SEMA3C (semaphorin 3C) - Rat Genome Database

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Gene: SEMA3C (semaphorin 3C) Sus scrofa
Analyze
Symbol: SEMA3C
Name: semaphorin 3C
RGD ID: 14178203
Description: ENCODES a protein that exhibits chemorepellent activity (inferred); semaphorin receptor binding (inferred); INVOLVED IN blood vessel remodeling (ortholog); dichotomous subdivision of terminal units involved in salivary gland branching (ortholog); heart development (ortholog); ASSOCIATED WITH epilepsy (ortholog); genetic disease (ortholog); High Myopia (ortholog); FOUND IN extracellular space (inferred); membrane (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C; semaphorin-3C
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 Ensembl999,251,715 - 99,433,224 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1999,114,649 - 99,432,683 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29109,599,201 - 109,733,310 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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
SEMA3C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl999,251,715 - 99,433,224 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1999,114,649 - 99,432,683 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29109,599,201 - 109,733,310 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SEMA3C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38780,742,538 - 80,922,389 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl780,742,538 - 80,922,359 (-)EnsemblGRCh38hg38GRCh38
GRCh37780,371,854 - 80,551,705 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36780,209,790 - 80,386,603 (-)NCBINCBI36Build 36hg18NCBI36
Build 34780,016,505 - 80,193,318NCBI
Celera775,072,464 - 75,249,324 (-)NCBICelera
Cytogenetic Map7q21.11NCBI
HuRef774,974,724 - 75,151,804 (-)NCBIHuRef
CHM1_1780,302,304 - 80,479,089 (-)NCBICHM1_1
T2T-CHM13v2.0781,993,843 - 82,173,749 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2779,703,271 - 79,880,104 (-)NCBI
Sema3c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39517,779,814 - 17,935,266 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl517,779,279 - 17,935,266 (+)EnsemblGRCm39 Ensembl
GRCm38517,574,816 - 17,730,268 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl517,574,281 - 17,730,268 (+)EnsemblGRCm38mm10GRCm38
MGSCv37517,080,634 - 17,236,086 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36517,086,640 - 17,242,092 (+)NCBIMGSCv36mm8
Celera514,560,250 - 14,706,435 (+)NCBICelera
Cytogenetic Map5A3NCBI
cM Map57.99NCBI
Sema3c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8418,538,452 - 18,702,453 (-)NCBIGRCr8
mRatBN7.2417,583,212 - 17,747,234 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl417,583,212 - 17,746,534 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx422,712,061 - 22,873,424 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0418,529,563 - 18,690,775 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0416,909,994 - 17,071,367 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0414,318,276 - 14,490,438 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl414,318,274 - 14,490,446 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0414,315,785 - 14,464,552 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0414,293,370 - 14,301,988 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4413,739,659 - 13,914,636 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1413,742,156 - 13,940,776 (-)NCBI
Celera413,120,876 - 13,281,356 (-)NCBICelera
Cytogenetic Map4q11NCBI
Sema3c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554104,794,477 - 4,954,906 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554104,795,658 - 4,953,460 (+)NCBIChiLan1.0ChiLan1.0
SEMA3C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2698,593,805 - 98,771,389 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17146,858,443 - 147,035,246 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0772,706,615 - 72,884,163 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1786,369,036 - 86,545,580 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl786,368,753 - 86,545,580 (-)Ensemblpanpan1.1panPan2
SEMA3C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11820,457,683 - 20,748,008 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1820,459,925 - 20,635,276 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1820,127,137 - 20,308,722 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01820,902,897 - 21,081,564 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1820,902,900 - 21,079,854 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11820,529,290 - 20,710,735 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01820,081,763 - 20,263,578 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01820,737,406 - 20,919,731 (-)NCBIUU_Cfam_GSD_1.0
Sema3c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511862,334,007 - 62,493,720 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936810903,304 - 1,063,024 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936810903,306 - 1,063,024 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA3C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12167,974,074 - 68,154,383 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2167,974,317 - 68,154,439 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604235,792,898 - 35,971,861 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema3c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473929,484,461 - 29,626,619 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473929,484,557 - 29,642,981 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SEMA3C
7607 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 3 3 1 2 2 1
Low 7 1 1 4 19 2 1 2
Below cutoff 2 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000031885   ⟹   ENSSSCP00000021357
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl999,251,715 - 99,433,224 (+)Ensembl
RefSeq Acc Id: XM_013979789   ⟹   XP_013835243
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1999,251,343 - 99,432,683 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063487   ⟹   XP_020919146
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1999,114,649 - 99,432,683 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063488   ⟹   XP_020919147
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1999,325,598 - 99,432,683 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020919146   ⟸   XM_021063487
- Peptide Label: isoform X2
- UniProtKB: A0A8D0WWF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013835243   ⟸   XM_013979789
- Peptide Label: isoform X1
- UniProtKB: A0A4X1SJN6 (UniProtKB/TrEMBL),   K9J6H1 (UniProtKB/TrEMBL),   I3LBD8 (UniProtKB/TrEMBL),   A0A8D0WWF9 (UniProtKB/TrEMBL),   A0A8D1JEB0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020919147   ⟸   XM_021063488
- Peptide Label: isoform X2
- UniProtKB: A0A8D0WWF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000021357   ⟸   ENSSSCT00000031885
Protein Domains
Ig-like   Sema


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000023784 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005018042 UniProtKB/TrEMBL
  ENSSSCG00015036881 UniProtKB/TrEMBL
  ENSSSCG00030045028 UniProtKB/TrEMBL
  ENSSSCG00035057802 UniProtKB/TrEMBL
  ENSSSCG00040024881 UniProtKB/TrEMBL
  ENSSSCG00045037878 UniProtKB/TrEMBL
  ENSSSCG00050021816 UniProtKB/TrEMBL
  ENSSSCG00055021211 UniProtKB/TrEMBL
  ENSSSCG00060032915 UniProtKB/TrEMBL
  ENSSSCG00065057763 UniProtKB/TrEMBL
  ENSSSCG00070001415 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000031885 ENTREZGENE
  ENSSSCT00000031885.4 UniProtKB/TrEMBL
  ENSSSCT00005028690.1 UniProtKB/TrEMBL
  ENSSSCT00015049185.1 UniProtKB/TrEMBL
  ENSSSCT00030062836.1 UniProtKB/TrEMBL
  ENSSSCT00030062870.1 UniProtKB/TrEMBL
  ENSSSCT00035077325.1 UniProtKB/TrEMBL
  ENSSSCT00040033286.1 UniProtKB/TrEMBL
  ENSSSCT00045065483.1 UniProtKB/TrEMBL
  ENSSSCT00050029419.1 UniProtKB/TrEMBL
  ENSSSCT00055041673.1 UniProtKB/TrEMBL
  ENSSSCT00060044562.1 UniProtKB/TrEMBL
  ENSSSCT00065079059.1 UniProtKB/TrEMBL
  ENSSSCT00070002716.1 UniProtKB/TrEMBL
  ENSSSCT00070002739.1 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_I-set 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 SEMA3C ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-3C UniProtKB/TrEMBL
Pfam I-set UniProtKB/TrEMBL
  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 A0A4X1SIW8_PIG UniProtKB/TrEMBL
  A0A4X1SJN6 ENTREZGENE
  A0A8D0WWF9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1JEB0 ENTREZGENE, UniProtKB/TrEMBL
  I3LBD8 ENTREZGENE, UniProtKB/TrEMBL
  K9J6H1 ENTREZGENE
UniProt Secondary A0A4X1SJN6 UniProtKB/TrEMBL
  K9J6H1 UniProtKB/TrEMBL
VGNC ID VGNC:92695 ENTREZGENE