SF3B3 (splicing factor 3b subunit 3) - Rat Genome Database

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Gene: SF3B3 (splicing factor 3b subunit 3) Chlorocebus sabaeus
Analyze
Symbol: SF3B3
Name: splicing factor 3b subunit 3
RGD ID: 18705006
Description: ENCODES a protein that exhibits protein-containing complex binding (ortholog); INVOLVED IN negative regulation of protein catabolic process (ortholog); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH autosomal dominant dyskeratosis congenita 6 (ortholog); Charcot-Marie-Tooth disease type 2 (ortholog); genetic disease (ortholog); FOUND IN catalytic step 2 spliceosome (ortholog); nucleolus (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
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
ChlSab1.1553,673,443 - 53,724,485 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl553,673,455 - 53,725,615 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604716,471,909 - 16,522,350 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SF3B3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1553,673,443 - 53,724,485 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl553,673,455 - 53,725,615 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604716,471,909 - 16,522,350 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SF3B3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381670,523,816 - 70,577,668 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1670,523,791 - 70,577,670 (+)EnsemblGRCh38hg38GRCh38
GRCh371670,557,719 - 70,611,571 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361669,115,202 - 69,163,702 (+)NCBINCBI36Build 36hg18NCBI36
Build 341669,115,201 - 69,163,701NCBI
Celera1654,916,621 - 54,970,452 (-)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1656,388,754 - 56,442,561 (+)NCBIHuRef
CHM1_11671,965,025 - 72,018,903 (+)NCBICHM1_1
T2T-CHM13v2.01676,334,997 - 76,388,857 (+)NCBIT2T-CHM13v2.0
Sf3b3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398111,537,123 - 111,573,578 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8111,536,871 - 111,573,419 (-)EnsemblGRCm39 Ensembl
GRCm388110,810,491 - 110,846,806 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8110,810,239 - 110,846,787 (-)EnsemblGRCm38mm10GRCm38
MGSCv378113,334,392 - 113,370,703 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368113,697,169 - 113,733,436 (-)NCBIMGSCv36mm8
Celera8115,034,001 - 115,070,341 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map857.73NCBI
Sf3b3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81955,692,124 - 55,729,640 (-)NCBIGRCr8
mRatBN7.21938,782,749 - 38,820,271 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1938,783,040 - 38,820,245 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1945,587,776 - 45,625,282 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01946,241,144 - 46,278,650 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01948,551,807 - 48,589,416 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01943,392,071 - 43,429,582 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1943,392,085 - 43,429,580 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01954,224,944 - 54,262,545 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41940,730,284 - 40,765,321 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11940,735,269 - 40,770,202 (-)NCBI
Celera1938,176,297 - 38,213,784 (-)NCBICelera
Cytogenetic Map19q12NCBI
Sf3b3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554843,307,794 - 3,357,600 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554843,307,794 - 3,357,600 (+)NCBIChiLan1.0ChiLan1.0
SF3B3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21883,591,131 - 83,639,789 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11689,520,428 - 89,569,114 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01654,442,510 - 54,490,950 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11670,361,068 - 70,409,679 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1670,361,068 - 70,410,042 (+)Ensemblpanpan1.1panPan2
SF3B3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1576,490,622 - 76,543,877 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl576,490,682 - 76,543,877 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha576,451,911 - 76,505,135 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0576,927,032 - 76,980,307 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl576,927,088 - 76,980,301 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1576,748,978 - 76,802,232 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0576,572,045 - 76,625,098 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0577,064,314 - 77,117,437 (+)NCBIUU_Cfam_GSD_1.0
Sf3b3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934936,502,962 - 36,550,690 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647523,037,687 - 23,086,188 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647523,038,424 - 23,086,134 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SF3B3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl613,524,717 - 13,578,680 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1613,524,519 - 13,578,681 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2613,479,647 - 13,484,140 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Sf3b3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474612,747,382 - 12,793,643 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474612,747,346 - 12,793,639 (+)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 14 60
Low 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007993675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000002400   ⟹   ENSCSAP00000000713
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl553,673,455 - 53,725,615 (+)Ensembl
RefSeq Acc Id: XM_007993675   ⟹   XP_007991866
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1553,673,443 - 53,724,485 (+)NCBI
Vero_WHO_p1.0NW_02366604716,471,909 - 16,522,350 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007991866 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000000713
  ENSCSAP00000000713.1
Reference Protein Sequences
RefSeq Acc Id: XP_007991866   ⟸   XM_007993675
- UniProtKB: A0A0D9QWH4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000000713   ⟸   ENSCSAT00000002400


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000004371 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000002400.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.910 UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/TrEMBL
InterPro Cleavage/polyA-sp_fac_asu_C UniProtKB/TrEMBL
  Cleavage/polyA-sp_fac_asu_N UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
KEGG Report csab:103233159 UniProtKB/TrEMBL
NCBI Gene SF3B3 ENTREZGENE
PANTHER DNA REPAIR/RNA PROCESSING CPSF FAMILY UniProtKB/TrEMBL
  SPLICING FACTOR 3B SUBUNIT 3 UniProtKB/TrEMBL
Pfam CPSF_A UniProtKB/TrEMBL
  MMS1_N UniProtKB/TrEMBL
Superfamily-SCOP SSF50978 UniProtKB/TrEMBL
UniProt A0A0D9QWH4 ENTREZGENE, UniProtKB/TrEMBL