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; neuropilin binding activity; and semaphorin receptor binding activity. Predicted to be involved in several processes, including nervous system development; semaphorin-plexin signaling pathway; and ventral trunk neural crest cell migration. Predicted to act upstream of or within negative regulation of axon extension involved in axon guidance and 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 Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,236,269 - 117,265,206 (-)NCBIGRCr8
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


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sema3fRatAicardi-Goutieres Syndrome 1  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Aicardi-Goutieres syndrome 1ClinVarPMID:16845398 and PMID:28492532
Sema3fRatdevelopmental and epileptic encephalopathy  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Developmental and epileptic encephalopathyClinVarPMID:24358150 and PMID:28492532
Sema3fRatearly infantile epileptic encephalopathy  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Early infantile epileptic encephalopathyClinVarPMID:24358150 and PMID:28492532
Sema3fRatHearing Loss  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Hearing impairmentClinVarPMID:30311386
Sema3fRathypogonadotropic hypogonadism  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Hypogonadotropic hypogonadismClinVarPMID:25741868
Sema3fRatKlinefelter syndrome  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Hypogonadotropic hypogonadismClinVarPMID:25741868
Sema3fRatprimary ciliary dyskinesia  ISOSEMA3F (Homo sapiens)8554872ClinVar Annotator: match by term: Primary ciliary dyskinesiaClinVarPMID:28492532
Object Symbol
Species
Term
Qualifier
Evidence
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Reference
Notes
Source
Original Reference(s)
Sema3fRatEndometrial Neoplasms  ISOSEMA3F (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:21933904

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Object Symbol
Species
Term
Qualifier
Evidence
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Reference
Notes
Source
Original Reference(s)
Sema3fRat(+)-schisandrin B multiple interactionsEXP 6480464schizandrin B inhibits the reaction [Carbon Tetrachloride results in increased expression of SEMA3F mRNA]CTDPMID:31150632
Sema3fRat(-)-citrinin decreases expressionISOSEMA3F (Homo sapiens)6480464Citrinin results in decreased expression of SEMA3F mRNACTDPMID:36460223
Sema3fRat1,2-dimethylhydrazine increases expressionISOSema3f (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of SEMA3F mRNACTDPMID:22206623
Sema3fRat17alpha-ethynylestradiol affects expressionISOSema3f (Mus musculus)6480464Ethinyl Estradiol affects the expression of SEMA3F mRNACTDPMID:17555576
Sema3fRat17alpha-ethynylestradiol multiple interactionsISOSema3f (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of SEMA3F mRNACTDPMID:17942748
Sema3fRat17alpha-ethynylestradiol increases expressionISOSema3f (Mus musculus)6480464Ethinyl Estradiol results in increased expression of SEMA3F mRNACTDPMID:17942748
Sema3fRat17beta-estradiol multiple interactionsISOSEMA3F (Homo sapiens)6480464Estradiol promotes the reaction [ESR2 protein affects the expression of SEMA3F mRNA]CTDPMID:20404318
Sema3fRat2,2',5,5'-tetrachlorobiphenyl increases expressionISOSEMA3F (Homo sapiens)64804642 more ...CTDPMID:36804509
Sema3fRat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOSema3f (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of SEMA3F mRNACTDPMID:17942748
Sema3fRat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of SEMA3F mRNACTDPMID:33387578 and PMID:34747641
Sema3fRat2-hydroxypropanoic acid decreases expressionISOSEMA3F (Homo sapiens)6480464Lactic Acid results in decreased expression of SEMA3F mRNACTDPMID:30851411
Sema3fRat4,4'-sulfonyldiphenol affects methylationISOSema3f (Mus musculus)6480464bisphenol S affects the methylation of SEMA3F geneCTDPMID:31683443
Sema3fRat4-hydroxyphenyl retinamide increases expressionISOSema3f (Mus musculus)6480464Fenretinide results in increased expression of SEMA3F mRNACTDPMID:28973697
Sema3fRat6-propyl-2-thiouracil increases expressionEXP 6480464Propylthiouracil results in increased expression of SEMA3F mRNACTDPMID:30047161
Sema3fRatacrolein multiple interactionsISOSEMA3F (Homo sapiens)6480464[Acrolein co-treated with methacrylaldehyde co-treated with alpha-pinene co-treated with Ozone] results in decreased expression of SEMA3F mRNA and [Air Pollutants results in increased abundance of [Acrolein co-treated with methacrylaldehyde co-treated with alpha-pinene co-treated with Ozone]] which results in decreased expression of SEMA3F mRNACTDPMID:32699268
Sema3fRatacrylamide decreases expressionISOSEMA3F (Homo sapiens)6480464Acrylamide results in decreased expression of SEMA3F mRNACTDPMID:32763439
Sema3fRataflatoxin B1 affects expressionISOSEMA3F (Homo sapiens)6480464Aflatoxin B1 affects the expression of SEMA3F proteinCTDPMID:20106945
Sema3fRataflatoxin B1 increases expressionISOSEMA3F (Homo sapiens)6480464Aflatoxin B1 results in increased expression of SEMA3F mRNACTDPMID:21641981
Sema3fRatAflatoxin B2 alpha increases methylationISOSEMA3F (Homo sapiens)6480464aflatoxin B2 results in increased methylation of SEMA3F intronCTDPMID:30157460
Sema3fRatalpha-pinene multiple interactionsISOSEMA3F (Homo sapiens)6480464[Acrolein co-treated with methacrylaldehyde co-treated with alpha-pinene co-treated with Ozone] results in decreased expression of SEMA3F mRNA and [Air Pollutants results in increased abundance of [Acrolein co-treated with methacrylaldehyde co-treated with alpha-pinene co-treated with Ozone]] which results in decreased expression of SEMA3F mRNACTDPMID:32699268

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Biological Process
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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sema3fRataxon extension involved in axon guidance involved_inISOSema3f (Mus musculus)1624291 PMID:22790009RGDPMID:22790009
Sema3fRataxon extension involved in axon guidance acts_upstream_ofIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRataxon extension involved in axon guidance acts_upstream_ofISOSema3f (Mus musculus)1624291MGI:107683 PMID:11683995 and PMID:9753685RGDPMID:11683995 and PMID:9753685
Sema3fRataxon guidance acts_upstream_of_or_withinISOSEMA3F (Homo sapiens)1624291 PMID:15814794RGDPMID:15814794
Sema3fRataxon guidance acts_upstream_of_or_withinIEAUniProtKB:Q13275 and ensembl:ENSP000000028291600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRataxon guidance acts_upstream_of_or_withinIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRataxon guidance acts_upstream_of_or_withinISOSema3f (Mus musculus)1624291 PMID:12435358RGDPMID:12435358
Sema3fRataxon guidance involved_inIBAFB:FBgn0011259 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sema3fRatbranchiomotor neuron axon guidance involved_inISOSema3f (Mus musculus)1624291 PMID:18804103RGDPMID:18804103
Sema3fRatbranchiomotor neuron axon guidance involved_inIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatfacial nerve structural organization involved_inISOSema3f (Mus musculus)1624291 PMID:18804103RGDPMID:18804103
Sema3fRatfacial nerve structural organization involved_inIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatnegative chemotaxis involved_inIBAFB:FBgn0011260 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sema3fRatnegative chemotaxis acts_upstream_of_or_withinIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatnegative chemotaxis acts_upstream_of_or_withinISOSema3f (Mus musculus)1624291MGI:107683 more ...RGDPMID:11683995 and PMID:16319111
Sema3fRatnegative regulation of axon extension involved in axon guidance acts_upstream_of_or_withinIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatnegative regulation of axon extension involved in axon guidance acts_upstream_of_or_withinISOSema3f (Mus musculus)1624291MGI:107683 PMID:11683995 and PMID:9753685RGDPMID:11683995 and PMID:9753685
Sema3fRatnerve development involved_inISOSema3f (Mus musculus)1624291 PMID:22790009RGDPMID:22790009
Sema3fRatnerve development involved_inIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatneural crest cell migration involved_inIBAMGI:107557 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
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Cellular Component

  
Object Symbol
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Reference
Notes
Source
Original Reference(s)
Sema3fRatglutamatergic synapse is_active_inISOSema3f (Mus musculus)1624291 PMID:20010807 and PMID:25143608RGDPMID:20010807 and PMID:25143608
Sema3fRatglutamatergic synapse is_active_inIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatplasma membrane is_active_inIBAMGI:107559 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function
1 to 9 of 9 rows

  
Object Symbol
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Qualifier
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Reference
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Source
Original Reference(s)
Sema3fRatchemorepellent activity enablesISOSEMA3F (Homo sapiens)1624291 PMID:15814794RGDPMID:15814794
Sema3fRatchemorepellent activity enablesIEAUniProtKB:O88632 and ensembl:ENSMUSP000000794001600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatchemorepellent activity enablesIBAMGI:107558 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sema3fRatchemorepellent activity enablesIEAUniProtKB:Q13275 and ensembl:ENSP000000028291600115GO_REF:0000107EnsemblGO_REF:0000107
Sema3fRatchemorepellent activity enablesISOSema3f (Mus musculus)1624291 PMID:11683995 more ...RGDPMID:11683995 more ...
Sema3fRatneuropilin binding enablesIBAMGI:107558 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sema3fRatsemaphorin receptor binding enablesIBAMGI:107556 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sema3fRatsemaphorin receptor binding enablesIEAInterPro:IPR0272311600115GO_REF:0000002InterProGO_REF:0000002
Sema3fRatsignaling receptor binding enablesIEAARBA:ARBA000272391600115GO_REF:0000117UniProtGO_REF:0000117
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#
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.
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  



Sema3f
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,236,269 - 117,265,206 (-)NCBIGRCr8
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_mPanPan1-v2250,138,188 - 50,171,978 (+)NCBINHGRI_mPanPan1-v2
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

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Variants in Sema3f
80 total Variants

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.


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The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
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
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat

1 to 10 of 23 rows
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




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31


1 to 18 of 18 rows
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
  XM_063265627 (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
  JAXUCZ010000008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 18 of 18 rows

Ensembl 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
Ensembl 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
GRCr88117,236,269 - 117,265,206 (-)NCBI
mRatBN7.28108,357,629 - 108,386,569 (-)NCBI
RefSeq Acc Id: XM_039081588   ⟹   XP_038937516
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,236,269 - 117,264,807 (-)NCBI
mRatBN7.28108,357,629 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081590   ⟹   XP_038937518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,236,269 - 117,264,807 (-)NCBI
mRatBN7.28108,358,450 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081591   ⟹   XP_038937519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,236,269 - 117,264,807 (-)NCBI
mRatBN7.28108,358,554 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_039081592   ⟹   XP_038937520
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,236,269 - 117,246,204 (-)NCBI
mRatBN7.28108,357,629 - 108,367,563 (-)NCBI
RefSeq Acc Id: XM_039081593   ⟹   XP_038937521
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,240,009 - 117,264,807 (-)NCBI
mRatBN7.28108,361,375 - 108,386,170 (-)NCBI
RefSeq Acc Id: XM_063265627   ⟹   XP_063121697
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,236,269 - 117,264,809 (-)NCBI
RefSeq Acc Id: XR_005487846
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,239,174 - 117,264,807 (-)NCBI
mRatBN7.28108,359,924 - 108,386,170 (-)NCBI
RefSeq Acc Id: XR_005487847
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,239,174 - 117,264,807 (-)NCBI
mRatBN7.28108,359,924 - 108,386,170 (-)NCBI
Ensembl Acc Id: ENSRNOP00000024193   ⟸   ENSRNOT00000024193
Ensembl Acc Id: ENSRNOP00000071565   ⟸   ENSRNOT00000085915
RefSeq Acc Id: XP_038937516   ⟸   XM_039081588
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937520   ⟸   XM_039081592
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038937518   ⟸   XM_039081590
- Peptide Label: isoform X2
- UniProtKB: D3ZGX9 (UniProtKB/TrEMBL),   A6I309 (UniProtKB/TrEMBL)
Ig-like   Sema

Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0S6-F1-model_v2 AlphaFold A0A0G2K0S6 1-802 view protein structure


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



1 to 40 of 40 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-29177 BioCyc
Ensembl Genes ENSRNOG00000017704 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024193 ENTREZGENE
  ENSRNOT00000024193.6 UniProtKB/TrEMBL
  ENSRNOT00000085915 ENTREZGENE
  ENSRNOT00000085915.2 UniProtKB/TrEMBL
  ENSRNOT00000144059 ENTREZGENE
  ENSRNOT00000165502 ENTREZGENE
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
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
1 to 40 of 40 rows


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