Cstf2 (cleavage stimulation factor subunit 2) - Rat Genome Database

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Gene: Cstf2 (cleavage stimulation factor subunit 2) Rattus norvegicus
Analyze
Symbol: Cstf2
Name: cleavage stimulation factor subunit 2
RGD ID: 1596566
Description: Predicted to enable mRNA binding activity. Involved in cellular response to nerve growth factor stimulus. Predicted to be located in cleavage body. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CSTF2 (cleavage stimulation factor subunit 2); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; mRNA decay pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-methoxyethanol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cleavage stimulation factor, 3' pre-RNA subunit 2; LOC683927; MGC188397; similar to cleavage stimulation factor, 3 pre-RNA subunit 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X97,253,559 - 97,279,476 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,253,586 - 97,279,476 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX98,927,891 - 98,953,618 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X102,437,661 - 102,463,386 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X99,941,058 - 99,966,783 (+)NCBIRnor_WKY
Rnor_6.0X104,882,726 - 104,909,746 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,882,704 - 104,909,739 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X104,716,784 - 104,742,717 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX98,299,890 - 98,325,615 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References - curated
# Reference Title Reference Citation
1. Pre-mRNA 3'-end processing complex assembly and function. Chan S, etal., Wiley Interdiscip Rev RNA. 2011 May-Jun;2(3):321-35. doi: 10.1002/wrna.54. Epub 2010 Oct 18.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Gruber AR, etal., Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):183-96. doi: 10.1002/wrna.1206. Epub 2013 Nov 14.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Polyadenylation site-specific differences in the activity of the neuronal betaCstF-64 protein in PC-12 cells. Shankarling GS and MacDonald CC, Gene. 2013 Oct 25;529(2):220-7. doi: 10.1016/j.gene.2013.08.007. Epub 2013 Aug 12.
Additional References at PubMed
PMID:1741396   PMID:11598190   PMID:12477932   PMID:18305108   PMID:21102410   PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Cstf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X97,253,559 - 97,279,476 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,253,586 - 97,279,476 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX98,927,891 - 98,953,618 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X102,437,661 - 102,463,386 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X99,941,058 - 99,966,783 (+)NCBIRnor_WKY
Rnor_6.0X104,882,726 - 104,909,746 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,882,704 - 104,909,739 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X104,716,784 - 104,742,717 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX98,299,890 - 98,325,615 (+)NCBICelera
Cytogenetic MapXq32NCBI
CSTF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X100,820,391 - 100,841,520 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 EnsemblX100,820,359 - 100,841,520 (+)EnsemblGRCh38hg38GRCh38
GRCh37X100,075,380 - 100,096,509 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X99,962,004 - 99,982,580 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X99,881,528 - 99,902,066NCBI
CeleraX100,594,139 - 100,614,716 (+)NCBICelera
Cytogenetic MapXq22.1NCBI
HuRefX89,874,108 - 89,894,686 (+)NCBIHuRef
CHM1_1X99,968,275 - 99,988,854 (+)NCBICHM1_1
T2T-CHM13v2.0X99,262,925 - 99,284,058 (+)NCBIT2T-CHM13v2.0
Cstf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X132,959,925 - 132,987,571 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX132,959,936 - 132,987,568 (+)EnsemblGRCm39 Ensembl
GRCm38X134,059,176 - 134,086,822 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX134,059,187 - 134,086,819 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X130,593,888 - 130,621,360 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X129,405,699 - 129,433,171 (+)NCBIMGSCv36mm8
CeleraX116,935,737 - 116,962,977 (+)NCBICelera
Cytogenetic MapXE3NCBI
Cstf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555036,949,823 - 6,975,030 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555036,949,901 - 6,971,281 (+)NCBIChiLan1.0ChiLan1.0
CSTF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X100,161,749 - 100,182,304 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX100,161,749 - 100,182,304 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X90,023,054 - 90,046,229 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CSTF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X74,758,399 - 74,782,470 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX74,758,496 - 74,782,194 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X76,171,588 - 76,195,408 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX76,171,635 - 76,197,985 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X73,736,569 - 73,760,382 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X75,400,536 - 75,424,341 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X75,162,067 - 75,185,882 (+)NCBIUU_Cfam_GSD_1.0
Cstf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X63,486,186 - 63,512,707 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365846,042,785 - 6,066,758 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSTF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX82,508,736 - 82,540,863 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X82,508,739 - 82,540,861 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X90,379,919 - 90,409,507 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CSTF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X89,154,895 - 89,180,783 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX89,155,771 - 89,183,551 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606514,085,220 - 14,106,442 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cstf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249021,755,308 - 1,780,826 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH139618  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X97,277,321 - 97,277,528 (+)MAPPERmRatBN7.2
Rnor_6.0X104,907,592 - 104,907,798NCBIRnor6.0
Rnor_5.0X104,740,563 - 104,740,769UniSTSRnor5.0
CeleraX98,323,461 - 98,323,667UniSTS
Cytogenetic MapXq33UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:594
Count of miRNA genes:282
Interacting mature miRNAs:383
Transcripts:ENSRNOT00000074330
Prediction methods:Miranda, Pita, Pita,Targetscan, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 26 28 18 18 18 74 27 36 11
Low 17 29 23 1 23 8 11 8 5 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001131014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005498069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC168251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000074330   ⟹   ENSRNOP00000066513
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,253,637 - 97,279,476 (+)Ensembl
Rnor_6.0 EnsemblX104,882,832 - 104,909,739 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079572   ⟹   ENSRNOP00000069956
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,253,637 - 97,279,476 (+)Ensembl
Rnor_6.0 EnsemblX104,882,704 - 104,898,538 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082983   ⟹   ENSRNOP00000073796
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,253,586 - 97,268,422 (+)Ensembl
Rnor_6.0 EnsemblX104,882,841 - 104,904,767 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098089   ⟹   ENSRNOP00000082910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,253,637 - 97,279,476 (+)Ensembl
RefSeq Acc Id: NM_001131014   ⟹   NP_001124486
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,746 - 97,279,476 (+)NCBI
Rnor_6.0X104,882,832 - 104,909,746 (+)NCBI
Rnor_5.0X104,716,784 - 104,742,717 (+)NCBI
CeleraX98,299,890 - 98,325,615 (+)RGD
Sequence:
RefSeq Acc Id: XM_039100063   ⟹   XP_038955991
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,279,476 (+)NCBI
RefSeq Acc Id: XM_039100064   ⟹   XP_038955992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100065   ⟹   XP_038955993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100066   ⟹   XP_038955994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,561 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100067   ⟹   XP_038955995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,562 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100068   ⟹   XP_038955996
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,562 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100069   ⟹   XP_038955997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,748 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100070   ⟹   XP_038955998
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,256,921 - 97,277,370 (+)NCBI
RefSeq Acc Id: XM_039100072   ⟹   XP_038956000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,266,865 (+)NCBI
RefSeq Acc Id: XM_039100073   ⟹   XP_038956001
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,266,361 (+)NCBI
RefSeq Acc Id: XR_005498063
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,559 - 97,274,505 (+)NCBI
RefSeq Acc Id: XR_005498064
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,559 - 97,274,505 (+)NCBI
RefSeq Acc Id: XR_005498065
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,559 - 97,274,505 (+)NCBI
RefSeq Acc Id: XR_005498066
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,279,476 (+)NCBI
RefSeq Acc Id: XR_005498067
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,267,812 (+)NCBI
RefSeq Acc Id: XR_005498068
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,266,861 (+)NCBI
RefSeq Acc Id: XR_005498069
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X97,253,560 - 97,267,798 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001124486   ⟸   NM_001131014
- UniProtKB: B4F7F1 (UniProtKB/TrEMBL),   M0RAG5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073796   ⟸   ENSRNOT00000082983
RefSeq Acc Id: ENSRNOP00000069956   ⟸   ENSRNOT00000079572
RefSeq Acc Id: ENSRNOP00000066513   ⟸   ENSRNOT00000074330
RefSeq Acc Id: XP_038955991   ⟸   XM_039100063
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955992   ⟸   XM_039100064
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955993   ⟸   XM_039100065
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038956000   ⟸   XM_039100072
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038956001   ⟸   XM_039100073
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038955994   ⟸   XM_039100066
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038955995   ⟸   XM_039100067
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038955996   ⟸   XM_039100068
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038955997   ⟸   XM_039100069
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038955998   ⟸   XM_039100070
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000082910   ⟸   ENSRNOT00000098089
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K6F9-F1-model_v2 AlphaFold A0A0G2K6F9 1-575 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701938
Promoter ID:EPDNEW_R12452
Type:initiation region
Name:Cstf2_2
Description:cleavage stimulation factor subunit 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R12453  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X104,882,675 - 104,882,735EPDNEW
RGD ID:13701929
Promoter ID:EPDNEW_R12453
Type:multiple initiation site
Name:Cstf2_1
Description:cleavage stimulation factor subunit 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R12452  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X104,882,809 - 104,882,869EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1596566 AgrOrtholog
BioCyc Gene G2FUF-1696 BioCyc
Ensembl Genes ENSRNOG00000048025 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000066513 ENTREZGENE
  ENSRNOP00000066513.3 UniProtKB/TrEMBL
  ENSRNOP00000069956 ENTREZGENE
  ENSRNOP00000069956.2 UniProtKB/TrEMBL
  ENSRNOP00000073796.2 UniProtKB/TrEMBL
  ENSRNOP00000082910 ENTREZGENE
  ENSRNOP00000082910.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074330 ENTREZGENE
  ENSRNOT00000074330.3 UniProtKB/TrEMBL
  ENSRNOT00000079572 ENTREZGENE
  ENSRNOT00000079572.2 UniProtKB/TrEMBL
  ENSRNOT00000082983 ENTREZGENE
  ENSRNOT00000082983.2 UniProtKB/TrEMBL
  ENSRNOT00000098089 ENTREZGENE
  ENSRNOT00000098089.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.20.70 UniProtKB/TrEMBL
  3.30.70.330 UniProtKB/TrEMBL
InterPro CSTF2 UniProtKB/TrEMBL
  CSTF2_C_sf UniProtKB/TrEMBL
  CSTF2_hinge UniProtKB/TrEMBL
  CSTF_C UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
KEGG Report rno:683927 UniProtKB/TrEMBL
NCBI Gene 683927 ENTREZGENE
PANTHER PTHR45735:SF6 UniProtKB/TrEMBL
Pfam CSTF2_hinge UniProtKB/TrEMBL
  CSTF_C UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
PhenoGen Cstf2 PhenoGen
PROSITE RRM UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A0G2JWP1_RAT UniProtKB/TrEMBL
  A0A0G2K6F9_RAT UniProtKB/TrEMBL
  A0A8I5ZY65_RAT UniProtKB/TrEMBL
  A0A8J8XR33_RAT UniProtKB/TrEMBL
  B4F7F1 ENTREZGENE, UniProtKB/TrEMBL
  M0RAG5 ENTREZGENE
UniProt Secondary M0RAG5 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-11 Cstf2  cleavage stimulation factor subunit 2  Cstf2  cleavage stimulation factor, 3' pre-RNA subunit 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-22 Cstf2  cleavage stimulation factor, 3' pre-RNA subunit 2  LOC683927  similar to cleavage stimulation factor, 3 pre-RNA subunit 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC683927  similar to cleavage stimulation factor, 3 pre-RNA subunit 2      Symbol and Name status set to provisional 70820 PROVISIONAL