Sema3f (semaphorin 3F) - Rat Genome Database

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Gene: Sema3f (semaphorin 3F) Rattus norvegicus
Analyze
Symbol: Sema3f
Name: semaphorin 3F
RGD ID: 1308514
Description: Predicted to enable chemorepellent activity and semaphorin receptor binding activity. Predicted to be involved in several processes, including negative regulation of axon extension involved in axon guidance; nervous system development; and ventral trunk neural crest cell migration. Predicted to act upstream of or within trunk neural crest cell migration. Predicted to be active in glutamatergic synapse and plasma membrane. Orthologous to human SEMA3F (semaphorin 3F); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3 F; SemaIV; semaphorin IV; semaphorin-3F
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28108,357,629 - 108,386,569 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,357,629 - 108,387,083 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8113,984,571 - 114,014,000 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08112,183,731 - 112,213,160 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08110,026,513 - 110,055,942 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08116,439,996 - 116,469,915 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,437,696 - 116,469,915 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08115,795,106 - 115,824,684 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48112,932,112 - 112,962,333 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18112,951,566 - 112,982,883 (-)NCBI
Celera8107,663,870 - 107,693,466 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-citrinin  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
aristolochic acid A  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clothianidin  (ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
coumarin  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dioxygen  (ISO)
epoxiconazole  (ISO)
furan  (EXP)
gentamycin  (EXP)
leflunomide  (ISO)
methapyrilene  (ISO)
methimazole  (EXP)
mifepristone  (ISO)
N,N-diethyl-m-toluamide  (EXP)
niclosamide  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (EXP)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propiconazole  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
T-2 toxin  (EXP)
tamoxifen  (ISO)
telmisartan  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
Triptolide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Evidence that Sema3A and Sema3F regulate the migration of GABAergic neurons in the developing neocortex. Tamamaki N, etal., J Comp Neurol 2003 Jan 6;455(2):238-48.
Additional References at PubMed
PMID:9753685   PMID:11683995   PMID:12435358   PMID:15814794   PMID:15967098   PMID:16258027   PMID:16319111   PMID:17395160   PMID:18041777   PMID:18804103   PMID:19386662   PMID:20010807  
PMID:20298787   PMID:21724473   PMID:22790009   PMID:22977659   PMID:23063687   PMID:24006456   PMID:25143608   PMID:27309587  


Genomics

Comparative Map Data
Sema3f
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28108,357,629 - 108,386,569 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,357,629 - 108,387,083 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8113,984,571 - 114,014,000 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08112,183,731 - 112,213,160 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08110,026,513 - 110,055,942 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08116,439,996 - 116,469,915 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,437,696 - 116,469,915 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08115,795,106 - 115,824,684 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48112,932,112 - 112,962,333 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18112,951,566 - 112,982,883 (-)NCBI
Celera8107,663,870 - 107,693,466 (-)NCBICelera
Cytogenetic Map8q32NCBI
SEMA3F
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38350,155,058 - 50,189,075 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl350,155,045 - 50,189,075 (+)EnsemblGRCh38hg38GRCh38
GRCh37350,192,491 - 50,226,508 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36350,167,852 - 50,201,512 (+)NCBINCBI36Build 36hg18NCBI36
Build 34350,167,851 - 50,201,511NCBI
Celera350,165,676 - 50,199,339 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef350,248,557 - 50,282,194 (+)NCBIHuRef
CHM1_1350,145,118 - 50,178,783 (+)NCBICHM1_1
T2T-CHM13v2.0350,184,392 - 50,218,408 (+)NCBIT2T-CHM13v2.0
Sema3f
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399107,558,698 - 107,587,674 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9107,558,699 - 107,587,674 (-)EnsemblGRCm39 Ensembl
GRCm389107,681,499 - 107,710,475 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9107,681,500 - 107,710,475 (-)EnsemblGRCm38mm10GRCm38
MGSCv379107,583,833 - 107,612,806 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369107,539,603 - 107,568,576 (-)NCBIMGSCv36mm8
Celera9107,287,142 - 107,316,223 (-)NCBICelera
Cytogenetic Map9F1NCBI
cM Map958.91NCBI
Sema3f
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555321,988,486 - 2,017,170 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555321,992,417 - 2,015,879 (+)NCBIChiLan1.0ChiLan1.0
SEMA3F
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1350,143,073 - 50,176,753 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0350,083,733 - 50,117,518 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1351,318,089 - 51,351,958 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl351,318,089 - 51,351,958 (+)Ensemblpanpan1.1panPan2
SEMA3F
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12039,135,580 - 39,165,381 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2039,136,523 - 39,161,325 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2039,056,637 - 39,085,160 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02039,491,876 - 39,521,715 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2039,491,886 - 39,522,414 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12038,859,427 - 38,889,253 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02039,263,538 - 39,293,588 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02039,543,271 - 39,573,112 (-)NCBIUU_Cfam_GSD_1.0
Sema3f
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560264,944,032 - 64,972,968 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365291,704,476 - 1,733,941 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365291,704,523 - 1,733,465 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA3F
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1332,641,424 - 32,671,223 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11332,641,376 - 32,671,231 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,820,323 - 35,849,831 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SEMA3F
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12211,540,958 - 11,574,888 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2211,545,455 - 11,575,006 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041155,411,362 - 155,445,307 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema3f
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247304,035,874 - 4,065,667 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247304,035,909 - 4,064,796 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sema3f
60 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:370
Count of miRNA genes:209
Interacting mature miRNAs:243
Transcripts:ENSRNOT00000024193
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat

Markers in Region
RH133726  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,365,267 - 108,365,451 (+)MAPPERmRatBN7.2
Rnor_6.08116,447,635 - 116,447,818NCBIRnor6.0
Rnor_5.08115,802,745 - 115,802,928UniSTSRnor5.0
RGSC_v3.48112,939,750 - 112,939,933UniSTSRGSC3.4
Celera8107,671,615 - 107,671,798UniSTS
RH 3.4 Map81118.6UniSTS
Cytogenetic Map8q32UniSTS
D3S4520  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,360,547 - 108,360,820 (+)MAPPERmRatBN7.2
Rnor_6.08116,442,915 - 116,443,187NCBIRnor6.0
Rnor_5.08115,798,025 - 115,798,297UniSTSRnor5.0
RGSC_v3.48112,935,031 - 112,935,303UniSTSRGSC3.4
Celera8107,666,789 - 107,667,061UniSTS
Cytogenetic Map8q32UniSTS
D3S4519  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,360,799 - 108,361,413 (+)MAPPERmRatBN7.2
Rnor_6.08116,443,167 - 116,443,780NCBIRnor6.0
Rnor_5.08115,798,277 - 115,798,890UniSTSRnor5.0
RGSC_v3.48112,935,283 - 112,935,896UniSTSRGSC3.4
Celera8107,667,041 - 107,667,654UniSTS
Cytogenetic Map8q32UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 4 4 4 47 20 31 11
Low 3 41 51 35 19 35 8 11 27 15 10 8
Below cutoff 2 2 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001413830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243778 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005487846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005487847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000024193   ⟹   ENSRNOP00000024193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,357,629 - 108,387,083 (-)Ensembl
Rnor_6.0 Ensembl8116,439,996 - 116,469,915 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085915   ⟹   ENSRNOP00000071565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,357,629 - 108,387,083 (-)Ensembl
Rnor_6.0 Ensembl8116,437,696 - 116,465,801 (-)Ensembl
RefSeq Acc Id: NM_001413830   ⟹   NP_001400759
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,357,629 - 108,386,569 (-)NCBI
RefSeq Acc Id: XM_039081588   ⟹   XP_038937516
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,357,629 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081590   ⟹   XP_038937518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,358,450 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081591   ⟹   XP_038937519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,358,554 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081592   ⟹   XP_038937520
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,357,629 - 108,367,563 (-)NCBI
RefSeq Acc Id: XM_039081593   ⟹   XP_038937521
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,361,375 - 108,386,170 (-)NCBI
RefSeq Acc Id: XR_005487846
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,359,924 - 108,386,170 (-)NCBI
RefSeq Acc Id: XR_005487847
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,359,924 - 108,386,170 (-)NCBI
RefSeq Acc Id: ENSRNOP00000024193   ⟸   ENSRNOT00000024193
RefSeq Acc Id: ENSRNOP00000071565   ⟸   ENSRNOT00000085915
RefSeq Acc Id: XP_038937516   ⟸   XM_039081588
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K0S6 (UniProtKB/TrEMBL),   A6I308 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937520   ⟸   XM_039081592
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038937518   ⟸   XM_039081590
- Peptide Label: isoform X2
- UniProtKB: D3ZGX9 (UniProtKB/TrEMBL),   A6I309 (UniProtKB/TrEMBL),   A0A0G2K0S6 (UniProtKB/TrEMBL),   A6I308 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937519   ⟸   XM_039081591
- Peptide Label: isoform X3
- UniProtKB: A0A0G2K0S6 (UniProtKB/TrEMBL),   A6I308 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937521   ⟸   XM_039081593
- Peptide Label: isoform X5
RefSeq Acc Id: NP_001400759   ⟸   NM_001413830
- Peptide Label: precursor
- UniProtKB: D3ZGX9 (UniProtKB/TrEMBL),   A6I309 (UniProtKB/TrEMBL),   A0A0G2K0S6 (UniProtKB/TrEMBL),   A6I308 (UniProtKB/TrEMBL)
Protein Domains
Ig-like   Sema

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0S6-F1-model_v2 AlphaFold A0A0G2K0S6 1-802 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:1308514 AgrOrtholog
BioCyc Gene G2FUF-29177 BioCyc
Ensembl Genes ENSRNOG00000017704 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024193 ENTREZGENE
  ENSRNOT00000024193.6 UniProtKB/TrEMBL
  ENSRNOT00000085915.2 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_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Plexin-like_fold UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  Semaphorin/CD100_Ag UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
KEGG Report rno:315996 UniProtKB/TrEMBL
NCBI Gene 315996 ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-3F UniProtKB/TrEMBL
Pfam Sema UniProtKB/TrEMBL
PhenoGen Sema3f PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
  SEMA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017704 RatGTEx
SMART IGc2 UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP Plexin repeat UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2K0S6 ENTREZGENE, UniProtKB/TrEMBL
  A6I308 ENTREZGENE, UniProtKB/TrEMBL
  A6I309 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGX9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-21 Sema3f  semaphorin 3F  Sema3f  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3 F  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sema3f  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3 F   Sema3f_predicted  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3 F (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sema3f_predicted  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3 F (predicted)      Symbol and Name status set to approved 70820 APPROVED