NIPBL (NIPBL cohesin loading factor) - Rat Genome Database

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Gene: NIPBL (NIPBL cohesin loading factor) Chlorocebus sabaeus
Analyze
Symbol: NIPBL
Name: NIPBL cohesin loading factor
RGD ID: 18352236
Description: ENCODES a protein that exhibits chromatin binding (inferred); chromo shadow domain binding (inferred); cohesin loader activity (inferred); INVOLVED IN embryonic cranial skeleton morphogenesis (ortholog); embryonic viscerocranium morphogenesis (ortholog); fat cell differentiation (ortholog); ASSOCIATED WITH bone development disease (ortholog); brachydactyly (ortholog); Chromosome Breakage (ortholog); FOUND IN chromatin (inferred); cytosol (inferred); integrator complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: nipped-B-like protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1435,748,112 - 35,940,075 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl435,829,386 - 35,941,271 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,759 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
NIPBL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1435,748,112 - 35,940,075 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl435,829,386 - 35,941,271 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,759 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
NIPBL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38536,876,769 - 37,066,413 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl536,876,769 - 37,066,413 (+)EnsemblGRCh38hg38GRCh38
GRCh37536,876,871 - 37,066,515 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36536,912,742 - 37,101,678 (+)NCBINCBI36Build 36hg18NCBI36
Celera536,763,790 - 36,952,889 (+)NCBICelera
Cytogenetic Map5p13.2NCBI
HuRef536,829,492 - 37,018,602 (+)NCBIHuRef
CHM1_1536,879,597 - 37,068,738 (+)NCBICHM1_1
T2T-CHM13v2.0537,126,599 - 37,316,247 (+)NCBIT2T-CHM13v2.0
Nipbl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39158,319,308 - 8,494,799 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl158,320,101 - 8,473,947 (-)EnsemblGRCm39 Ensembl
GRCm38158,289,824 - 8,465,315 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl158,290,617 - 8,444,463 (-)EnsemblGRCm38mm10GRCm38
MGSCv37158,241,225 - 8,394,463 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36158,238,440 - 8,391,678 (-)NCBIMGSCv36mm8
Celera158,136,258 - 8,289,610 (-)NCBICelera
Cytogenetic Map15A1NCBI
cM Map153.82NCBI
Nipbl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8259,126,676 - 59,314,841 (-)NCBIGRCr8
mRatBN7.2257,399,443 - 57,586,770 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl257,399,445 - 57,565,899 (-)EnsemblmRatBN7.2 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 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v2473,270,202 - 73,457,542 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1571,423,834 - 71,611,174 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0573,306,527 - 73,491,367 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1578,585,649 - 78,772,665 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl578,585,649 - 78,698,184 (-)Ensemblpanpan1.1panPan2
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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0472,093,046 - 72,290,807 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl472,093,358 - 72,290,830 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1471,840,270 - 72,037,537 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0471,962,190 - 72,159,916 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0472,493,866 - 72,691,524 (-)NCBIUU_Cfam_GSD_1.0
Nipbl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213226,330,734 - 226,501,147 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365184,869,546 - 4,969,450 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365184,870,686 - 5,041,099 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NIPBL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1622,152,469 - 22,363,821 (+)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
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475917,899,152 - 17,999,295 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475917,899,152 - 18,078,213 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 35 14 52
Low 1 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000015105   ⟹   ENSCSAP00000013055
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl435,829,386 - 35,941,271 (+)Ensembl
RefSeq Acc Id: XM_007961396   ⟹   XP_007959587
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1435,748,112 - 35,940,075 (+)NCBI
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,759 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007961398   ⟹   XP_007959589
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1435,748,205 - 35,938,869 (+)NCBI
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,759 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007961399   ⟹   XP_007959590
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1435,748,526 - 35,940,073 (+)NCBI
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,607 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037990765   ⟹   XP_037846693
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366607126,085,923 - 26,277,759 (+)NCBI
RefSeq Acc Id: XM_037990766   ⟹   XP_037846694
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366607126,152,318 - 26,277,759 (+)NCBI
RefSeq Acc Id: XM_037990767   ⟹   XP_037846695
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366607126,085,896 - 26,277,607 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007959587   ⟸   XM_007961396
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RWR6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007959589   ⟸   XM_007961398
- Peptide Label: isoform X3
RefSeq Acc Id: XP_007959590   ⟸   XM_007961399
- Peptide Label: isoform X4
RefSeq Acc Id: ENSCSAP00000013055   ⟸   ENSCSAT00000015105
RefSeq Acc Id: XP_037846695   ⟸   XM_037990767
- Peptide Label: isoform X2
RefSeq Acc Id: XP_037846693   ⟸   XM_037990765
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RWR6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037846694   ⟸   XM_037990766
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RWR6 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017012 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000015105.1 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
KEGG Report csab:103215143 UniProtKB/TrEMBL
NCBI Gene NIPBL ENTREZGENE
PANTHER NIPPED-B-LIKE PROTEIN UniProtKB/TrEMBL
  PTHR21704 UniProtKB/TrEMBL
Pfam Cohesin_HEAT UniProtKB/TrEMBL
  Nipped-B_C UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A0D9RWR6 ENTREZGENE, UniProtKB/TrEMBL