Cnbp (CCHC-type zinc finger, nucleic acid binding protein) - Rat Genome Database
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Gene: Cnbp (CCHC-type zinc finger, nucleic acid binding protein) Rattus norvegicus
Analyze
Symbol: Cnbp
Name: CCHC-type zinc finger, nucleic acid binding protein
RGD ID: 621807
Description: Exhibits single-stranded DNA binding activity and single-stranded RNA binding activity. Predicted to be involved in G-quadruplex DNA formation; positive regulation of cell population proliferation; and regulation of cellular macromolecule biosynthetic process. Predicted to localize to cytosol; endoplasmic reticulum; and nucleus. Human ortholog(s) of this gene implicated in myotonic dystrophy type 2. Orthologous to human CNBP (CCHC-type zinc finger nucleic acid binding protein); INTERACTS WITH 3H-1,2-dithiole-3-thione; acetamide; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cellular nucleic acid binding protein; cellular nucleic acid binding protein 1; cellular nucleic acid-binding protein; Cnbp1; zinc finger protein 9 (a cellular retroviral nucleic acid binding protein); Znf9
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24120,302,768 - 120,311,694 (-)NCBI
Rnor_6.0 Ensembl4119,747,911 - 119,756,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04119,747,890 - 119,756,787 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04184,999,225 - 185,008,701 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44122,033,037 - 122,041,891 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14122,277,517 - 122,286,372 (-)NCBI
Celera4109,263,319 - 109,272,173 (-)NCBICelera
Cytogenetic Map4q34NCBI
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

Cellular Component
cytoplasm  (IBA)
cytosol  (ISO,ISS)
endoplasmic reticulum  (ISO,ISS)
nucleus  (ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:7896269   PMID:12706888   PMID:15489334   PMID:15978772   PMID:17335846   PMID:20102514   PMID:22658674   PMID:22681889   PMID:23774591   PMID:25002582  


Genomics

Comparative Map Data
Cnbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24120,302,768 - 120,311,694 (-)NCBI
Rnor_6.0 Ensembl4119,747,911 - 119,756,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04119,747,890 - 119,756,787 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04184,999,225 - 185,008,701 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44122,033,037 - 122,041,891 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14122,277,517 - 122,286,372 (-)NCBI
Celera4109,263,319 - 109,272,173 (-)NCBICelera
Cytogenetic Map4q34NCBI
CNBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3129,167,827 - 129,183,922 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl3129,169,484 - 129,183,922 (-)EnsemblGRCh38hg38GRCh38
GRCh383129,167,827 - 129,183,896 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373128,886,658 - 128,902,810 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh373128,886,670 - 128,902,739 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363130,371,122 - 130,385,392 (-)NCBINCBI36hg18NCBI36
Build 343130,371,129 - 130,385,397NCBI
Celera3127,317,738 - 127,333,863 (-)NCBI
Cytogenetic Map3q21.3NCBI
HuRef3126,273,037 - 126,289,092 (-)NCBIHuRef
CHM1_13128,850,015 - 128,866,149 (-)NCBICHM1_1
Cnbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39687,819,597 - 87,828,088 (-)NCBIGRCm39mm39
GRCm38687,842,615 - 87,851,106 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl687,842,615 - 87,851,106 (-)EnsemblGRCm38mm10GRCm38
MGSCv37687,792,609 - 87,801,100 (-)NCBIGRCm37mm9NCBIm37
MGSCv36687,808,720 - 87,816,636 (-)NCBImm8
Celera689,779,944 - 89,788,435 (-)NCBICelera
Cytogenetic Map6D1NCBI
Cnbp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,537,222 - 13,549,520 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,537,222 - 13,582,026 (-)NCBIChiLan1.0ChiLan1.0
CNBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13133,584,384 - 133,598,847 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3133,584,384 - 133,598,887 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03126,227,605 - 126,242,609 (-)NCBIMhudiblu_PPA_v0panPan3
CNBP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl202,916,624 - 2,929,303 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1202,860,915 - 2,929,307 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cnbp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936798207,442 - 210,124 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1371,630,565 - 71,646,564 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11371,634,552 - 71,707,027 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103228078
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12251,877,171 - 51,891,912 (+)NCBI
ChlSab1.1 Ensembl2251,876,545 - 51,890,946 (+)Ensembl
Cnbp
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624943943,381 - 955,997 (+)NCBI

Position Markers
PMC15869P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,750,209 - 119,750,492NCBIRnor6.0
Rnor_5.04185,001,544 - 185,001,827UniSTSRnor5.0
RGSC_v3.44122,035,335 - 122,035,618UniSTSRGSC3.4
Celera4109,265,617 - 109,265,900UniSTS
Cytogenetic Map4q34UniSTS
SHGC-77307  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,748,084 - 119,748,217NCBIRnor6.0
Rnor_5.04184,999,419 - 184,999,552UniSTSRnor5.0
RGSC_v3.44122,033,210 - 122,033,343UniSTSRGSC3.4
Celera4109,263,492 - 109,263,625UniSTS
Cytogenetic Map4q34UniSTS
RH132805  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,748,161 - 119,748,341NCBIRnor6.0
Rnor_6.01188,379,967 - 88,380,148NCBIRnor6.0
Rnor_5.01191,434,716 - 91,434,897UniSTSRnor5.0
Rnor_5.04184,999,496 - 184,999,676UniSTSRnor5.0
RGSC_v3.41186,150,602 - 86,150,783UniSTSRGSC3.4
RGSC_v3.44122,033,287 - 122,033,467UniSTSRGSC3.4
Celera4109,263,569 - 109,263,749UniSTS
Celera1182,885,313 - 82,885,494UniSTS
Cytogenetic Map4q34UniSTS
Cnbp  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,747,894 - 119,748,062NCBIRnor6.0
Rnor_5.04184,999,229 - 184,999,397UniSTSRnor5.0
RGSC_v3.44122,033,020 - 122,033,188UniSTSRGSC3.4
Celera4109,263,302 - 109,263,470UniSTS
Cytogenetic Map4q34UniSTS
RH124749  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,748,200 - 119,748,350NCBIRnor6.0
Rnor_5.04184,999,535 - 184,999,685UniSTSRnor5.0
RGSC_v3.44122,033,326 - 122,033,476UniSTSRGSC3.4
Celera4109,263,608 - 109,263,758UniSTS
Cytogenetic Map4q34UniSTS
UniSTS:224585  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04119,748,534 - 119,748,728NCBIRnor6.0
Rnor_5.04184,999,869 - 185,000,063UniSTSRnor5.0
RGSC_v3.44122,033,660 - 122,033,854UniSTSRGSC3.4
Celera4109,263,942 - 109,264,136UniSTS
Cytogenetic Map4q34UniSTS
Cnbp  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01188,378,608 - 88,379,094NCBIRnor6.0
Rnor_5.01191,433,357 - 91,433,843UniSTSRnor5.0
Celera1182,883,954 - 82,884,440UniSTS
Cytogenetic Map4q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)43043231145254791Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)436615599145611886Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)443414605155469929Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)443414792146942075Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)443414792146942075Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)446898276145611886Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)449906054145611886Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)455324953148360954Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)455375865125671711Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)458640017154427984Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)461038901127777403Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)462947687125671711Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)463537179157286626Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470773471132455556Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473786419132455556Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)475258970120258970Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)475258970120258970Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)476567036121567036Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)479555067124555067Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)481959983152055009Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)484475257178931073Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)485794049129615056Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486312589146942261Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)486312589147702403Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486438317168047091Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)486532519131532519Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)487136446132136446Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)487136446132136446Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)494414208139414208Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494893247168046938Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)499066823144066823Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105277348150277348Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4105682594150682594Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4105971071168047091Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106347236151347236Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4108876717169215811Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109636356154636356Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109636356154636356Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110702761155702761Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110702761155702761Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4112807675157807675Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4115372758150038284Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4116726724157291438Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4117926139162926139Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4119705414146087100Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:133
Count of miRNA genes:104
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000013884
Prediction methods:Miranda, 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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB158421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB158422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB189958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB189959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC097129 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF242550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY329616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY329624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC062225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D45254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232286 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000148 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013884   ⟹   ENSRNOP00000013884
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4119,747,911 - 119,756,765 (-)Ensembl
RefSeq Acc Id: NM_022598   ⟹   NP_072120
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,302,789 - 120,311,645 (-)NCBI
Rnor_6.04119,747,911 - 119,756,765 (-)NCBI
Rnor_5.04184,999,225 - 185,008,701 (-)NCBI
RGSC_v3.44122,033,037 - 122,041,891 (-)RGD
Celera4109,263,319 - 109,272,173 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236854   ⟹   XP_006236916
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,302,768 - 120,311,694 (-)NCBI
Rnor_6.04119,747,890 - 119,756,784 (-)NCBI
Rnor_5.04184,999,225 - 185,008,701 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592878   ⟹   XP_017448367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,302,768 - 120,311,666 (-)NCBI
Rnor_6.04119,747,890 - 119,756,785 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592879   ⟹   XP_017448368
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,302,768 - 120,311,666 (-)NCBI
Rnor_6.04119,747,890 - 119,756,787 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_072120   ⟸   NM_022598
- UniProtKB: P62634 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006236916   ⟸   XM_006236854
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017448368   ⟸   XM_017592879
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448367   ⟸   XM_017592878
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000013884   ⟸   ENSRNOT00000013884
Protein Domains
CCHC-type

Transcriptome

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

Promoters
RGD ID:13693224
Promoter ID:EPDNEW_R3749
Type:initiation region
Name:Cnbp_1
Description:CCHC-type zinc finger, nucleic acid binding protein
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_6.04119,756,733 - 119,756,793EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621807 AgrOrtholog
Ensembl Genes ENSRNOG00000010239 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000013884 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000013884 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6889682 IMAGE-MGC_LOAD
InterPro Znf_CCHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_CCHC_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64530 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72818 IMAGE-MGC_LOAD
NCBI Gene 64530 ENTREZGENE
Pfam zf-CCHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cnbp PhenoGen
PROSITE ZF_CCHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ZnF_C2HC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57756 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CNBP_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q4AE93_RAT UniProtKB/TrEMBL
UniProt Secondary P20694 UniProtKB/Swiss-Prot
  Q5QJQ8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-09 Cnbp  CCHC-type zinc finger, nucleic acid binding protein  Cnbp  cellular nucleic acid binding protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-25 Cnbp  cellular nucleic acid binding protein  Cnbp1  cellular nucleic acid binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Cnbp1  cellular nucleic acid binding protein 1  Cnbp  cellular nucleic acid binding protein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Cnbp  cellular nucleic acid binding protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_function binds G-rich single-stranded RNA and DNA in a sequence-specific manner 632384