SF3B1 (splicing factor 3b subunit 1) - Rat Genome Database

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Gene: SF3B1 (splicing factor 3b subunit 1) Chlorocebus sabaeus
Analyze
Symbol: SF3B1
Name: splicing factor 3b subunit 1
RGD ID: 18418603
Description: ENCODES a protein that exhibits chromatin binding (ortholog); INVOLVED IN anterior/posterior pattern specification (ortholog); blastocyst formation (ortholog); mRNA splicing, via spliceosome (ortholog); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH acute myeloid leukemia (ortholog); adenoid cystic carcinoma (ortholog); B-Cell Chronic Lymphocytic Leukemia (ortholog); FOUND IN chromatin (ortholog); nuclear matrix (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11082,901,908 - 82,952,094 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1082,899,079 - 82,952,071 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040116,491,563 - 116,541,710 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SF3B1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11082,901,908 - 82,952,094 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1082,899,079 - 82,952,071 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040116,491,563 - 116,541,710 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SF3B1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382197,389,784 - 197,435,093 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2197,388,515 - 197,435,079 (-)EnsemblGRCh38hg38GRCh38
GRCh372198,254,508 - 198,299,817 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362197,964,943 - 198,008,016 (-)NCBINCBI36Build 36hg18NCBI36
Build 342198,082,205 - 198,125,277NCBI
Celera2192,012,574 - 192,055,648 (-)NCBICelera
Cytogenetic Map2q33.1NCBI
HuRef2190,109,104 - 190,152,365 (-)NCBIHuRef
CHM1_12198,262,509 - 198,305,605 (-)NCBICHM1_1
T2T-CHM13v2.02197,873,439 - 197,918,732 (-)NCBIT2T-CHM13v2.0
Sf3b1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39155,024,328 - 55,066,660 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl155,024,328 - 55,066,640 (-)EnsemblGRCm39 Ensembl
GRCm38154,985,169 - 55,027,501 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl154,985,169 - 55,027,481 (-)EnsemblGRCm38mm10GRCm38
MGSCv37155,042,013 - 55,084,322 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36154,929,714 - 54,988,277 (-)NCBIMGSCv36mm8
Celera155,504,913 - 55,547,551 (-)NCBICelera
Cytogenetic Map1C1.2NCBI
cM Map127.98NCBI
Sf3b1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8963,986,829 - 64,026,723 (-)NCBIGRCr8
mRatBN7.2956,492,403 - 56,532,300 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl956,492,403 - 56,532,300 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx965,002,980 - 65,042,759 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0970,118,880 - 70,158,654 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0968,417,802 - 68,457,524 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0961,594,620 - 61,634,510 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl961,594,620 - 61,634,510 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0961,274,727 - 61,315,726 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4953,796,176 - 53,837,297 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1953,814,990 - 53,838,594 (-)NCBI
Celera953,974,888 - 54,014,648 (-)NCBICelera
Cytogenetic Map9q31NCBI
Sf3b1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554033,134,955 - 3,166,121 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554033,134,960 - 3,163,395 (+)NCBIChiLan1.0ChiLan1.0
SF3B1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213100,006,148 - 100,049,332 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B100,020,997 - 100,065,215 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B84,633,272 - 84,678,602 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B202,530,200 - 202,573,346 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B202,530,200 - 202,573,346 (-)Ensemblpanpan1.1panPan2
SF3B1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1376,922,150 - 6,962,474 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl376,924,047 - 6,962,896 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha377,870,202 - 7,908,677 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0376,814,539 - 6,853,018 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl376,812,676 - 6,852,935 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1376,813,346 - 6,851,824 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0376,780,170 - 6,818,628 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0376,803,469 - 6,841,942 (-)NCBIUU_Cfam_GSD_1.0
Sf3b1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303155,048,266 - 155,088,514 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365061,749,563 - 1,791,739 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365061,749,591 - 1,790,860 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SF3B1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15101,276,851 - 101,299,105 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115101,274,968 - 101,338,018 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215112,448,191 - 112,511,960 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sf3b1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248892,796,351 - 2,835,592 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
76 36 20 36 36 60 20

Sequence


Ensembl Acc Id: ENSCSAT00000009591   ⟹   ENSCSAP00000007703
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1082,899,079 - 82,952,071 (-)Ensembl
RefSeq Acc Id: XM_007965739   ⟹   XP_007963930
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11082,901,908 - 82,952,094 (-)NCBI
Vero_WHO_p1.0NW_023666040116,491,563 - 116,541,710 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007965740   ⟹   XP_007963931
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11082,901,908 - 82,933,167 (-)NCBI
Vero_WHO_p1.0NW_023666040116,509,908 - 116,539,864 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038001812   ⟹   XP_037857740
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040116,491,563 - 116,511,337 (+)NCBI
RefSeq Acc Id: XR_005241482
Type: NON-CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040116,491,563 - 116,511,572 (+)NCBI
RefSeq Acc Id: XR_005241483
Type: NON-CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040116,491,563 - 116,512,988 (+)NCBI
RefSeq Acc Id: XR_491112
Type: NON-CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11082,906,372 - 82,952,094 (-)NCBI
Vero_WHO_p1.0NW_023666040116,491,563 - 116,535,814 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007963930 (Get FASTA)   NCBI Sequence Viewer  
  XP_007963931 (Get FASTA)   NCBI Sequence Viewer  
  XP_037857740 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000007703
  ENSCSAP00000007703.1
RefSeq Acc Id: XP_007963930   ⟸   XM_007965739
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RGG4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007963931   ⟸   XM_007965740
- Peptide Label: isoform X2
Ensembl Acc Id: ENSCSAP00000007703   ⟸   ENSCSAT00000009591
RefSeq Acc Id: XP_037857740   ⟸   XM_038001812
- Peptide Label: isoform X3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000011505 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000009591.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  PP2A/SF3B1-like_HEAT UniProtKB/TrEMBL
  SF3b_su1 UniProtKB/TrEMBL
  SF3b_su1-like UniProtKB/TrEMBL
KEGG Report csab:103217582 UniProtKB/TrEMBL
NCBI Gene SF3B1 ENTREZGENE
PANTHER PTHR12097 UniProtKB/TrEMBL
  SPLICING FACTOR 3B SUBUNIT 1 UniProtKB/TrEMBL
Pfam PPP2R1A-like_HEAT UniProtKB/TrEMBL
  SF3b1 UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A0D9RGG4 ENTREZGENE, UniProtKB/TrEMBL