Nsl1 (NSL1 component of MIS12 kinetochore complex) - Rat Genome Database

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Gene: Nsl1 (NSL1 component of MIS12 kinetochore complex) Rattus norvegicus
Analyze
Symbol: Nsl1
Name: NSL1 component of MIS12 kinetochore complex
RGD ID: 1562052
Description: Predicted to be involved in mitotic sister chromatid segregation. Predicted to be located in kinetochore and nuclear speck. Predicted to be part of MIS12/MIND type complex. Orthologous to human NSL1 (NSL1 component of MIS12 kinetochore complex); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC498310; kinetochore-associated protein NSL1 homolog; LOC498310; NSL1, MIND kinetochore complex component, homolog; NSL1, MIND kinetochore complex component, homolog (S. cerevisiae); NSL1, MIS12 kinetochore complex component; RGD1562052; similar to DC8/DC31 protein; uncharacterized protein LOC498310
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
mRatBN7.213102,649,050 - 102,674,059 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,649,058 - 102,674,054 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,169,130 - 105,193,198 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013106,553,092 - 106,577,160 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013103,768,078 - 103,792,147 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013109,669,646 - 109,697,849 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,669,680 - 109,696,918 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,264,896 - 114,293,065 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,109,079 - 107,112,196 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera13102,114,521 - 102,138,442 (+)NCBICelera
Cytogenetic Map13q27NCBI
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:15371340   PMID:16585270  


Genomics

Comparative Map Data
Nsl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213102,649,050 - 102,674,059 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,649,058 - 102,674,054 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,169,130 - 105,193,198 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013106,553,092 - 106,577,160 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013103,768,078 - 103,792,147 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013109,669,646 - 109,697,849 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,669,680 - 109,696,918 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,264,896 - 114,293,065 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,109,079 - 107,112,196 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera13102,114,521 - 102,138,442 (+)NCBICelera
Cytogenetic Map13q27NCBI
NSL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381212,726,153 - 212,791,777 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1212,726,153 - 212,791,782 (-)EnsemblGRCh38hg38GRCh38
GRCh371212,899,495 - 212,965,119 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361210,966,118 - 211,031,762 (-)NCBINCBI36Build 36hg18NCBI36
Build 341209,299,355 - 209,353,519NCBI
Celera1186,125,542 - 186,191,151 (-)NCBICelera
Cytogenetic Map1q32.3NCBI
HuRef1183,576,269 - 183,641,858 (-)NCBIHuRef
CHM1_11214,172,391 - 214,237,956 (-)NCBICHM1_1
T2T-CHM13v2.01211,971,114 - 212,036,744 (-)NCBIT2T-CHM13v2.0
Nsl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391190,794,710 - 190,816,755 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1190,795,209 - 190,818,671 (+)EnsemblGRCm39 Ensembl
GRCm381191,062,996 - 191,084,558 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1191,063,012 - 191,086,474 (+)EnsemblGRCm38mm10GRCm38
MGSCv371192,886,900 - 192,908,437 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361192,763,646 - 192,785,173 (+)NCBIMGSCv36mm8
Celera1197,988,330 - 198,011,260 (+)NCBICelera
Cytogenetic Map1H6NCBI
cM Map196.28NCBI
Nsl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554064,764,130 - 4,799,204 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554064,764,439 - 4,798,499 (+)NCBIChiLan1.0ChiLan1.0
NSL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1136,574,729 - 36,626,586 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01188,304,093 - 188,360,642 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11193,156,985 - 193,219,655 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1193,157,969 - 193,219,655 (-)Ensemblpanpan1.1panPan2
NSL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1710,883,469 - 10,948,520 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl710,863,966 - 10,930,919 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha710,458,222 - 10,505,730 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0710,588,893 - 10,636,418 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl710,569,584 - 10,636,529 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1710,511,778 - 10,559,268 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0710,612,929 - 10,660,421 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0710,736,916 - 10,784,660 (-)NCBIUU_Cfam_GSD_1.0
Nsl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934463,533,525 - 63,565,882 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936557773,146 - 807,223 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936557773,805 - 806,095 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NSL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9130,622,331 - 130,668,936 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19130,599,901 - 130,668,935 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29143,526,875 - 143,635,822 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NSL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12516,754,818 - 16,797,822 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2516,754,139 - 16,797,823 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605517,252,280 - 17,295,037 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nsl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247719,932,259 - 9,962,854 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nsl1
261 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:163
Count of miRNA genes:126
Interacting mature miRNAs:142
Transcripts:ENSRNOT00000068623
Prediction methods:Miranda, Rnahybrid, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat


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 22 22 16 8 16 28 16 27
Low 3 21 29 19 11 19 7 10 46 19 14 11 7
Below cutoff 6 6 6 1 1 1

Sequence


RefSeq Acc Id: ENSRNOT00000068623   ⟹   ENSRNOP00000059540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13102,649,068 - 102,674,054 (+)Ensembl
Rnor_6.0 Ensembl13109,669,680 - 109,696,918 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104393   ⟹   ENSRNOP00000078769
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13102,649,058 - 102,664,990 (+)Ensembl
RefSeq Acc Id: NM_001109083   ⟹   NP_001102553
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213102,649,058 - 102,673,128 (+)NCBI
Rnor_6.013109,669,680 - 109,696,918 (+)NCBI
Rnor_5.013114,264,896 - 114,293,065 (+)NCBI
RGSC_v3.413107,109,079 - 107,112,196 (+)RGD
Celera13102,114,521 - 102,138,442 (+)RGD
Sequence:
RefSeq Acc Id: XM_006250488   ⟹   XP_006250550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213102,649,050 - 102,672,146 (+)NCBI
Rnor_6.013109,669,646 - 109,697,849 (+)NCBI
Rnor_5.013114,264,896 - 114,293,065 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090997   ⟹   XP_038946925
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213102,649,050 - 102,674,059 (+)NCBI
RefSeq Acc Id: XM_039090998   ⟹   XP_038946926
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213102,649,050 - 102,674,059 (+)NCBI
RefSeq Acc Id: NP_001102553   ⟸   NM_001109083
- UniProtKB: A6JGY4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250550   ⟸   XM_006250488
- Peptide Label: isoform X3
- UniProtKB: F1M3N2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000059540   ⟸   ENSRNOT00000068623
RefSeq Acc Id: XP_038946925   ⟸   XM_039090997
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946926   ⟸   XM_039090998
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000078769   ⟸   ENSRNOT00000104393

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M3N2-F1-model_v2 AlphaFold F1M3N2 1-281 view protein structure

Transcriptome

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

Promoters
RGD ID:13699112
Promoter ID:EPDNEW_R9637
Type:multiple initiation site
Name:Nsl1_1
Description:NSL1, MIS12 kinetochore complex component
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_6.013109,669,689 - 109,669,749EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562052 AgrOrtholog
BioCyc Gene G2FUF-16867 BioCyc
Ensembl Genes ENSRNOG00000042286 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068623 ENTREZGENE
  ENSRNOT00000068623.3 UniProtKB/TrEMBL
  ENSRNOT00000104393.1 UniProtKB/TrEMBL
InterPro Kinetochore_Mis14 UniProtKB/TrEMBL
KEGG Report rno:498310 UniProtKB/TrEMBL
NCBI Gene 498310 ENTREZGENE
PANTHER KINETOCHORE-ASSOCIATED PROTEIN NSL1 HOMOLOG UniProtKB/TrEMBL
  PTHR31749 UniProtKB/TrEMBL
Pfam Mis14 UniProtKB/TrEMBL
PhenoGen Nsl1 PhenoGen
RatGTEx ENSRNOG00000042286 RatGTEx
UniProt A0A8I5ZLI9_RAT UniProtKB/TrEMBL
  A6JGY4 ENTREZGENE, UniProtKB/TrEMBL
  F1M3N2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-04 Nsl1  NSL1 component of MIS12 kinetochore complex  Nsl1  NSL1, MIS12 kinetochore complex component  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-07-23 Nsl1  NSL1, MIS12 kinetochore complex component  Nsl1  NSL1, MIND kinetochore complex component, homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-11 Nsl1  NSL1, MIND kinetochore complex component, homolog (S. cerevisiae)  RGD1562052  similar to DC8/DC31 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1562052  similar to DC8/DC31 protein   RGD1562052_predicted  similar to DC8/DC31 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562052_predicted  similar to DC8/DC31 protein (predicted)  LOC498310  similar to DC8/DC31 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498310  similar to DC8/DC31 protein      Symbol and Name status set to provisional 70820 PROVISIONAL