NIPBL (NIPBL cohesin loading factor) - Rat Genome Database

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Gene: NIPBL (NIPBL cohesin loading factor) Sus scrofa
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Symbol: NIPBL
Name: NIPBL cohesin loading factor
RGD ID: 14214460
Description: ENCODES a protein that exhibits chromatin binding (inferred); chromo shadow domain binding (inferred); histone deacetylase binding (inferred); INVOLVED IN cellular protein localization (ortholog); cohesin loading (ortholog); embryonic cranial skeleton morphogenesis (ortholog); ASSOCIATED WITH bone development disease (ortholog); brachydactyly (ortholog); congenital heart disease (ortholog); FOUND IN intracellular membrane-bounded organelle (ortholog); SMC loading complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: nipped-B-like protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1622,152,501 - 22,363,847 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11622,152,455 - 22,364,373 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21623,393,877 - 23,512,467 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
brain development  (IBA,IEA)
cellular protein localization  (ISO)
cellular response to DNA damage stimulus  (IEA)
cellular response to X-ray  (IEA)
cognition  (IEA)
cohesin loading  (ISO)
developmental growth  (IEA)
digestive tract development  (IBA)
ear morphogenesis  (IEA)
embryonic cranial skeleton morphogenesis  (ISO)
embryonic digestive tract morphogenesis  (IEA)
embryonic forelimb morphogenesis  (IEA)
embryonic viscerocranium morphogenesis  (IBA,IEA,ISO)
establishment of mitotic sister chromatid cohesion  (IBA)
establishment of protein localization to chromatin  (IBA)
external genitalia morphogenesis  (IEA)
eye morphogenesis  (IEA)
face morphogenesis  (IEA)
fat cell differentiation  (IEA,ISO)
forelimb morphogenesis  (ISO)
gall bladder development  (IEA)
heart development  (ISO)
heart morphogenesis  (IBA)
maintenance of mitotic sister chromatid cohesion  (IEA)
mitotic cohesin loading  (IEA)
mitotic sister chromatid cohesion  (ISO)
negative regulation of transcription by RNA polymerase II  (IEA)
negative regulation of transcription, DNA-templated  (ISO)
outflow tract morphogenesis  (IEA)
positive regulation of histone deacetylation  (IEA)
positive regulation of multicellular organism growth  (IEA,ISO)
positive regulation of neuron migration  (IEA)
positive regulation of ossification  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
regulation of developmental growth  (ISO)
regulation of embryonic development  (IEA)
regulation of gene expression  (IEA)
regulation of hair cycle  (IEA)
regulation of transcription by RNA polymerase II  (ISO)
replication-born double-strand break repair via sister chromatid exchange  (IBA)
sensory perception of sound  (IEA)
stem cell population maintenance  (IEA,ISO)
uterus morphogenesis  (IEA)

Cellular Component

References
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
NIPBL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1622,152,501 - 22,363,847 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11622,152,455 - 22,364,373 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21623,393,877 - 23,512,467 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NIPBL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl536,876,769 - 37,066,413 (+)EnsemblGRCh38hg38GRCh38
GRCh38536,876,769 - 37,066,413 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37536,876,871 - 37,066,515 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36536,912,742 - 37,101,678 (+)NCBINCBI36hg18NCBI36
Celera536,763,790 - 36,952,889 (+)NCBI
Cytogenetic Map5p13.2NCBI
HuRef536,829,492 - 37,018,602 (+)NCBIHuRef
CHM1_1536,879,597 - 37,068,738 (+)NCBICHM1_1
Nipbl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39158,319,308 - 8,494,799 (-)NCBIGRCm39mm39
GRCm39 Ensembl158,320,101 - 8,473,947 (-)Ensembl
GRCm38158,289,824 - 8,465,315 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl158,290,617 - 8,444,463 (-)EnsemblGRCm38mm10GRCm38
MGSCv37158,241,225 - 8,394,463 (-)NCBIGRCm37mm9NCBIm37
MGSCv36158,238,440 - 8,391,678 (-)NCBImm8
Celera158,136,258 - 8,289,610 (-)NCBICelera
Cytogenetic Map15A1NCBI
Nipbl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2257,399,443 - 57,586,770 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl257,399,445 - 57,565,899 (-)Ensembl
Rnor_6.0257,508,830 - 57,676,197 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl257,509,428 - 57,600,820 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0278,992,721 - 79,160,884 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4257,908,828 - 58,099,422 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1257,837,538 - 58,006,254 (-)NCBI
Celera253,014,297 - 53,179,686 (-)NCBICelera
Cytogenetic Map2q16NCBI
Nipbl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542621,666,857 - 21,841,515 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542621,666,958 - 21,841,515 (+)NCBIChiLan1.0ChiLan1.0
NIPBL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1578,585,649 - 78,772,665 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl578,585,649 - 78,698,184 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0573,306,527 - 73,491,367 (-)NCBIMhudiblu_PPA_v0panPan3
NIPBL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1471,583,118 - 71,780,986 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl471,583,732 - 71,780,852 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha471,193,245 - 71,390,556 (-)NCBI
ROS_Cfam_1.0472,093,046 - 72,290,807 (-)NCBI
UMICH_Zoey_3.1471,840,270 - 72,037,537 (-)NCBI
UNSW_CanFamBas_1.0471,962,190 - 72,159,916 (-)NCBI
UU_Cfam_GSD_1.0472,493,866 - 72,691,524 (-)NCBI
Nipbl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213226,330,734 - 226,501,147 (+)NCBI
SpeTri2.0NW_0049365184,870,686 - 5,041,099 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NIPBL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1435,748,112 - 35,940,075 (+)NCBI
ChlSab1.1 Ensembl435,829,386 - 35,941,271 (+)Ensembl
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,759 (+)NCBI
Nipbl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475917,899,152 - 18,078,213 (-)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 2 3 5 2 20 2 3 3
Low 2 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000018339   ⟹   ENSSSCP00000017843
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1622,152,512 - 22,363,847 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000055899   ⟹   ENSSSCP00000039147
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1622,152,512 - 22,363,847 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000060078   ⟹   ENSSSCP00000055146
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1622,152,512 - 22,363,847 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000060510   ⟹   ENSSSCP00000040478
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1622,152,501 - 22,363,847 (+)Ensembl
RefSeq Acc Id: XM_013984737   ⟹   XP_013840191
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11622,152,455 - 22,364,104 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021076590   ⟹   XP_020932249
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11622,152,560 - 22,364,104 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021076591   ⟹   XP_020932250
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11622,152,469 - 22,364,104 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021076592   ⟹   XP_020932251
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11622,152,469 - 22,364,373 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021076593   ⟹   XP_020932252
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11622,152,469 - 22,364,228 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_013840191   ⟸   XM_013984737
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020932251   ⟸   XM_021076592
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_020932252   ⟸   XM_021076593
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020932250   ⟸   XM_021076591
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020932249   ⟸   XM_021076590
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSSSCP00000055146   ⟸   ENSSSCT00000060078
RefSeq Acc Id: ENSSSCP00000039147   ⟸   ENSSSCT00000055899
RefSeq Acc Id: ENSSSCP00000040478   ⟸   ENSSSCT00000060510
RefSeq Acc Id: ENSSSCP00000017843   ⟸   ENSSSCT00000018339
Protein Domains
Nipped-B_C


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000016842 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070007395 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000017843 UniProtKB/TrEMBL
  ENSSSCP00000039147 UniProtKB/TrEMBL
  ENSSSCP00000040478 UniProtKB/TrEMBL
  ENSSSCP00000055146 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070011883 UniProtKB/TrEMBL
  ENSSSCP00070011888 UniProtKB/TrEMBL
  ENSSSCP00070011922 UniProtKB/TrEMBL
  ENSSSCP00070011948 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000018339 UniProtKB/TrEMBL
  ENSSSCT00000055899 UniProtKB/TrEMBL
  ENSSSCT00000060078 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000060510 UniProtKB/TrEMBL
  ENSSSCT00070014395 UniProtKB/TrEMBL
  ENSSSCT00070014403 UniProtKB/TrEMBL
  ENSSSCT00070014447 UniProtKB/TrEMBL
  ENSSSCT00070014477 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Cohesin_HEAT UniProtKB/TrEMBL
  Nipped-B_C UniProtKB/TrEMBL
  SCC2/Nipped-B UniProtKB/TrEMBL
NCBI Gene NIPBL ENTREZGENE
PANTHER PTHR21704 UniProtKB/TrEMBL
Pfam Cohesin_HEAT UniProtKB/TrEMBL
  Nipped-B_C UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A287A5W2_PIG UniProtKB/TrEMBL
  A0A287A961_PIG UniProtKB/TrEMBL
  A0A287BF39_PIG UniProtKB/TrEMBL
  A0A4X1T9D7_PIG UniProtKB/TrEMBL
  A0A4X1T9E2_PIG UniProtKB/TrEMBL
  A0A4X1T9J5_PIG UniProtKB/TrEMBL
  A0A4X1TA06_PIG UniProtKB/TrEMBL
  F1SN99_PIG UniProtKB/TrEMBL
VGNC ID VGNC:90752 ENTREZGENE