NUP54 (nucleoporin 54) - Rat Genome Database

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Gene: NUP54 (nucleoporin 54) Sus scrofa
Analyze
Symbol: NUP54
Name: nucleoporin 54
RGD ID: 14271490
Description: ENCODES a protein that exhibits identical protein binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN nucleocytoplasmic transport (ortholog); protein targeting (ortholog); regulation of protein import into nucleus (ortholog); PARTICIPATES IN mRNA nuclear export pathway; ASSOCIATED WITH Dystonia 37, Early-Onset, with Striatal Lesions (ortholog); genetic disease (ortholog); progressive myoclonus epilepsy (ortholog); FOUND IN nuclear envelope (ortholog); protein-containing complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: nucleoporin 54kDa; nucleoporin p54
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 Ensembl871,792,155 - 71,833,157 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1871,792,153 - 71,833,180 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2875,992,615 - 76,028,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:30032202  


Genomics

Comparative Map Data
NUP54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl871,792,155 - 71,833,157 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1871,792,153 - 71,833,180 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2875,992,615 - 76,028,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NUP54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38476,114,664 - 76,148,397 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl476,107,562 - 76,148,485 (-)EnsemblGRCh38hg38GRCh38
GRCh37477,035,817 - 77,069,550 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36477,254,841 - 77,288,679 (-)NCBINCBI36Build 36hg18NCBI36
Build 34477,392,996 - 77,426,834NCBI
Celera474,336,017 - 74,369,792 (-)NCBICelera
Cytogenetic Map4q21.1NCBI
HuRef472,788,244 - 72,821,694 (-)NCBIHuRef
CHM1_1477,012,297 - 77,046,159 (-)NCBICHM1_1
T2T-CHM13v2.0479,455,330 - 79,489,069 (-)NCBIT2T-CHM13v2.0
Nup54
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39592,563,399 - 92,583,117 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl592,563,399 - 92,583,078 (-)EnsemblGRCm39 Ensembl
GRCm38592,415,540 - 92,435,259 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl592,415,540 - 92,435,219 (-)EnsemblGRCm38mm10GRCm38
MGSCv37592,844,566 - 92,864,225 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36593,490,746 - 93,510,323 (-)NCBIMGSCv36mm8
Celera590,564,003 - 90,583,663 (-)NCBICelera
Cytogenetic Map5E2NCBI
cM Map546.75NCBI
Nup54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81415,901,936 - 15,920,335 (+)NCBIGRCr8
mRatBN7.21415,617,630 - 15,636,029 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1415,617,679 - 15,636,028 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1415,625,954 - 15,644,122 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01416,944,808 - 16,962,972 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01415,640,226 - 15,658,388 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01417,123,434 - 17,141,832 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1417,123,360 - 17,141,767 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01417,039,514 - 17,057,924 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41417,178,761 - 17,197,062 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11417,178,760 - 17,197,061 (+)NCBI
Celera1415,012,204 - 15,030,485 (+)NCBICelera
Cytogenetic Map14p22NCBI
Nup54
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955433853,921 - 879,861 (-)NCBIChiLan1.0ChiLan1.0
NUP54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2353,924,149 - 53,958,784 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1454,113,869 - 54,150,174 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0448,057,553 - 48,091,471 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1453,896,058 - 53,929,596 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl453,896,058 - 53,929,596 (+)Ensemblpanpan1.1panPan2
NUP54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.132751,568 - 782,342 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl32751,982 - 782,314 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3241,100,154 - 41,131,148 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.032777,963 - 808,974 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl32777,883 - 808,921 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.132776,011 - 807,023 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.032730,301 - 761,292 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03239,408,219 - 39,439,234 (+)NCBIUU_Cfam_GSD_1.0
Nup54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528511,345,313 - 11,377,591 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936676133,782 - 161,938 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936676130,877 - 161,914 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NUP54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1724,616,645 - 24,649,595 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl724,613,767 - 24,650,359 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660372,964,814 - 2,997,872 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nup54
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475714,800,780 - 14,840,115 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NUP54
1293 total Variants

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
Low 10 4 3 5 2 23 2 3 3
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000009834   ⟹   ENSSSCP00000009581
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl871,796,933 - 71,833,120 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000054744   ⟹   ENSSSCP00000035001
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl871,792,155 - 71,833,129 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000074163   ⟹   ENSSSCP00000073902
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl871,796,933 - 71,833,120 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000074372   ⟹   ENSSSCP00000068955
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl871,792,159 - 71,833,157 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000098157   ⟹   ENSSSCP00000075912
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl871,796,933 - 71,833,120 (-)Ensembl
RefSeq Acc Id: XM_003129118   ⟹   XP_003129166
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1871,792,153 - 71,833,180 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021101458   ⟹   XP_020957117
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1871,796,918 - 71,833,171 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003129166 (Get FASTA)   NCBI Sequence Viewer  
  XP_020957117 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000009581
  ENSSSCP00000009581.3
  ENSSSCP00000035001
  ENSSSCP00000035001.1
  ENSSSCP00000068955.1
  ENSSSCP00000073902.1
  ENSSSCP00000075912.1
  ENSSSCP00005039382.1
  ENSSSCP00005039398.1
  ENSSSCP00005039415.1
  ENSSSCP00015022485.1
  ENSSSCP00015022506.1
  ENSSSCP00015022647.1
  ENSSSCP00015022716.1
  ENSSSCP00025011334.1
  ENSSSCP00025011345.1
  ENSSSCP00025011349.1
  ENSSSCP00030005346.1
  ENSSSCP00030005353.1
  ENSSSCP00030005369.1
  ENSSSCP00030005377.1
  ENSSSCP00035045210.1
  ENSSSCP00035045234.1
  ENSSSCP00035045256.1
  ENSSSCP00040042946.1
  ENSSSCP00040043019.1
  ENSSSCP00040043092.1
  ENSSSCP00045015104.1
  ENSSSCP00045015124.1
  ENSSSCP00045015131.1
  ENSSSCP00045015149.1
  ENSSSCP00045015185.1
  ENSSSCP00050040472.1
  ENSSSCP00050040475.1
  ENSSSCP00050040478.1
  ENSSSCP00050040479.1
  ENSSSCP00055012279.1
  ENSSSCP00055012319.1
  ENSSSCP00055012368.1
  ENSSSCP00055012426.1
  ENSSSCP00055012467.1
  ENSSSCP00060007604.1
  ENSSSCP00060007611.1
  ENSSSCP00060007619.1
  ENSSSCP00060007626.1
  ENSSSCP00060007632.1
  ENSSSCP00065047531.1
  ENSSSCP00065047535.1
  ENSSSCP00065047553.1
  ENSSSCP00065047558.1
  ENSSSCP00070007392.1
  ENSSSCP00070007397.1
GenBank Protein JAG69321 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_003129166   ⟸   XM_003129118
- Peptide Label: isoform X2
- UniProtKB: A0A286ZTU0 (UniProtKB/TrEMBL),   A0A0B8RVN3 (UniProtKB/TrEMBL),   A0A8D1TXZ0 (UniProtKB/TrEMBL),   A0A5G2QVQ7 (UniProtKB/TrEMBL),   A0A8D0VG85 (UniProtKB/TrEMBL),   A0A8D0RD61 (UniProtKB/TrEMBL),   A0A8D0VFC3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020957117   ⟸   XM_021101458
- Peptide Label: isoform X1
- UniProtKB: F1RYT5 (UniProtKB/TrEMBL),   A0A8D1SWG1 (UniProtKB/TrEMBL),   A0A4X1SWU8 (UniProtKB/TrEMBL),   A0A8D0VFE0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000035001   ⟸   ENSSSCT00000054744
RefSeq Acc Id: ENSSSCP00000073902   ⟸   ENSSSCT00000074163
RefSeq Acc Id: ENSSSCP00000068955   ⟸   ENSSSCT00000074372
RefSeq Acc Id: ENSSSCP00000009581   ⟸   ENSSSCT00000009834
RefSeq Acc Id: ENSSSCP00000075912   ⟸   ENSSSCT00000098157

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000008979 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005039457 UniProtKB/TrEMBL
  ENSSSCG00015041966 UniProtKB/TrEMBL
  ENSSSCG00025019691 UniProtKB/TrEMBL
  ENSSSCG00030008740 UniProtKB/TrEMBL
  ENSSSCG00035077301 UniProtKB/TrEMBL
  ENSSSCG00040070429 UniProtKB/TrEMBL
  ENSSSCG00045012882 UniProtKB/TrEMBL
  ENSSSCG00050068739 UniProtKB/TrEMBL
  ENSSSCG00055007982 UniProtKB/TrEMBL
  ENSSSCG00060014287 UniProtKB/TrEMBL
  ENSSSCG00065077248 UniProtKB/TrEMBL
  ENSSSCG00070004762 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000009834 ENTREZGENE
  ENSSSCT00000009834.5 UniProtKB/TrEMBL
  ENSSSCT00000054744 ENTREZGENE
  ENSSSCT00000054744.2 UniProtKB/TrEMBL
  ENSSSCT00000074163.2 UniProtKB/TrEMBL
  ENSSSCT00000074372.2 UniProtKB/TrEMBL
  ENSSSCT00000098157.1 UniProtKB/TrEMBL
  ENSSSCT00005063736.1 UniProtKB/TrEMBL
  ENSSSCT00005063763.1 UniProtKB/TrEMBL
  ENSSSCT00005063797.1 UniProtKB/TrEMBL
  ENSSSCT00015055999.1 UniProtKB/TrEMBL
  ENSSSCT00015056057.1 UniProtKB/TrEMBL
  ENSSSCT00015056518.1 UniProtKB/TrEMBL
  ENSSSCT00015056698.1 UniProtKB/TrEMBL
  ENSSSCT00025026750.1 UniProtKB/TrEMBL
  ENSSSCT00025026780.1 UniProtKB/TrEMBL
  ENSSSCT00025026795.1 UniProtKB/TrEMBL
  ENSSSCT00030011910.1 UniProtKB/TrEMBL
  ENSSSCT00030011920.1 UniProtKB/TrEMBL
  ENSSSCT00030011947.1 UniProtKB/TrEMBL
  ENSSSCT00030011961.1 UniProtKB/TrEMBL
  ENSSSCT00035105319.1 UniProtKB/TrEMBL
  ENSSSCT00035105355.1 UniProtKB/TrEMBL
  ENSSSCT00035105400.1 UniProtKB/TrEMBL
  ENSSSCT00040096636.1 UniProtKB/TrEMBL
  ENSSSCT00040096741.1 UniProtKB/TrEMBL
  ENSSSCT00040096851.1 UniProtKB/TrEMBL
  ENSSSCT00045021939.1 UniProtKB/TrEMBL
  ENSSSCT00045021965.1 UniProtKB/TrEMBL
  ENSSSCT00045021978.1 UniProtKB/TrEMBL
  ENSSSCT00045021998.1 UniProtKB/TrEMBL
  ENSSSCT00045022038.1 UniProtKB/TrEMBL
  ENSSSCT00050093813.1 UniProtKB/TrEMBL
  ENSSSCT00050093818.1 UniProtKB/TrEMBL
  ENSSSCT00050093825.1 UniProtKB/TrEMBL
  ENSSSCT00050093829.1 UniProtKB/TrEMBL
  ENSSSCT00055015617.1 UniProtKB/TrEMBL
  ENSSSCT00055015669.1 UniProtKB/TrEMBL
  ENSSSCT00055015730.1 UniProtKB/TrEMBL
  ENSSSCT00055015800.1 UniProtKB/TrEMBL
  ENSSSCT00055015854.1 UniProtKB/TrEMBL
  ENSSSCT00060018880.1 UniProtKB/TrEMBL
  ENSSSCT00060018888.1 UniProtKB/TrEMBL
  ENSSSCT00060018897.1 UniProtKB/TrEMBL
  ENSSSCT00060018905.1 UniProtKB/TrEMBL
  ENSSSCT00060018917.1 UniProtKB/TrEMBL
  ENSSSCT00065106800.1 UniProtKB/TrEMBL
  ENSSSCT00065106805.1 UniProtKB/TrEMBL
  ENSSSCT00065106836.1 UniProtKB/TrEMBL
  ENSSSCT00065106844.1 UniProtKB/TrEMBL
  ENSSSCT00070009007.1 UniProtKB/TrEMBL
  ENSSSCT00070009013.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.170 UniProtKB/TrEMBL
  Single helix bin UniProtKB/TrEMBL
InterPro Nup54/Nup57/Nup44 UniProtKB/TrEMBL
  Nup54_alpha-helical_dom UniProtKB/TrEMBL
  Nup54_C UniProtKB/TrEMBL
KEGG Report ssc:100512118 UniProtKB/TrEMBL
NCBI Gene NUP54 ENTREZGENE
PANTHER NUCLEOPORIN P54 UniProtKB/TrEMBL
  PTHR13000 UniProtKB/TrEMBL
Pfam Nup54 UniProtKB/TrEMBL
  Nup54_C UniProtKB/TrEMBL
UniProt A0A0B8RVN3 ENTREZGENE
  A0A286ZTU0 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SWU8 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SWV3_PIG UniProtKB/TrEMBL
  A0A5G2QVQ7 ENTREZGENE
  A0A5G2RG41_PIG UniProtKB/TrEMBL
  A0A8D0RD61 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0VFC3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0VFE0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0VG85 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1H8W5_PIG UniProtKB/TrEMBL
  A0A8D1SWG1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1SYD7_PIG UniProtKB/TrEMBL
  A0A8D1TXZ0 ENTREZGENE
  A0A8W4FC89_PIG UniProtKB/TrEMBL
  F1RYT5 ENTREZGENE
UniProt Secondary A0A5G2QVQ7 UniProtKB/TrEMBL
  A0A8D1TXZ0 UniProtKB/TrEMBL
  F1RYT5 UniProtKB/TrEMBL
VGNC ID VGNC:98950 ENTREZGENE