SEC22B (SEC22 homolog B, vesicle trafficking protein) - Rat Genome Database

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Gene: SEC22B (SEC22 homolog B, vesicle trafficking protein) Chlorocebus sabaeus
Analyze
Symbol: SEC22B
Name: SEC22 homolog B, vesicle trafficking protein
RGD ID: 18538429
Description: ENCODES a protein that exhibits syntaxin binding (ortholog); INVOLVED IN vesicle-mediated transport (ortholog); FOUND IN COPI-coated vesicle (ortholog); SNARE complex (ortholog); synaptic vesicle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vesicle-trafficking protein SEC22b
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12013,602,852 - 13,624,483 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2013,602,870 - 13,622,650 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603816,237,498 - 16,259,142 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SEC22B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12013,602,852 - 13,624,483 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2013,602,870 - 13,622,650 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603816,237,498 - 16,259,142 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SEC22B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381120,150,898 - 120,176,520 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1120,150,898 - 120,176,520 (-)EnsemblGRCh38hg38GRCh38
GRCh371120,693,460 - 120,697,156 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361143,807,764 - 143,828,279 (+)NCBINCBI36Build 36hg18NCBI36
Build 341142,585,471 - 142,606,033NCBI
Cytogenetic Map1p12NCBI
CHM1_11120,814,032 - 120,834,611 (-)NCBICHM1_1
T2T-CHM13v2.01120,164,165 - 120,189,787 (-)NCBIT2T-CHM13v2.0
Sec22b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39397,808,543 - 97,829,634 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl397,808,506 - 97,830,592 (+)EnsemblGRCm39 Ensembl
GRCm38397,901,227 - 97,922,318 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl397,901,190 - 97,923,276 (+)EnsemblGRCm38mm10GRCm38
MGSCv37397,705,150 - 97,726,241 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36397,986,632 - 98,007,723 (+)NCBIMGSCv36mm8
Celera399,300,229 - 99,321,320 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map342.35NCBI
Sec22b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82188,188,783 - 188,209,565 (+)NCBIGRCr8
mRatBN7.22185,500,029 - 185,520,811 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2185,500,004 - 185,522,026 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2193,147,655 - 193,169,369 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02190,956,128 - 190,977,833 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02185,780,242 - 185,801,956 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02200,076,079 - 200,096,861 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2200,076,054 - 200,098,076 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02219,551,836 - 219,572,618 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42192,743,195 - 192,763,977 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12192,705,948 - 192,726,731 (+)NCBI
Celera2177,991,104 - 178,011,886 (+)NCBICelera
Cytogenetic Map2q34NCBI
Sec22b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555681,559,452 - 1,587,782 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555681,559,519 - 1,587,782 (+)NCBIChiLan1.0ChiLan1.0
SEC22B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21112,798,509 - 112,819,801 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11112,400,981 - 112,422,292 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0182,383,313 - 82,404,612 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SEC22B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11757,094,038 - 57,115,891 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1757,053,218 - 57,115,886 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1756,732,928 - 56,754,271 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01757,974,306 - 57,996,180 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11756,998,099 - 57,020,005 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01757,034,820 - 57,056,678 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01757,682,634 - 57,704,489 (-)NCBIUU_Cfam_GSD_1.0
Sec22b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050582,791,486 - 2,844,458 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936872294,066 - 313,293 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936872294,116 - 313,893 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC22B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4100,880,937 - 100,905,993 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14100,880,843 - 100,900,942 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24110,848,659 - 110,868,687 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sec22b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477215,803,369 - 15,833,968 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477215,800,793 - 15,833,453 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 18 60
Low 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007977334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000016786   ⟹   ENSCSAP00000016285
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2013,602,870 - 13,622,650 (+)Ensembl
RefSeq Acc Id: XM_007977334   ⟹   XP_007975525
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12013,602,852 - 13,624,483 (+)NCBI
Vero_WHO_p1.0NW_02366603816,237,498 - 16,259,142 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007975525 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000016285
  ENSCSAP00000016285.1
Reference Protein Sequences
RefSeq Acc Id: XP_007975525   ⟸   XM_007977334
- UniProtKB: A0A0D9S5Z6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000016285   ⟸   ENSCSAT00000016786


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000001743 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000016786.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.110 UniProtKB/TrEMBL
  Longin domain UniProtKB/TrEMBL
InterPro Longin-like_dom_sf UniProtKB/TrEMBL
  Longin_dom UniProtKB/TrEMBL
  Sec22 UniProtKB/TrEMBL
  Synaptobrevin UniProtKB/TrEMBL
  V_SNARE_CC UniProtKB/TrEMBL
KEGG Report csab:103224079 UniProtKB/TrEMBL
NCBI Gene SEC22B ENTREZGENE
PANTHER PTHR45837 UniProtKB/TrEMBL
  VESICLE-TRAFFICKING PROTEIN SEC22B UniProtKB/TrEMBL
Pfam Longin UniProtKB/TrEMBL
  Synaptobrevin UniProtKB/TrEMBL
PRINTS SYNAPTOBREVN UniProtKB/TrEMBL
PROSITE LONGIN UniProtKB/TrEMBL
  V_SNARE UniProtKB/TrEMBL
SMART Longin UniProtKB/TrEMBL
Superfamily-SCOP SNARE fusion complex UniProtKB/TrEMBL
  SSF64356 UniProtKB/TrEMBL
UniProt A0A0D9S5Z6 ENTREZGENE, UniProtKB/TrEMBL