGACCAATGCGTTCCAG
CCCACCTGTGACCACCTGAACTTGACCTCTTTCAAGTTTCTGGGGAAAAGCGAAGATGGCAAAG
GAAGATGCCCCTTCGACCCCGCCCATAGCTACACATCCGTCATGGTCGGGGGAGAGCTCTACTC
TGGGACTTCATATAATTTCTTGGGCAGCGAACCCATCATCTCTCGAAACTCTTCCCACAGTCCC
CTGAGGACAGAGTACGCCATCCCTTGGCTAAACGAGCCTAGCTTCGTCTTTGCTGACGTGATCC
ACAAGAGCCCAGATGGTACAGAGGCTGAGGATGACAAGGTCTACTTCTTCTTTACGGAGGTGTC
CGTGGAGTACGAGTTCGTCTTCAAGTTGATGATCCCGCGAGTTGCCAGGGTGTGCAAGGGCGAC
CAGGGCGGCCTGCGGACTTTGCAAAAAAAGTGGACCTCCTTCCTAAAGGCCAGACTGATCTGCT
CCAGGCCAGACAGTGGCCTGGTCTTCAACATTCTTCAAGATGTGTTTGTGCTGAGGGCCCCGGG
CCTCAAGGAACCTGTGTTCTATGCGGTCTTCACCCCACAGCTGAACAACGTGGGTCTGTCAGCG
GTCTGTGCCTACACGCTGTCCACGGTGGAGGCCGTCTTCTCCCGAGGAAAGTACATGCAGAGTG
CCACAGTGGAGCAGTCTCACACCAAGTGGGTACGCTACAATGGCCCAGTGCCCACTCCCCGGCC
TGGAGCGTGTATCGACAGTGAGGCCCGGGCAGCCAACTACACCAGCTCCTTGAATCTCCCAGAC
AAAACGCTGCAGTTTGTCAAAGACCACCCTTTGATGGACGACTCGGTGACGCCAATAGACAACA
GGCCGAAACTGATCAAAAAAGATGTCAACTACACCCAGATAGTGGTAGACAGGACCCAGGCCCT
GGATGGGACCTTCTACGACGTCATGTTCCTCAGCACAGACCGGGGCGCTCTGCATAAAGCTGTC
ATCCTTGCAAAAGAGGTACACGTGGTTGAGGAGACCCAACTCTTCCAGGACTTCGAACCGGTCC
TGTCTCTGCTGCTATCATCAAAGAAGGGGAGGAAGTTTGTCTATGCTGGCTCCAACTCAGGAGT
GGTCCAAGCTCCCCTGGCCTTCTGCGGAAAGCACAGTAGCTGTGAAGACTGTGTGCTAGCACGG
GACCCCTACTGCGCCTGGAGCCCAGCCATCAAGGCCTGTGTTACCTTGCACCAGGCAGAGGGCT
CTAGCAGGGGCTGGATTCAGGACATGAGTGGCGACACGTCCTCGTGCCTGGATAAGAGTAAAGA
AAGTTTCCATCAGCATTTTTTCAAGCACGGCGGCACAGCAGAACTCAAGTGTTTCCAAAAGTCC
AACCTGGCCCGGGTGGTGTGGAAGTTCCAGAACGGCGAGTTGAAGGCTGTGAGTCCCAAGTATG
GCTTTGTGGGCAGGAAGCACCTGCTCATCTTTAACCTGTCAGACGGAGACAGCGGTGTGTACCA
GTGCCTGTCAGAGGAAAGGGTCAGGAATAAAACGGTCTCCCAGCTGCTCGCCAAGCACATCCTG
GAAGTGAAAATGGTAGCTCGGATCCCCCCATCACCTACCTCACAGACTGCTCAGACAGAAGGTA
GTAGGATCACATCCAAAATGCCTGTGGCGTCTACCCAGGGGTCCTCTCCCCCTACCCCGGCTCT
GTGGGCAACCTCCCCCAGGGCTGCCACCCTACCTCCCAAGTCCTCCTCCACCGGCACGTCCTGT
GAACCAAAAATGGTCATCAACACGGTCCCACAGCTCCACTCGGAGAAGACAGTGTATCTCAAGT
CCAGTGACAACCGCCTGCTCATGTCTCTCCTCCTCTTCCTCTTTGTCCTCTTCCTCTGCCTCTT
TTCCTACAACTGCTACAAGGGCTACCTGCCCGGACAGTGCTTAAAGTTCCGCTCAGCCCTGCTG
CTCGCAAAGAAAAAACCCAAGTCAGAGTTCTCTGACCTGGAGCAGAGTGTGAAGGAGACGCTGG
TAGAACCTGGGAGCTTCTCGCAGCAGAACGGCGACCAGCCCAAGCCAGCCTTGGATACCGGCTA
TGAAACCGAGCAGGACACTATCACCAGCAAGGTCCCCACCGATCGAGAGGACTCGCAACGTATC
GACGAGCTCTCCGCCAGGGACAAACCGTTTGATGTCAAGTGTGAACTCAAGTTTGCAGACTCGG
ATGCCGACGGGGACTGAGGCCAGTGTGTCCCAGCCCGTGCCCCTCCGTCTTCGTGGAGAGTGTT
GTGTTGAACCTATTCAGTAGCCGAGTCTTGTCACTGTGCACCAGCCTCAGTCTTTTGTCCCTTT
CTCTCTTGGGTTGAGCCTGTGACTTGTCCCCTTTGTCCTTTTGGGAAACAAGTATCTATTCAAG
CCTCAAGTCCCGGCAGTTTTTGGAGCGCTTACTACACACCTGAGCCCTTTGTGTCCTGGGGGAG
AGATGGCCACCTCCGTGGGCTGAGAAGAACCACCCCTTCCTCTTCCGCTCCTCGAAGCAGCCAC
TGAGAGATAATTTAATTCCAGATTGGAAATGACCTTTTTGGTTTATCAGATTGGTAACTTAATC
TCCTGCCATCCGGGTGGCACGGACGTTTTTCTTTTACTTCGTTATTTTTTTTAGGATTTGCGCT
CCTACTGTGTTGATGTCTTAGGTCATTTTTTTTTTTTTAAGTTACCAGAGGAGATGTTTTGATA
TTCATGAGAAGAAGAACATTTTCTAGATTTTTTTTTTTTTTTGGTTACATATTGAGATAAAATA
TGCCTCTGTTGCTTAAGATTCTCAGGGATAGACGTGATTTTTGCTAATTTCTTTCCTGCTGTTC
GGAACGTAGGCCTAAAACTGTCTCTTGAGCTCACATACTCACCCTTTCCTTTTGGTGGGTTTTT
TTTTTTTTTTTTTTGTTTTTTTGTTTTATTAATCTTACTCATTTCGAAGGATTTTCTTTATGAG
CTTTTGTTTTGTTTTTGTTTTGTTTTTTTGTTTTTCTCTTTTTCCTGCCGTACATNATCTACGA
GGTGCGTTTTGAGTGAGGGCAGATGGCCCAGTGGCTTCGGGTGGCCCAGTGGCTGTGGGTGGCA
GTTGAGCTGGTCCTGTGAGGGGAGGAGGGCTTAGACGCCACGGCCCTGCTGCTTCTCGGCACCT
CCTGTCCCGATGGGTGGCGTCTTCATGAGGATTACATCCTGTCTCTGCTGGCTTCCATCTCGCA
CCTCTGCCCTTGGACTTCCACCTTGACTGTCCACAAAAGACAGAAATGGGCTGGCTAGTTGGGC
TCCCGGCCTCGGACGGTGGCCGCAACGTCCCGTGTGGGCGGCTGCCGCTGCAGCCTGACTCCTG
CCGGTGTCTTTCAGGATGTGAACGGGTGGTACGAATCTTGACATTTGTTTCTCACTTCCTGTGT
ATGAAACGACACTCATTCCATGTAGAGGGTGACGGACTCTGGATCCCCCCCCTTGTCGTGTAGA
CACTCATCTTCAGCGTGACCTGGTCCTGCCATTCGGTGTAAACATTTGTGTTTATAAGATTTAC
TTTGTTTTTATTTTTCTACTTGGAACTGTACATATTTGAAAAAGTACCCAAATAAACCAGAAGC
TTTATCGTTAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039095639 ⟹ XP_038951567

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,430,325 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095640 ⟹ XP_038951568

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,641,591 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,490,376 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095641 ⟹ XP_038951569

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,626,657 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,474,851 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095642 ⟹ XP_038951570

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,618,871 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,467,108 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095643 ⟹ XP_038951571

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,615,022 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,464,554 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095644 ⟹ XP_038951572

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,621,064 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,469,425 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095645 ⟹ XP_038951573

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,642,487 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,490,735 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_039095647 ⟹ XP_038951575

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,688,889 (+)	NCBI
mRatBN7.2	17	13,430,325 - 13,537,146 (+)	NCBI

RefSeq Acc Id:

XM_039095648 ⟹ XP_038951576

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,688,889 (+)	NCBI
mRatBN7.2	17	13,430,324 - 13,537,146 (+)	NCBI

RefSeq Acc Id:

XM_039095649 ⟹ XP_038951577

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,683,819 (+)	NCBI
mRatBN7.2	17	13,430,325 - 13,532,072 (+)	NCBI

RefSeq Acc Id:

XM_039095650 ⟹ XP_038951578

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,085 - 13,688,889 (+)	NCBI
mRatBN7.2	17	13,430,325 - 13,537,146 (+)	NCBI

RefSeq Acc Id:

XM_039095651 ⟹ XP_038951579

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,626,661 - 13,688,889 (+)	NCBI
mRatBN7.2	17	13,474,857 - 13,537,146 (+)	NCBI

RefSeq Acc Id:

XM_039095652 ⟹ XP_038951580

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,091 - 13,673,437 (+)	NCBI
mRatBN7.2	17	13,430,326 - 13,521,686 (+)	NCBI

RefSeq Acc Id:

XM_063276348 ⟹ XP_063132418

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,639,955 - 13,673,437 (+)	NCBI

RefSeq Acc Id:

XM_063276349 ⟹ XP_063132419

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,679,635 (+)	NCBI

RefSeq Acc Id:

XM_063276350 ⟹ XP_063132420

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,618,877 - 13,688,889 (+)	NCBI

RefSeq Acc Id:

XM_063276351 ⟹ XP_063132421

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,616,375 - 13,688,889 (+)	NCBI

RefSeq Acc Id:

XM_063276352 ⟹ XP_063132422

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	13,582,090 - 13,688,889 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001164034	(Get FASTA)	NCBI Sequence Viewer
	XP_038951567	(Get FASTA)	NCBI Sequence Viewer
	XP_038951568	(Get FASTA)	NCBI Sequence Viewer
	XP_038951569	(Get FASTA)	NCBI Sequence Viewer
	XP_038951570	(Get FASTA)	NCBI Sequence Viewer
	XP_038951571	(Get FASTA)	NCBI Sequence Viewer
	XP_038951572	(Get FASTA)	NCBI Sequence Viewer
	XP_038951573	(Get FASTA)	NCBI Sequence Viewer
	XP_038951575	(Get FASTA)	NCBI Sequence Viewer
	XP_038951576	(Get FASTA)	NCBI Sequence Viewer
	XP_038951577	(Get FASTA)	NCBI Sequence Viewer
	XP_038951578	(Get FASTA)	NCBI Sequence Viewer
	XP_038951579	(Get FASTA)	NCBI Sequence Viewer
	XP_038951580	(Get FASTA)	NCBI Sequence Viewer
	XP_063132418	(Get FASTA)	NCBI Sequence Viewer
	XP_063132419	(Get FASTA)	NCBI Sequence Viewer
	XP_063132420	(Get FASTA)	NCBI Sequence Viewer
	XP_063132421	(Get FASTA)	NCBI Sequence Viewer
	XP_063132422	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL98084	(Get FASTA)	NCBI Sequence Viewer
	EDL98085	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000018378
	ENSRNOP00000018378.9
	ENSRNOP00000068126
	ENSRNOP00000068126.2
	ENSRNOP00000079766
	ENSRNOP00000079766.1
	ENSRNOP00000091940
	ENSRNOP00000091940.1

RefSeq Acc Id:	NP_001164034 ⟸ NM_001170563
- Peptide Label:	precursor
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MKMCAPVRGLFLALVAVWRTAVAFAPVPRITWEHGEVGLVKFHEPGIFNYSSLLMSEDKDTLYV GAREAVFAVNALDISEKQHEVYWKVSEDKKSKCAEKGKSKQTECLNYIRVLQPLSSTSLYVCGT NAFQPTCDHLNLTSFKFLGKSEDGKGRCPFDPAHSYTSVMVGGELYSGTSYNFLGSEPIISRNS SHSPLRTEYAIPWLNEPSFVFADVIHKSPDGTEAEDDKVYFFFTEVSVEYEFVFKLMIPRVARV CKGDQGGLRTLQKKWTSFLKARLICSRPDSGLVFNILQDVFVLRAPGLKEPVFYAVFTPQLNNV GLSAVCAYTLSTVEAVFSRGKYMQSATVEQSHTKWVRYNGPVPTPRPGACIDSEARAANYTSSL NLPDKTLQFVKDHPLMDDSVTPIDNRPKLIKKDVNYTQIVVDRTQALDGTFYDVMFLSTDRGAL HKAVILAKEVHVVEETQLFQDFEPVLSLLLSSKKGRKFVYAGSNSGVVQAPLAFCGKHSSCEDC VLARDPYCAWSPAIKACVTLHQAEGSSRGWIQDMSGDTSSCLDKSKESFHQHFFKHGGTAELKC FQKSNLARVVWKFQNGELKAVSPKYGFVGRKHLLIFNLSDGDSGVYQCLSEERVRNKTVSQLLA KHILEVKMVARIPPSPTSQTAQTEGSRITSKMPVASTQGSSPPTPALWATSPRAATLPPKSSST GTSCEPKMVINTVPQLHSEKTVYLKSSDNRLLMSLLLFLFVLFLCLFSYNCYKGYLPGQCLKFR SALLLAKKKPKSEFSDLEQSVKETLVEPGSFSQQNGDQPKPALDTGYETEQDTITSKVPTDRED SQRIDELSARDKPFDVKCELKFADSDADGD hide sequence

Ensembl Acc Id:

ENSRNOP00000018378 ⟸ ENSRNOT00000018378

Ensembl Acc Id:

ENSRNOP00000068126 ⟸ ENSRNOT00000076794

RefSeq Acc Id:	XP_038951576 ⟸ XM_039095648
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038951575 ⟸ XM_039095647
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I6GJZ1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951578 ⟸ XM_039095650
- Peptide Label:	isoform X5
- UniProtKB:	A0A096MJH1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951577 ⟸ XM_039095649
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038951567 ⟸ XM_039095639
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951580 ⟸ XM_039095652
- Peptide Label:	isoform X7

RefSeq Acc Id:	XP_038951571 ⟸ XM_039095643
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951570 ⟸ XM_039095642
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951572 ⟸ XM_039095644
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951569 ⟸ XM_039095641
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951579 ⟸ XM_039095651
- Peptide Label:	isoform X5
- UniProtKB:	A0A096MJH1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951568 ⟸ XM_039095640
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038951573 ⟸ XM_039095645
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6G5Q1 (UniProtKB/TrEMBL), D3ZYR4 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000091940 ⟸ ENSRNOT00000106280

Ensembl Acc Id:

ENSRNOP00000079766 ⟸ ENSRNOT00000101493

RefSeq Acc Id:	XP_063132422 ⟸ XM_063276352
- Peptide Label:	isoform X6

RefSeq Acc Id:	XP_063132419 ⟸ XM_063276349
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_063132421 ⟸ XM_063276351
- Peptide Label:	isoform X5
- UniProtKB:	A0A096MJH1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063132420 ⟸ XM_063276350
- Peptide Label:	isoform X5
- UniProtKB:	A0A096MJH1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063132418 ⟸ XM_063276348
- Peptide Label:	isoform X1
- UniProtKB:	D3ZYR4 (UniProtKB/TrEMBL), A0A8I6G5Q1 (UniProtKB/TrEMBL)

Protein Domains

Ig-like Sema

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZYR4-F1-model_v2	AlphaFold	D3ZYR4	1-862	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310554	AgrOrtholog
BioCyc Gene	G2FUF-10075	BioCyc
Ensembl Genes	ENSRNOG00000013679	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000018378	ENTREZGENE
	ENSRNOT00000018378.10	UniProtKB/TrEMBL
	ENSRNOT00000076794	ENTREZGENE
	ENSRNOT00000076794.3	UniProtKB/TrEMBL
	ENSRNOT00000101493	ENTREZGENE
	ENSRNOT00000101493.2	UniProtKB/TrEMBL
	ENSRNOT00000106280	ENTREZGENE
	ENSRNOT00000106280.2	UniProtKB/TrEMBL
Gene3D-CATH	2.130.10.10	UniProtKB/TrEMBL
	2.60.40.10	UniProtKB/TrEMBL
	ligand-binding face of the semaphorins, domain 2	UniProtKB/TrEMBL
InterPro	Ig-like	UniProtKB/TrEMBL
	Ig-like_dom_sf	UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/TrEMBL
	Ig_sub2	UniProtKB/TrEMBL
	Immunoglobulin	UniProtKB/TrEMBL
	Plexin-like_fold	UniProtKB/TrEMBL
	Plexin_repeat	UniProtKB/TrEMBL
	Semap_dom_sf	UniProtKB/TrEMBL
	Semaphorin	UniProtKB/TrEMBL
	Semaphorin/CD100_Ag	UniProtKB/TrEMBL
	WD40/YVTN_repeat-like_dom	UniProtKB/TrEMBL
KEGG Report	rno:306790	UniProtKB/TrEMBL
NCBI Gene	306790	ENTREZGENE
PANTHER	PTHR11036	UniProtKB/TrEMBL
	SEMAPHORIN-4D	UniProtKB/TrEMBL
Pfam	PF00047	UniProtKB/TrEMBL
	PSI	UniProtKB/TrEMBL
	Sema	UniProtKB/TrEMBL
PhenoGen	Sema4d	PhenoGen
PROSITE	IG_LIKE	UniProtKB/TrEMBL
	SEMA	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000013679	RatGTEx
SMART	IGc2	UniProtKB/TrEMBL
	PSI	UniProtKB/TrEMBL
	Sema	UniProtKB/TrEMBL
Superfamily-SCOP	Plexin repeat	UniProtKB/TrEMBL
	Sema	UniProtKB/TrEMBL
	SSF48726	UniProtKB/TrEMBL
UniProt	A0A096MJH1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6G5Q1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6GJZ1	ENTREZGENE, UniProtKB/TrEMBL
	D3ZYR4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Sema4d	semaphorin 4D	LOC103694042	uncharacterized LOC103694042	Data merged from RGD:9120378	737654	PROVISIONAL
2016-01-21	Sema4d	semaphorin 4D	Sema4d	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2014-08-25	LOC103694042	uncharacterized LOC103694042			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-04-30	Sema4d	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	Sema4d_predicted	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Sema4d_predicted	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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