SEMA3B (semaphorin 3B) - Rat Genome Database

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Gene: SEMA3B (semaphorin 3B) Sus scrofa
Analyze
Symbol: SEMA3B
Name: semaphorin 3B
RGD ID: 14194588
Description: ENCODES a protein that exhibits chemorepellent activity (inferred); semaphorin receptor binding (inferred); INVOLVED IN axon guidance (inferred); negative chemotaxis (inferred); negative regulation of axon extension involved in axon guidance (inferred); ASSOCIATED WITH Aicardi-Goutieres Syndrome 1 (ortholog); developmental and epileptic encephalopathy (ortholog); early infantile epileptic encephalopathy (ortholog); FOUND IN membrane (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: semaphorin-3B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1332,740,802 - 32,749,621 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11332,737,100 - 32,749,633 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,919,463 - 35,927,775 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SEMA3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1332,740,802 - 32,749,621 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11332,737,100 - 32,749,633 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,919,463 - 35,927,775 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SEMA3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38350,267,652 - 50,277,546 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl350,267,558 - 50,277,546 (+)EnsemblGRCh38hg38GRCh38
GRCh37350,305,084 - 50,314,977 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36350,280,044 - 50,289,577 (+)NCBINCBI36Build 36hg18NCBI36
Build 34350,280,043 - 50,289,574NCBI
Celera350,277,865 - 50,287,398 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef350,360,724 - 50,370,309 (+)NCBIHuRef
CHM1_1350,257,309 - 50,266,855 (+)NCBICHM1_1
T2T-CHM13v2.0350,296,986 - 50,306,895 (+)NCBIT2T-CHM13v2.0
Sema3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399107,474,868 - 107,486,440 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9107,474,873 - 107,486,428 (-)EnsemblGRCm39 Ensembl
GRCm389107,597,674 - 107,609,241 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9107,597,674 - 107,609,229 (-)EnsemblGRCm38mm10GRCm38
MGSCv379107,500,446 - 107,511,572 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369107,456,456 - 107,463,503 (-)NCBIMGSCv36mm8
Celera9107,206,897 - 107,218,025 (-)NCBICelera
Cytogenetic Map9F1NCBI
cM Map958.31NCBI
Sema3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,150,307 - 117,161,570 (-)NCBIGRCr8
mRatBN7.28108,271,663 - 108,280,326 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,271,666 - 108,282,919 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8113,898,774 - 113,905,848 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08112,097,931 - 112,105,006 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08109,940,713 - 109,947,788 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08116,353,791 - 116,362,655 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,354,073 - 116,361,343 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08115,710,050 - 115,719,431 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48112,845,709 - 112,852,565 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18112,864,748 - 112,872,108 (-)NCBI
Celera8107,578,526 - 107,585,547 (-)NCBICelera
Cytogenetic Map8q32NCBI
Sema3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555322,085,319 - 2,093,499 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555322,083,457 - 2,093,327 (+)NCBIChiLan1.0ChiLan1.0
SEMA3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2250,250,324 - 50,260,206 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1350,255,405 - 50,264,981 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0350,196,147 - 50,205,744 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1351,422,950 - 51,439,886 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl351,430,287 - 51,439,886 (+)Ensemblpanpan1.1panPan2
SEMA3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12039,058,708 - 39,067,277 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2039,059,245 - 39,065,661 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2038,974,188 - 38,988,336 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02039,409,187 - 39,423,343 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2039,414,753 - 39,422,185 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12038,777,009 - 38,791,156 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02039,180,520 - 39,194,640 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02039,460,589 - 39,474,738 (-)NCBIUU_Cfam_GSD_1.0
Sema3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560265,041,922 - 65,057,875 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365291,802,982 - 1,818,736 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365291,806,535 - 1,818,352 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12211,652,766 - 11,664,902 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2211,656,918 - 11,665,418 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041155,321,955 - 155,334,090 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247304,131,057 - 4,142,374 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247304,131,329 - 4,142,126 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SEMA3B
158 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2 2
Low 8 4 3 5 2 17 3 3
Below cutoff 6

Sequence


RefSeq Acc Id: ENSSSCT00000049931   ⟹   ENSSSCP00000039936
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1332,740,802 - 32,749,621 (+)Ensembl
RefSeq Acc Id: XM_001927855   ⟹   XP_001927890
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,740,808 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005669591   ⟹   XP_005669648
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,740,802 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013981737   ⟹   XP_013837191
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,740,808 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013981738   ⟹   XP_013837192
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,744,472 - 32,749,633 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068807   ⟹   XP_020924466
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,740,377 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068808   ⟹   XP_020924467
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,737,100 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068810   ⟹   XP_020924469
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,742,130 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068811   ⟹   XP_020924470
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,742,395 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068812   ⟹   XP_020924471
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,740,381 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021068813   ⟹   XP_020924472
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11332,742,225 - 32,749,610 (+)NCBI
Sequence:
RefSeq Acc Id: XP_020924467   ⟸   XM_021068808
- Peptide Label: isoform X1
- UniProtKB: A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924466   ⟸   XM_021068807
- Peptide Label: isoform X1
- UniProtKB: A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924471   ⟸   XM_021068812
- Peptide Label: isoform X2
- UniProtKB: A0A8D0TCA8 (UniProtKB/TrEMBL),   A0A287A834 (UniProtKB/TrEMBL),   A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005669648   ⟸   XM_005669591
- Peptide Label: isoform X2
- UniProtKB: A0A8D0TCA8 (UniProtKB/TrEMBL),   A0A287A834 (UniProtKB/TrEMBL),   A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013837191   ⟸   XM_013981737
- Peptide Label: isoform X1
- UniProtKB: A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_001927890   ⟸   XM_001927855
- Peptide Label: isoform X1
- UniProtKB: A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924469   ⟸   XM_021068810
- Peptide Label: isoform X1
- UniProtKB: A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924472   ⟸   XM_021068813
- Peptide Label: isoform X2
- UniProtKB: A0A8D0TCA8 (UniProtKB/TrEMBL),   A0A287A834 (UniProtKB/TrEMBL),   A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924470   ⟸   XM_021068811
- Peptide Label: isoform X2
- UniProtKB: A0A8D0TCA8 (UniProtKB/TrEMBL),   A0A287A834 (UniProtKB/TrEMBL),   A0A8D1HHJ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013837192   ⟸   XM_013981738
- Peptide Label: isoform X3
- UniProtKB: A0A480PWU8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000039936   ⟸   ENSSSCT00000049931
Protein Domains
Ig-like   Sema


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011400 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005039619 UniProtKB/TrEMBL
  ENSSSCG00015078123 UniProtKB/TrEMBL
  ENSSSCG00025073011 UniProtKB/TrEMBL
  ENSSSCG00030051590 UniProtKB/TrEMBL
  ENSSSCG00035080637 UniProtKB/TrEMBL
  ENSSSCG00040073635 UniProtKB/TrEMBL
  ENSSSCG00045016378 UniProtKB/TrEMBL
  ENSSSCG00050054006 UniProtKB/TrEMBL
  ENSSSCG00055004519 UniProtKB/TrEMBL
  ENSSSCG00065071018 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000049931 ENTREZGENE
  ENSSSCT00000049931.3 UniProtKB/TrEMBL
  ENSSSCT00005064436.1 UniProtKB/TrEMBL
  ENSSSCT00005064495.1 UniProtKB/TrEMBL
  ENSSSCT00005064525.1 UniProtKB/TrEMBL
  ENSSSCT00005064547.1 UniProtKB/TrEMBL
  ENSSSCT00005064565.1 UniProtKB/TrEMBL
  ENSSSCT00015105649.1 UniProtKB/TrEMBL
  ENSSSCT00015105699.1 UniProtKB/TrEMBL
  ENSSSCT00015105727.1 UniProtKB/TrEMBL
  ENSSSCT00025100446.1 UniProtKB/TrEMBL
  ENSSSCT00025100695.1 UniProtKB/TrEMBL
  ENSSSCT00030071877.1 UniProtKB/TrEMBL
  ENSSSCT00030071930.1 UniProtKB/TrEMBL
  ENSSSCT00035110581.1 UniProtKB/TrEMBL
  ENSSSCT00035110598.1 UniProtKB/TrEMBL
  ENSSSCT00040101618.1 UniProtKB/TrEMBL
  ENSSSCT00040101664.1 UniProtKB/TrEMBL
  ENSSSCT00040101698.1 UniProtKB/TrEMBL
  ENSSSCT00045027857.1 UniProtKB/TrEMBL
  ENSSSCT00045028088.1 UniProtKB/TrEMBL
  ENSSSCT00050073623.1 UniProtKB/TrEMBL
  ENSSSCT00055009007.1 UniProtKB/TrEMBL
  ENSSSCT00055009023.1 UniProtKB/TrEMBL
  ENSSSCT00055009028.1 UniProtKB/TrEMBL
  ENSSSCT00055009036.1 UniProtKB/TrEMBL
  ENSSSCT00065097649.1 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_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Semap_dom UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
NCBI Gene SEMA3B ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-3B UniProtKB/TrEMBL
Pfam Sema UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  SEMA UniProtKB/TrEMBL
SMART PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP Plexin repeat UniProtKB/TrEMBL
  SSF101912 UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A287A834 ENTREZGENE, UniProtKB/TrEMBL
  A0A480PWU8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0K7F9_PIG UniProtKB/TrEMBL
  A0A8D0LW48_PIG UniProtKB/TrEMBL
  A0A8D0TCA8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0TPC2_PIG UniProtKB/TrEMBL
  A0A8D1HHJ1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1PT76_PIG UniProtKB/TrEMBL
UniProt Secondary A0A8D2BQX3 UniProtKB/TrEMBL
VGNC ID VGNC:92694 ENTREZGENE