Puf60 (poly-U binding splicing factor 60) - Rat Genome Database

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Gene: Puf60 (poly-U binding splicing factor 60) Rattus norvegicus
Analyze
Symbol: Puf60
Name: poly-U binding splicing factor 60
RGD ID: 621674
Description: Predicted to enable identical protein binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome; mRNA splice site recognition; and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of ribonucleoprotein complex. Orthologous to human PUF60 (poly(U) binding splicing factor 60); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 60 kDa poly(U)-binding-splicing factor; FBP interacting repressor; poly(U)-binding-splicing factor PUF60; poly-U binding splicing factor 60K; pyrimidine tract binding splicing factor; RNA-binding protein Siah-BP; Ro ribonucleoprotein-binding protein 1; siah binding protein 1; siah-binding protein 1; Siahbp1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87109,663,490 - 109,674,443 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7109,663,490 - 109,674,724 (-)EnsemblGRCr8
mRatBN7.27107,782,799 - 107,793,759 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7107,782,770 - 107,794,531 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7109,523,205 - 109,534,132 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07111,746,882 - 111,757,809 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07111,703,620 - 111,714,562 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07117,129,237 - 117,140,234 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7117,129,237 - 117,140,214 (-)Ensemblrn6Rnor6.0
Rnor_5.07117,114,908 - 117,125,972 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47114,101,160 - 114,112,091 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7104,139,368 - 104,150,299 (-)NCBICelera
RGSC_v3.17114,135,433 - 114,146,350 (-)NCBI
Cytogenetic Map7q34NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Interaction cloning and characterization of RoBPI, a novel protein binding to human Ro ribonucleoproteins. Bouffard P, etal., RNA 2000 Jan;6(1):66-78.
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. Defective interplay of activators and repressors with TFIH in xeroderma pigmentosum. Liu J, etal., Cell 2001 Feb 9;104(3):353-63.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:11445587   PMID:16189514   PMID:21516116   PMID:22365833   PMID:22658674   PMID:22681889   PMID:25416956   PMID:25468996   PMID:31505169   PMID:32357304  


Genomics

Comparative Map Data
Puf60
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87109,663,490 - 109,674,443 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7109,663,490 - 109,674,724 (-)EnsemblGRCr8
mRatBN7.27107,782,799 - 107,793,759 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7107,782,770 - 107,794,531 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7109,523,205 - 109,534,132 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07111,746,882 - 111,757,809 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07111,703,620 - 111,714,562 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07117,129,237 - 117,140,234 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7117,129,237 - 117,140,214 (-)Ensemblrn6Rnor6.0
Rnor_5.07117,114,908 - 117,125,972 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47114,101,160 - 114,112,091 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7104,139,368 - 104,150,299 (-)NCBICelera
RGSC_v3.17114,135,433 - 114,146,350 (-)NCBI
Cytogenetic Map7q34NCBI
PUF60
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388143,816,344 - 143,829,315 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8143,816,344 - 143,830,709 (-)Ensemblhg38GRCh38
GRCh378144,898,514 - 144,911,485 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368144,970,535 - 144,983,525 (-)NCBIBuild 36Build 36hg18NCBI36
Build 348144,970,535 - 144,983,525NCBI
Celera8141,211,452 - 141,224,560 (-)NCBICelera
Cytogenetic Map8q24.3NCBI
HuRef8140,151,474 - 140,164,519 (-)NCBIHuRef
CHM1_18144,938,756 - 144,951,801 (-)NCBICHM1_1
T2T-CHM13v2.08144,973,042 - 144,986,016 (-)NCBIT2T-CHM13v2.0
Puf60
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391575,942,031 - 75,954,386 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1575,942,031 - 75,952,773 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381576,070,182 - 76,082,537 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1576,070,182 - 76,080,924 (-)Ensemblmm10GRCm38
MGSCv371575,900,612 - 75,911,376 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361575,897,439 - 75,908,167 (-)NCBIMGSCv36mm8
Celera1577,571,109 - 77,581,873 (-)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1535.32NCBI
Puf60
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554542,482,968 - 2,497,339 (-)Ensembl
ChiLan1.0NW_0049554542,482,968 - 2,497,339 (-)NCBIChiLan1.0ChiLan1.0
PUF60
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27161,302,359 - 161,315,435 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan18136,819,615 - 136,833,130 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v08140,571,688 - 140,584,778 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.18143,583,451 - 143,597,351 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8143,583,451 - 143,597,399 (-)EnsemblpanPan2panpan1.1
PUF60
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11337,375,781 - 37,387,969 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1337,375,651 - 37,387,875 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1337,332,030 - 37,344,218 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01337,847,479 - 37,859,669 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1337,847,344 - 37,859,609 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11337,521,566 - 37,533,753 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01337,638,507 - 37,650,690 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01338,119,856 - 38,132,044 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Puf60
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303909,405 - 922,238 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364708,336,390 - 8,348,609 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364708,336,852 - 8,348,335 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PUF60
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4812,131 - 824,318 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.14812,137 - 824,321 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PUF60
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18138,034,526 - 138,047,485 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl8138,034,395 - 138,042,468 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660391,829,905 - 1,842,943 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Puf60
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473512,983,111 - 12,996,576 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473512,983,106 - 12,996,578 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Puf60
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11248,388,069 - 248,399,039 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Puf60
122 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:352
Count of miRNA genes:136
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000013353, ENSRNOT00000056481
Prediction methods:Microtar, Miranda, Rnahybrid
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)792388565119280177Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)782111245123048330Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)731770293110435881Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)773618702118618702Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)771621154114982716Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1331723Bw25Body weight QTL 253.348body mass (VT:0001259)body weight (CMO:0000012)796700404111672180Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)773557047118557047Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)782111245123048330Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)796700404118618702Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)749682832115766396Rat
10450862Kidm55Kidney mass QTL 554.9kidney mass (VT:0002707)kidney weight (CMO:0000081)772725037117725037Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
10450856Livw4Liver weight QTL 43.8liver mass (VT:0003402)liver weight (CMO:0000092)772725037117725037Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)749682832115766396Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)778682549123682549Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)749682832115766396Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)771621154119349044Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

Markers in Region
RH141209  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27107,782,970 - 107,783,185 (+)MAPPERmRatBN7.2
Rnor_6.07117,129,438 - 117,129,652NCBIRnor6.0
Rnor_5.07117,115,109 - 117,115,323UniSTSRnor5.0
RGSC_v3.47114,101,361 - 114,101,575UniSTSRGSC3.4
Celera7104,139,569 - 104,139,783UniSTS
Cytogenetic Map7q34UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000013353   ⟹   ENSRNOP00000013353
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7109,663,490 - 109,674,724 (-)Ensembl
mRatBN7.2 Ensembl7107,782,770 - 107,789,371 (-)Ensembl
Rnor_6.0 Ensembl7117,129,261 - 117,140,214 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000056481   ⟹   ENSRNOP00000053317
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7109,663,490 - 109,670,062 (-)Ensembl
mRatBN7.2 Ensembl7107,782,770 - 107,789,377 (-)Ensembl
Rnor_6.0 Ensembl7117,129,237 - 117,140,168 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096390   ⟹   ENSRNOP00000079179
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7109,663,490 - 109,674,724 (-)Ensembl
mRatBN7.2 Ensembl7107,782,808 - 107,794,531 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098671   ⟹   ENSRNOP00000076557
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7109,663,490 - 109,674,631 (-)Ensembl
mRatBN7.2 Ensembl7107,782,770 - 107,794,053 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102633   ⟹   ENSRNOP00000094683
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7107,782,804 - 107,794,531 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109562   ⟹   ENSRNOP00000096818
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7109,663,490 - 109,674,724 (-)Ensembl
mRatBN7.2 Ensembl7107,782,770 - 107,794,531 (-)Ensembl
RefSeq Acc Id: NM_001191880   ⟹   NP_001178809
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,414 (-)NCBI
mRatBN7.27107,782,799 - 107,793,723 (-)NCBI
Rnor_6.07117,129,237 - 117,140,168 (-)NCBI
Rnor_5.07117,114,908 - 117,125,972 (-)NCBI
Celera7104,139,368 - 104,150,299 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001399391   ⟹   NP_001386320
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,414 (-)NCBI
mRatBN7.27107,782,799 - 107,793,723 (-)NCBI
RefSeq Acc Id: NM_001399392   ⟹   NP_001386321
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,414 (-)NCBI
mRatBN7.27107,782,799 - 107,793,723 (-)NCBI
RefSeq Acc Id: NM_001399393   ⟹   NP_001386322
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,414 (-)NCBI
mRatBN7.27107,782,799 - 107,793,723 (-)NCBI
RefSeq Acc Id: NM_001399394   ⟹   NP_001386323
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,414 (-)NCBI
mRatBN7.27107,782,799 - 107,793,723 (-)NCBI
RefSeq Acc Id: XM_006241897   ⟹   XP_006241959
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,443 (-)NCBI
mRatBN7.27107,782,808 - 107,793,759 (-)NCBI
Rnor_6.07117,129,266 - 117,140,219 (-)NCBI
Rnor_5.07117,114,908 - 117,125,972 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063264333   ⟹   XP_063120403
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,372 (-)NCBI
RefSeq Acc Id: XM_063264334   ⟹   XP_063120404
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87109,663,490 - 109,674,372 (-)NCBI
RefSeq Acc Id: NP_001178809   ⟸   NM_001191880
- Peptide Label: isoform 2
- UniProtKB: A0A8I6AQY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241959   ⟸   XM_006241897
- Peptide Label: isoform X1
- UniProtKB: A0A0H2UHZ6 (UniProtKB/TrEMBL),   A0A8L2Q6G3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000053317   ⟸   ENSRNOT00000056481
Ensembl Acc Id: ENSRNOP00000013353   ⟸   ENSRNOT00000013353
Ensembl Acc Id: ENSRNOP00000079179   ⟸   ENSRNOT00000096390
Ensembl Acc Id: ENSRNOP00000076557   ⟸   ENSRNOT00000098671
Ensembl Acc Id: ENSRNOP00000096818   ⟸   ENSRNOT00000109562
Ensembl Acc Id: ENSRNOP00000094683   ⟸   ENSRNOT00000102633
RefSeq Acc Id: NP_001386323   ⟸   NM_001399394
- Peptide Label: isoform 5
- UniProtKB: A0A0H2UHZ6 (UniProtKB/TrEMBL),   A0A8L2Q6G3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386322   ⟸   NM_001399393
- Peptide Label: isoform 4
- UniProtKB: A0A8I5ZME8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386321   ⟸   NM_001399392
- Peptide Label: isoform 3
- UniProtKB: A6HS56 (UniProtKB/TrEMBL),   A0A8I5ZME8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386320   ⟸   NM_001399391
- Peptide Label: isoform 1
- UniProtKB: Q9WV25 (UniProtKB/Swiss-Prot),   A6HS57 (UniProtKB/TrEMBL),   A0A8I6AQY8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120404   ⟸   XM_063264334
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZME8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120403   ⟸   XM_063264333
- Peptide Label: isoform X2
- UniProtKB: A0A8I5Y5C7 (UniProtKB/TrEMBL),   A0A0H2UHZ6 (UniProtKB/TrEMBL),   A0A8L2Q6G3 (UniProtKB/TrEMBL)
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WV25-F1-model_v2 AlphaFold Q9WV25 1-564 view protein structure

Transcriptome

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

Promoters
RGD ID:13695403
Promoter ID:EPDNEW_R5925
Type:initiation region
Name:Puf60_1
Description:poly-U binding splicing factor 60
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07117,140,187 - 117,140,247EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621674 AgrOrtholog
BioCyc Gene G2FUF-32959 BioCyc
Ensembl Genes ENSRNOG00000009960 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000013353 ENTREZGENE
  ENSRNOT00000096390 ENTREZGENE
  ENSRNOT00000098671 ENTREZGENE
  ENSRNOT00000109562 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  PolyU-bd UniProtKB/Swiss-Prot
  PUF60_regulator UniProtKB/Swiss-Prot
  PUF60_RRM1 UniProtKB/Swiss-Prot
  PUF60_RRM2 UniProtKB/Swiss-Prot
  PUF60_RRM3 UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
  RRM_dom_euk UniProtKB/Swiss-Prot
NCBI Gene 84401 ENTREZGENE
PANTHER POLY(U)-BINDING-SPLICING FACTOR PUF60 UniProtKB/Swiss-Prot
  POLY(U)-BINDING-SPLICING FACTOR PUF60-B-RELATED UniProtKB/Swiss-Prot
Pfam RRM_1 UniProtKB/Swiss-Prot
PhenoGen Puf60 PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000009960 RatGTEx
SMART RRM UniProtKB/Swiss-Prot
  RRM_1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
UniProt A0A0H2UHZ6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5Y5C7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZME8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQY8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2Q6G3 ENTREZGENE, UniProtKB/TrEMBL
  A6HS56 ENTREZGENE, UniProtKB/TrEMBL
  A6HS57 ENTREZGENE, UniProtKB/TrEMBL
  PUF60_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-21 Puf60  poly-U binding splicing factor 60  Puf60  poly-U binding splicing factor 60K  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-07 Puf60  poly-U binding splicing factor 60K  Siahbp1  siah binding protein 1; FBP interacting repressor; pyrimidine tract binding splicing factor; Ro ribonucleoprotein-binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-08-07 Siahbp1  siah binding protein 1; FBP interacting repressor; pyrimidine tract binding splicing factor; Ro ribonucleoprotein-binding protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL