SEC23B (SEC23 homolog B, COPII coat complex component) - Rat Genome Database

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Gene: SEC23B (SEC23 homolog B, COPII coat complex component) Sus scrofa
Analyze
Symbol: SEC23B
Name: SEC23 homolog B, COPII coat complex component
RGD ID: 14221326
Description: ENCODES a protein that exhibits GTPase activator activity (inferred); metal ion binding (inferred); zinc ion binding (inferred); INVOLVED IN COPII-coated vesicle budding (inferred); COPII-coated vesicle cargo loading (inferred); endoplasmic reticulum to Golgi vesicle-mediated transport (inferred); ASSOCIATED WITH congenital dyserythropoietic anemia (ortholog); congenital dyserythropoietic anemia type II (ortholog); COVID-19 (ortholog); FOUND IN COPII vesicle coat (inferred); cytoplasm (inferred); cytoplasmic vesicle (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: protein transport protein Sec23B; SEC23 homolog B, coat complex II component
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1726,760,046 - 26,801,665 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11726,760,048 - 26,801,091 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21730,249,289 - 30,290,688 (+)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

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SEC23B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1726,760,046 - 26,801,665 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11726,760,048 - 26,801,091 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21730,249,289 - 30,290,688 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SEC23B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382018,507,548 - 18,561,415 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2018,507,520 - 18,561,415 (+)EnsemblGRCh38hg38GRCh38
GRCh372018,488,192 - 18,542,059 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362018,436,188 - 18,490,050 (+)NCBINCBI36Build 36hg18NCBI36
Build 342018,436,215 - 18,489,765NCBI
Celera2018,562,250 - 18,616,127 (+)NCBICelera
Cytogenetic Map20p11.23NCBI
HuRef2018,450,225 - 18,503,433 (+)NCBIHuRef
CHM1_12018,488,192 - 18,542,097 (+)NCBICHM1_1
T2T-CHM13v2.02018,558,602 - 18,612,485 (+)NCBIT2T-CHM13v2.0
Sec23b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392144,398,165 - 144,432,673 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2144,398,149 - 144,432,669 (+)EnsemblGRCm39 Ensembl
GRCm382144,556,229 - 144,590,753 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2144,556,229 - 144,590,749 (+)EnsemblGRCm38mm10GRCm38
MGSCv372144,382,013 - 144,416,479 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362144,247,718 - 144,282,184 (+)NCBIMGSCv36mm8
Celera2145,742,209 - 145,777,190 (+)NCBICelera
Cytogenetic Map2G1NCBI
cM Map271.02NCBI
Sec23b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83152,392,340 - 152,434,813 (+)NCBIGRCr8
mRatBN7.23131,939,011 - 131,981,489 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3131,939,337 - 131,981,489 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3135,868,472 - 135,910,061 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03144,452,554 - 144,494,146 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03142,155,762 - 142,197,355 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03138,715,118 - 138,757,111 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3138,715,570 - 138,757,111 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03145,145,179 - 145,186,907 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43133,104,883 - 133,146,712 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13133,010,734 - 133,052,284 (+)NCBI
Celera3130,833,375 - 130,875,027 (+)NCBICelera
Cytogenetic Map3q41NCBI
Sec23b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541527,044,695 - 27,075,028 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541527,044,694 - 27,075,028 (+)NCBIChiLan1.0ChiLan1.0
SEC23B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22119,399,228 - 19,452,873 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12019,396,068 - 19,449,705 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02018,469,182 - 18,523,114 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12018,440,121 - 18,493,512 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2018,440,121 - 18,493,512 (+)Ensemblpanpan1.1panPan2
SEC23B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1244,663,043 - 4,700,949 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl244,663,302 - 4,727,920 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha244,593,587 - 4,631,785 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0245,070,555 - 5,108,719 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl245,069,939 - 5,107,914 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1244,670,260 - 4,708,579 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0244,774,884 - 4,813,177 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0245,053,435 - 5,091,788 (-)NCBIUU_Cfam_GSD_1.0
Sec23b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640153,311,636 - 153,350,453 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364851,741,544 - 1,782,034 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364851,743,848 - 1,781,824 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC23B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1247,569,734 - 47,618,229 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl247,569,727 - 47,618,295 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660782,303,001 - 2,369,281 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sec23b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474119,222,628 - 19,259,735 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474119,222,584 - 19,255,400 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SEC23B
1599 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 8 2 3 5 23 2 3 3
Low 2 2 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000039781   ⟹   ENSSSCP00000045509
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1726,760,087 - 26,801,665 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000043508   ⟹   ENSSSCP00000045935
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1726,760,046 - 26,801,155 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000059520   ⟹   ENSSSCP00000047966
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1726,760,087 - 26,801,665 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000101788   ⟹   ENSSSCP00000075084
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1726,760,087 - 26,801,665 (+)Ensembl
RefSeq Acc Id: NM_001267832   ⟹   NP_001254761
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11726,760,048 - 26,800,828 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005672715   ⟹   XP_005672772
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11726,760,058 - 26,801,091 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021077268   ⟹   XP_020932927
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11726,760,068 - 26,801,091 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021077269   ⟹   XP_020932928
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11726,760,491 - 26,801,091 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021077270   ⟹   XP_020932929
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11726,760,494 - 26,801,091 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001254761   ⟸   NM_001267832
- UniProtKB: F1SBH2 (UniProtKB/TrEMBL),   A0A4X1V0I4 (UniProtKB/TrEMBL),   A0A8D0MKQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005672772   ⟸   XM_005672715
- Peptide Label: isoform X1
- UniProtKB: F1SBH2 (UniProtKB/TrEMBL),   A0A4X1V0I4 (UniProtKB/TrEMBL),   A0A8D0MKQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020932927   ⟸   XM_021077268
- Peptide Label: isoform X1
- UniProtKB: A0A4X1V0I4 (UniProtKB/TrEMBL),   F1SBH2 (UniProtKB/TrEMBL),   A0A8D0MKQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020932928   ⟸   XM_021077269
- Peptide Label: isoform X1
- UniProtKB: A0A4X1V0I4 (UniProtKB/TrEMBL),   F1SBH2 (UniProtKB/TrEMBL),   A0A8D0MKQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020932929   ⟸   XM_021077270
- Peptide Label: isoform X1
- UniProtKB: A0A4X1V0I4 (UniProtKB/TrEMBL),   F1SBH2 (UniProtKB/TrEMBL),   A0A8D0MKQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000045509   ⟸   ENSSSCT00000039781
RefSeq Acc Id: ENSSSCP00000047966   ⟸   ENSSSCT00000059520
RefSeq Acc Id: ENSSSCP00000045935   ⟸   ENSSSCT00000043508
RefSeq Acc Id: ENSSSCP00000075084   ⟸   ENSSSCT00000101788
Protein Domains
Gelsolin-like   Sec23/Sec24 beta-sandwich   Sec23/Sec24 helical   Sec23/Sec24 trunk   Zinc finger Sec23/Sec24-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000007097 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015008157 UniProtKB/TrEMBL
  ENSSSCG00025064857 UniProtKB/TrEMBL
  ENSSSCG00030041121 UniProtKB/TrEMBL
  ENSSSCG00035016573 UniProtKB/TrEMBL
  ENSSSCG00040050269 UniProtKB/TrEMBL
  ENSSSCG00045028619 UniProtKB/TrEMBL
  ENSSSCG00050041935 UniProtKB/TrEMBL
  ENSSSCG00060006683 UniProtKB/TrEMBL
  ENSSSCG00065052677 UniProtKB/TrEMBL
  ENSSSCG00070020930 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000039781.3 UniProtKB/TrEMBL
  ENSSSCT00000043508.2 UniProtKB/TrEMBL
  ENSSSCT00000059520 ENTREZGENE
  ENSSSCT00000059520.3 UniProtKB/TrEMBL
  ENSSSCT00000101788.1 UniProtKB/TrEMBL
  ENSSSCT00015010908.1 UniProtKB/TrEMBL
  ENSSSCT00015011306.1 UniProtKB/TrEMBL
  ENSSSCT00025089065.1 UniProtKB/TrEMBL
  ENSSSCT00025089351.1 UniProtKB/TrEMBL
  ENSSSCT00025089683.1 UniProtKB/TrEMBL
  ENSSSCT00030057121.1 UniProtKB/TrEMBL
  ENSSSCT00030057145.1 UniProtKB/TrEMBL
  ENSSSCT00030057161.1 UniProtKB/TrEMBL
  ENSSSCT00035021201.1 UniProtKB/TrEMBL
  ENSSSCT00035021206.1 UniProtKB/TrEMBL
  ENSSSCT00035021212.1 UniProtKB/TrEMBL
  ENSSSCT00040068049.1 UniProtKB/TrEMBL
  ENSSSCT00040068210.1 UniProtKB/TrEMBL
  ENSSSCT00040068413.1 UniProtKB/TrEMBL
  ENSSSCT00045048837.1 UniProtKB/TrEMBL
  ENSSSCT00045048989.1 UniProtKB/TrEMBL
  ENSSSCT00045049165.1 UniProtKB/TrEMBL
  ENSSSCT00050056972.1 UniProtKB/TrEMBL
  ENSSSCT00050056978.1 UniProtKB/TrEMBL
  ENSSSCT00050056980.1 UniProtKB/TrEMBL
  ENSSSCT00060008506.1 UniProtKB/TrEMBL
  ENSSSCT00060008510.1 UniProtKB/TrEMBL
  ENSSSCT00060008515.1 UniProtKB/TrEMBL
  ENSSSCT00065072140.1 UniProtKB/TrEMBL
  ENSSSCT00065072156.1 UniProtKB/TrEMBL
  ENSSSCT00065072168.1 UniProtKB/TrEMBL
  ENSSSCT00070041778.1 UniProtKB/TrEMBL
  ENSSSCT00070041792.1 UniProtKB/TrEMBL
  ENSSSCT00070041807.1 UniProtKB/TrEMBL
  ENSSSCT00070041829.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.20.10 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
  beta-sandwich domain of Sec23/24 UniProtKB/TrEMBL
  Sec23/Sec24 helical domain UniProtKB/TrEMBL
  Zn-finger domain of Sec23/24 UniProtKB/TrEMBL
InterPro ADF-H/Gelsolin-like_dom_sf UniProtKB/TrEMBL
  Gelsolin-like_dom UniProtKB/TrEMBL
  Gelsolin-like_dom_sf UniProtKB/TrEMBL
  Sec23 UniProtKB/TrEMBL
  Sec23/24_helical_dom UniProtKB/TrEMBL
  Sec23/24_helical_dom_sf UniProtKB/TrEMBL
  Sec23/24_trunk_dom UniProtKB/TrEMBL
  Sec23_24_beta_S UniProtKB/TrEMBL
  Sec23_C UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
  Znf_Sec23_Sec24 UniProtKB/TrEMBL
  Znf_Sec23_Sec24_sf UniProtKB/TrEMBL
KEGG Report ssc:100524115 UniProtKB/TrEMBL
NCBI Gene SEC23B ENTREZGENE
PANTHER PROTEIN TRANSPORT PROTEIN SEC23B UniProtKB/TrEMBL
  PTHR11141 UniProtKB/TrEMBL
Pfam Gelsolin UniProtKB/TrEMBL
  Sec23_BS UniProtKB/TrEMBL
  Sec23_helical UniProtKB/TrEMBL
  Sec23_trunk UniProtKB/TrEMBL
  zf-Sec23_Sec24 UniProtKB/TrEMBL
Superfamily-SCOP beta-sandwich domain of Sec23/24 UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF81811 UniProtKB/TrEMBL
  SSF82754 UniProtKB/TrEMBL
  SSF82919 UniProtKB/TrEMBL
UniProt A0A287ANP4_PIG UniProtKB/TrEMBL
  A0A287API3_PIG UniProtKB/TrEMBL
  A0A4X1V0I4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1V216_PIG UniProtKB/TrEMBL
  A0A4X1V234_PIG UniProtKB/TrEMBL
  A0A8D0MKQ6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4F797_PIG UniProtKB/TrEMBL
  F1SBH2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:95490 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-10-16 SEC23B  SEC23 homolog B, COPII coat complex component  SEC23B  SEC23 homolog B, coat complex II component  Symbol and/or name change 5135510 APPROVED
2019-04-23 SEC23B  SEC23 homolog B, coat complex II component    Sec23 homolog B, coat complex II component  Symbol and/or name change 5135510 APPROVED