Lin54 (lin-54 DREAM MuvB core complex component) - Rat Genome Database

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Gene: Lin54 (lin-54 DREAM MuvB core complex component) Heterocephalus glaber
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Symbol: Lin54
Name: lin-54 DREAM MuvB core complex component
RGD ID: 18934800
Description: ENCODES a protein that exhibits minor groove of adenine-thymine-rich DNA binding (ortholog); transcription regulatory region nucleic acid binding (ortholog); INVOLVED IN nucleosome organization (ortholog); ASSOCIATED WITH chromosome 4q21 deletion syndrome (ortholog); FOUND IN RNA polymerase II transcription repressor complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lin-54 homolog; protein lin-54 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462490012,174 - 66,648 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462490012,511 - 66,582 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Lin54
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462490012,174 - 66,648 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462490012,511 - 66,582 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
LIN54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38482,924,603 - 83,012,941 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl482,909,973 - 83,012,926 (-)EnsemblGRCh38hg38GRCh38
GRCh37483,845,756 - 83,934,094 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36484,065,151 - 84,151,006 (-)NCBINCBI36Build 36hg18NCBI36
Celera481,136,312 - 81,224,592 (-)NCBICelera
Cytogenetic Map4q21.22NCBI
HuRef479,586,333 - 79,674,722 (-)NCBIHuRef
CHM1_1483,822,194 - 83,910,549 (-)NCBICHM1_1
T2T-CHM13v2.0486,253,801 - 86,342,186 (-)NCBIT2T-CHM13v2.0
Lin54
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395100,589,892 - 100,648,506 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5100,589,900 - 100,648,493 (-)EnsemblGRCm39 Ensembl
GRCm385100,442,033 - 100,500,639 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5100,441,918 - 100,500,639 (-)EnsemblGRCm38mm10GRCm38
MGSCv375100,871,052 - 100,929,658 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365100,682,502 - 100,740,941 (-)NCBIMGSCv36mm8
Celera597,767,830 - 97,826,649 (-)NCBICelera
Cytogenetic Map5E4NCBI
cM Map548.48NCBI
Lin54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8149,434,093 - 9,514,091 (+)NCBIGRCr8
mRatBN7.2149,129,775 - 9,188,244 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl149,130,336 - 9,187,790 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx149,117,967 - 9,159,651 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01410,417,843 - 10,459,523 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0149,114,446 - 9,156,126 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01410,770,072 - 10,828,115 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1410,786,399 - 10,828,106 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01410,717,462 - 10,775,710 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41410,398,080 - 10,439,960 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11410,383,795 - 10,439,950 (+)NCBI
Celera149,254,128 - 9,295,581 (+)NCBICelera
Cytogenetic Map14p22NCBI
Lin54
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554746,613,661 - 6,660,899 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554746,600,766 - 6,660,904 (+)NCBIChiLan1.0ChiLan1.0
LIN54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2347,060,208 - 47,146,279 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1447,249,393 - 47,335,806 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0441,192,653 - 41,278,730 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1447,045,043 - 47,131,091 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl447,046,277 - 47,131,091 (+)Ensemblpanpan1.1panPan2
LIN54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1326,876,111 - 6,940,754 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl326,878,187 - 6,941,268 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3234,943,820 - 35,009,627 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0326,896,796 - 6,962,825 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl326,896,805 - 6,960,655 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1326,967,885 - 7,033,859 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0326,836,618 - 6,902,413 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03233,063,699 - 33,129,725 (+)NCBIUU_Cfam_GSD_1.0
Lin54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244052855,405,363 - 5,481,497 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367381,568,585 - 1,643,454 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367381,568,786 - 1,643,500 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LIN54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8135,330,919 - 135,398,263 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18135,330,868 - 135,398,274 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28144,625,750 - 144,693,415 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LIN54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1731,323,792 - 31,406,194 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl731,326,174 - 31,404,045 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660379,893,341 - 9,984,470 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000019706   ⟹   ENSHGLP00000019513
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462490012,174 - 66,648 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000019707   ⟹   ENSHGLP00000019514
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462490014,467 - 65,135 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000019708   ⟹   ENSHGLP00000019515
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462490014,598 - 55,546 (-)Ensembl
RefSeq Acc Id: XM_004872321   ⟹   XP_004872378
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 66,296 (-)NCBI
RefSeq Acc Id: XM_004872322   ⟹   XP_004872379
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 66,582 (-)NCBI
RefSeq Acc Id: XM_004872323   ⟹   XP_004872380
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 65,129 (-)NCBI
RefSeq Acc Id: XM_013068355   ⟹   XP_012923809
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 65,129 (-)NCBI
RefSeq Acc Id: XM_013068356   ⟹   XP_012923810
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 65,122 (-)NCBI
RefSeq Acc Id: XM_021250279   ⟹   XP_021105938
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462490012,511 - 65,129 (-)NCBI
RefSeq Acc Id: XP_004872379   ⟸   XM_004872322
- Peptide Label: isoform X1
- UniProtKB: A0AAX6QG75 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004872378   ⟸   XM_004872321
- Peptide Label: isoform X1
- UniProtKB: A0AAX6QG75 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012923809   ⟸   XM_013068355
- Peptide Label: isoform X2
- UniProtKB: A0A0P6JEM3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021105938   ⟸   XM_021250279
- Peptide Label: isoform X3
- UniProtKB: A0AAX6SBT2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004872380   ⟸   XM_004872323
- Peptide Label: isoform X1
- UniProtKB: A0AAX6QG75 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012923810   ⟸   XM_013068356
- Peptide Label: isoform X4
- UniProtKB: A0AAX6QP86 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000019514   ⟸   ENSHGLT00000019707
Ensembl Acc Id: ENSHGLP00000019515   ⟸   ENSHGLT00000019708
Ensembl Acc Id: ENSHGLP00000019513   ⟸   ENSHGLT00000019706


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000013973 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000019706 ENTREZGENE
  ENSHGLT00000019707 ENTREZGENE
  ENSHGLT00000019708 UniProtKB/TrEMBL
InterPro CRC UniProtKB/TrEMBL
  Lin-54_fam UniProtKB/TrEMBL
  Tesmin/TSO1-like_CXC UniProtKB/TrEMBL
NCBI Gene Lin54 ENTREZGENE
PANTHER PROTEIN LIN-54 HOMOLOG UniProtKB/TrEMBL
  PTHR12446 UniProtKB/TrEMBL
Pfam TCR UniProtKB/TrEMBL
PROSITE CRC UniProtKB/TrEMBL
SMART CXC UniProtKB/TrEMBL
UniProt A0A0P6JEM3 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6QG75 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6QP86 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SBT2 ENTREZGENE, UniProtKB/TrEMBL