Sema6a (semaphorin 6A) - Rat Genome Database

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Gene: Sema6a (semaphorin 6A) Rattus norvegicus
Analyze
Symbol: Sema6a
Name: semaphorin 6A
RGD ID: 1305493
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 generation of neurons; negative regulation of cell adhesion involved in sprouting angiogenesis; and negative regulation of signal transduction. Predicted to act upstream of or within cell surface receptor signaling pathway and centrosome localization. Predicted to be active in plasma membrane. Orthologous to human SEMA6A (semaphorin 6A); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361324; sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A; semaphorin 6A-1; semaphorin-6A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81842,237,227 - 42,358,540 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1842,237,228 - 42,358,540 (-)EnsemblGRCr8
mRatBN7.21840,050,623 - 40,171,954 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1840,050,624 - 40,171,954 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1842,083,839 - 42,205,156 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01842,785,785 - 42,907,144 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01840,578,873 - 40,700,244 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1841,670,085 - 41,791,397 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1841,919,625 - 42,040,943 (-)NCBILyon_Normotensive
Lyon_Hypertensive1842,089,199 - 42,210,551 (-)NCBILyon_Hypertensive
F344_StmMcwi1841,835,947 - 41,957,256 (-)NCBIF344_StmMcwi
Rnor_6.01841,330,519 - 41,451,813 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1841,333,551 - 41,389,510 (-)Ensemblrn6Rnor6.0
Rnor_5.01840,972,328 - 41,092,331 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41841,545,350 - 41,665,721 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1838,297,774 - 38,419,108 (-)NCBICelera
RGSC_v3.11841,582,877 - 41,703,796 (-)NCBI
Cytogenetic Map18q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,4'-trichlorobiphenyl  (ISO)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
amitriptyline  (EXP)
amitrole  (EXP)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cobalt dichloride  (EXP)
cocaine  (EXP,ISO)
coumarin  (ISO)
D-glucose  (ISO)
diazinon  (EXP)
dicrotophos  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
enzacamene  (ISO)
ethanol  (ISO)
folic acid  (ISO)
fonofos  (ISO)
fulvestrant  (ISO)
glucose  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (EXP)
menadione  (ISO)
mercury dibromide  (ISO)
methylmercury chloride  (ISO)
N(4)-hydroxycytidine  (ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
parathion  (ISO)
PCB138  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
S-nitrosoglutathione  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
terbufos  (ISO)
thifluzamide  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
triticonazole  (EXP)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)
plasma membrane  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:15814794   PMID:16205717   PMID:18327254   PMID:20505770   PMID:20877282   PMID:20881961   PMID:21536891   PMID:22184411   PMID:24177325  


Genomics

Comparative Map Data
Sema6a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81842,237,227 - 42,358,540 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1842,237,228 - 42,358,540 (-)EnsemblGRCr8
mRatBN7.21840,050,623 - 40,171,954 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1840,050,624 - 40,171,954 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1842,083,839 - 42,205,156 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01842,785,785 - 42,907,144 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01840,578,873 - 40,700,244 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1841,670,085 - 41,791,397 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1841,919,625 - 42,040,943 (-)NCBILyon_Normotensive
Lyon_Hypertensive1842,089,199 - 42,210,551 (-)NCBILyon_Hypertensive
F344_StmMcwi1841,835,947 - 41,957,256 (-)NCBIF344_StmMcwi
Rnor_6.01841,330,519 - 41,451,813 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1841,333,551 - 41,389,510 (-)Ensemblrn6Rnor6.0
Rnor_5.01840,972,328 - 41,092,331 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41841,545,350 - 41,665,721 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1838,297,774 - 38,419,108 (-)NCBICelera
RGSC_v3.11841,582,877 - 41,703,796 (-)NCBI
Cytogenetic Map18q11NCBI
SEMA6A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385116,443,555 - 116,574,823 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5116,443,555 - 116,576,161 (-)Ensemblhg38GRCh38
GRCh375115,779,251 - 115,910,519 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365115,807,150 - 115,938,450 (-)NCBIBuild 36Build 36hg18NCBI36
Build 345115,807,150 - 115,938,398NCBI
Celera5111,728,814 - 111,860,108 (-)NCBICelera
Cytogenetic Map5q23.1NCBI
HuRef5110,960,448 - 111,091,731 (-)NCBIHuRef
CHM1_15115,211,962 - 115,342,921 (-)NCBICHM1_1
T2T-CHM13v2.05116,956,014 - 117,086,961 (-)NCBIT2T-CHM13v2.0
Sema6a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391847,378,321 - 47,504,267 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1847,368,665 - 47,501,937 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381847,245,254 - 47,371,200 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1847,235,598 - 47,368,870 (-)Ensemblmm10GRCm38
MGSCv371847,404,908 - 47,528,522 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361847,370,585 - 47,494,199 (-)NCBIMGSCv36mm8
Celera1848,602,449 - 48,726,270 (-)NCBICelera
Cytogenetic Map18CNCBI
cM Map1825.08NCBI
Sema6a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540836,217,588 - 36,307,284 (-)Ensembl
ChiLan1.0NW_00495540836,219,814 - 36,344,131 (-)NCBIChiLan1.0ChiLan1.0
SEMA6A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24111,683,864 - 111,815,906 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15109,837,525 - 109,969,536 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05111,793,272 - 111,924,937 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15117,589,267 - 117,721,127 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5117,592,313 - 117,651,098 (-)EnsemblpanPan2panpan1.1
SEMA6A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1116,117,063 - 6,245,443 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl116,119,964 - 6,177,817 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha116,267,699 - 6,394,474 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0116,109,306 - 6,236,116 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl116,111,786 - 6,236,325 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1116,072,720 - 6,199,469 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0116,136,002 - 6,262,719 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0116,387,457 - 6,514,259 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sema6a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213128,900,607 - 129,024,976 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367421,599,723 - 1,661,013 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367421,599,725 - 1,726,084 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA6A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2120,560,099 - 120,687,106 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.12120,560,095 - 120,687,597 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22125,466,636 - 125,593,422 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEMA6A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12319,740,553 - 19,870,790 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603458,528,236 - 58,661,402 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema6a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247335,249,235 - 5,374,117 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247335,249,245 - 5,371,841 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Sema6a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11539,646,420 - 39,766,710 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Sema6a
775 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:404
Count of miRNA genes:127
Interacting mature miRNAs:140
Transcripts:ENSRNOT00000005446, ENSRNOT00000005476, ENSRNOT00000040924, ENSRNOT00000049178
Prediction methods:Microtar, Miranda, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)182201556261600538Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)183857591983575919Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182682218671822186Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182682218671822186Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182682218671822186Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050563968306Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182682218671822186Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182682218671822186Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182682218671822186Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183199089176990891Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)183337915878379158Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184046238385462383Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18448264849482648Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183199089176990891Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18154490981Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat
11565454Kidm59Kidney mass QTL 590.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)18706572852065728Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)18430735449307354Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)183337915878379158Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
2301409Cm70Cardiac mass QTL 700.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)18706572852065728Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)183337915878379158Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)183337915878379158Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182682218671822186Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183152278376522783Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)183337915878379158Rat
12904716Am21Aortic mass QTL 210.005aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)18706572852065728Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183337915878379158Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)183337915878379158Rat
12904714Cm131Cardiac mass QTL 1310.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)18706572852065728Rat
12904715Cm132Cardiac mass QTL 1320.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)18706572852065728Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183161050577371277Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183612162681121626Rat
6903345Bp349Blood pressure QTL 3493.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181522610142690662Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)183199089176990891Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18546045542690191Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)182641582171415821Rat
6903349Bp351Blood pressure QTL 3513.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
6903351Bp352Blood pressure QTL 3523.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183164450879484311Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18144930869Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181206648257066482Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183199089176990891Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183161050572538878Rat


Expression

RNA-SEQ Expression

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 67 164 91 90 59 78 59 6 342 178 11 143 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001372354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003751782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003753046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222573 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063277472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063277473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK839311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000005446   ⟹   ENSRNOP00000005446
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1842,237,228 - 42,358,540 (-)Ensembl
mRatBN7.2 Ensembl1840,050,624 - 40,171,954 (-)Ensembl
Rnor_6.0 Ensembl1841,360,931 - 41,389,510 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000005476   ⟹   ENSRNOP00000005476
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1842,237,228 - 42,358,540 (-)Ensembl
mRatBN7.2 Ensembl1840,050,624 - 40,171,954 (-)Ensembl
Rnor_6.0 Ensembl1841,333,551 - 41,389,510 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115179   ⟹   ENSRNOP00000082708
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1842,239,257 - 42,358,540 (-)Ensembl
mRatBN7.2 Ensembl1840,050,624 - 40,171,954 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000136674   ⟹   ENSRNOP00000111735
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1842,238,513 - 42,358,540 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000150263   ⟹   ENSRNOP00000099981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1842,237,228 - 42,358,540 (-)Ensembl
RefSeq Acc Id: NM_001108430   ⟹   NP_001101900
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,540 (-)NCBI
mRatBN7.21840,050,623 - 40,171,954 (-)NCBI
Dahl_SR_JrHsd1841,670,085 - 41,791,397 (-)NCBI
Lyon_Normotensive1841,919,625 - 42,040,943 (-)NCBI
Lyon_Hypertensive1842,089,199 - 42,210,551 (-)NCBI
F344_StmMcwi1841,835,947 - 41,957,256 (-)NCBI
RefSeq Acc Id: NM_001372354   ⟹   NP_001359283
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,540 (-)NCBI
mRatBN7.21840,050,623 - 40,171,954 (-)NCBI
Dahl_SR_JrHsd1841,670,085 - 41,791,397 (-)NCBI
Lyon_Normotensive1841,919,625 - 42,040,943 (-)NCBI
Lyon_Hypertensive1842,089,199 - 42,210,551 (-)NCBI
F344_StmMcwi1841,835,947 - 41,957,256 (-)NCBI
RefSeq Acc Id: XM_003751782   ⟹   XP_003751830
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,493 (-)NCBI
mRatBN7.21840,050,623 - 40,171,912 (-)NCBI
Rnor_6.01841,330,519 - 41,451,813 (-)NCBI
Rnor_5.01840,972,328 - 41,092,331 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096967   ⟹   XP_038952895
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,494 (-)NCBI
mRatBN7.21840,053,655 - 40,171,913 (-)NCBI
RefSeq Acc Id: XM_063277472   ⟹   XP_063133542
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,493 (-)NCBI
RefSeq Acc Id: XM_063277473   ⟹   XP_063133543
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81842,237,227 - 42,358,494 (-)NCBI
RefSeq Acc Id: XP_003751830   ⟸   XM_003751782
- Peptide Label: isoform X1
- UniProtKB: D3ZAX7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005476   ⟸   ENSRNOT00000005476
Ensembl Acc Id: ENSRNOP00000005446   ⟸   ENSRNOT00000005446
RefSeq Acc Id: NP_001359283   ⟸   NM_001372354
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A8I5ZYF8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001101900   ⟸   NM_001108430
- Peptide Label: isoform 1 precursor
- UniProtKB: D3ZAG0 (UniProtKB/TrEMBL),   A6IWY3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038952895   ⟸   XM_039096967
- Peptide Label: isoform X1
- UniProtKB: D3ZAX7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000082708   ⟸   ENSRNOT00000115179
RefSeq Acc Id: XP_063133543   ⟸   XM_063277473
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063133542   ⟸   XM_063277472
- Peptide Label: isoform X2
- UniProtKB: A6IWY3 (UniProtKB/TrEMBL),   D3ZAG0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000099981   ⟸   ENSRNOT00000150263
Ensembl Acc Id: ENSRNOP00000111735   ⟸   ENSRNOT00000136674
Protein Domains
Sema

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZAG0-F1-model_v2 AlphaFold D3ZAG0 1-1031 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305493 AgrOrtholog
BioCyc Gene G2FUF-7609 BioCyc
Ensembl Genes ENSRNOG00000004033 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005446 ENTREZGENE
  ENSRNOT00000005446.7 UniProtKB/TrEMBL
  ENSRNOT00000005476 ENTREZGENE
  ENSRNOT00000005476.10 UniProtKB/TrEMBL
  ENSRNOT00000115179 ENTREZGENE
  ENSRNOT00000115179.2 UniProtKB/TrEMBL
  ENSRNOT00000136674.1 UniProtKB/TrEMBL
  ENSRNOT00000150263 ENTREZGENE
  ENSRNOT00000150263.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  ligand-binding face of the semaphorins, domain 2 UniProtKB/TrEMBL
InterPro Plexin_repeat UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  Semaphorin/CD100_Ag UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
NCBI Gene 361324 ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-6A UniProtKB/TrEMBL
Pfam PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
PhenoGen Sema6a PhenoGen
PROSITE SEMA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004033 RatGTEx
SMART Sema UniProtKB/TrEMBL
Superfamily-SCOP Plexin repeat UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
UniProt A0A8I5ZYF8 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LGL6_RAT UniProtKB/TrEMBL
  A0ABK0M796_RAT UniProtKB/TrEMBL
  A6IWY3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAG0 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAX7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-21 Sema6a  semaphorin 6A  Sema6a  sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sema6a  sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A   Sema6a_predicted  sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sema6a_predicted  sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A (predicted)      Symbol and Name status set to approved 70820 APPROVED