Cln5 (CLN5 intracellular trafficking protein) - Rat Genome Database

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Gene: Cln5 (CLN5 intracellular trafficking protein) Heterocephalus glaber
Analyze
Symbol: Cln5
Name: CLN5 intracellular trafficking protein
RGD ID: 18930018
Description: ENCODES a protein that exhibits bis(monoacylglycero)phosphate synthase activity (ortholog); D-mannose binding (ortholog); long-chain fatty acyl-CoA hydrolase activity (ortholog); INVOLVED IN brain development (ortholog); glycosylation (ortholog); lysosomal lumen acidification (ortholog); ASSOCIATED WITH chromosome 13q14 deletion syndrome (ortholog); epilepsy (ortholog); fundus dystrophy (ortholog); FOUND IN endoplasmic reticulum (ortholog); Golgi apparatus (ortholog); membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ceroid-lipofuscinosis neuronal protein 5; ceroid-lipofuscinosis, neuronal 5
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_00462475123,396,789 - 23,404,906 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475123,395,284 - 23,404,798 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Cln5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475123,396,789 - 23,404,906 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475123,395,284 - 23,404,798 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
CLN5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381376,992,081 - 77,005,117 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1376,990,660 - 77,019,143 (+)EnsemblGRCh38hg38GRCh38
GRCh371377,566,216 - 77,579,252 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361376,462,796 - 76,474,653 (+)NCBINCBI36Build 36hg18NCBI36
Build 341376,462,795 - 76,474,652NCBI
Celera1358,464,047 - 58,474,640 (+)NCBICelera
Cytogenetic Map13q22.3NCBI
HuRef1358,263,758 - 58,274,351 (+)NCBIHuRef
CHM1_11377,533,965 - 77,544,558 (+)NCBICHM1_1
T2T-CHM13v2.01376,215,721 - 76,228,757 (+)NCBIT2T-CHM13v2.0
Cln5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914103,307,679 - 103,315,064 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14103,307,652 - 103,315,064 (+)EnsemblGRCm39 Ensembl
GRCm3814103,070,216 - 103,077,630 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14103,070,216 - 103,077,628 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714103,469,433 - 103,476,847 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614101,956,722 - 101,964,130 (+)NCBIMGSCv36mm8
Celera14101,698,089 - 101,705,503 (+)NCBICelera
Cytogenetic Map14E2.3NCBI
cM Map1451.71NCBI
Cln5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81586,308,286 - 86,321,679 (+)NCBIGRCr8
mRatBN7.21579,893,573 - 79,903,438 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1579,893,548 - 79,903,438 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl265,893,758 - 65,896,044 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1583,872,121 - 83,881,834 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01584,995,156 - 85,004,873 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01581,922,785 - 81,932,498 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01593,634,815 - 93,644,146 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01597,122,608 - 97,131,939 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41587,080,071 - 87,089,784 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11587,095,850 - 87,104,041 (+)NCBI
Celera1579,034,732 - 79,043,598 (+)NCBICelera
Cytogenetic Map15q21NCBI
Cln5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540430,229,632 - 30,235,679 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540430,229,632 - 30,235,677 (-)NCBIChiLan1.0ChiLan1.0
CLN5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21478,557,935 - 78,572,799 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11377,154,083 - 77,166,649 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01358,207,542 - 58,220,697 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11377,253,203 - 77,263,759 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1377,253,203 - 77,263,759 (+)Ensemblpanpan1.1panPan2
CLN5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12230,568,572 - 30,575,890 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2230,568,572 - 30,575,890 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2230,429,669 - 30,436,988 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02230,880,658 - 30,887,978 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2230,880,658 - 30,889,771 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12230,548,135 - 30,555,449 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02230,586,449 - 30,593,758 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02230,655,942 - 30,663,260 (+)NCBIUU_Cfam_GSD_1.0
Cln5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945128,865,789 - 128,874,778 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365114,283,009 - 4,292,376 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365114,283,016 - 4,291,968 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLN5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1149,105,878 - 49,129,886 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11149,105,822 - 49,128,425 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21153,744,011 - 53,766,580 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLN5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1356,074,701 - 56,086,433 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl356,076,226 - 56,086,963 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604612,283,338 - 12,295,116 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_021258663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01032154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000006989   ⟹   ENSHGLP00000006905
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475123,396,789 - 23,404,906 (-)Ensembl
RefSeq Acc Id: XM_021258663   ⟹   XP_021114322
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475123,395,284 - 23,404,798 (-)NCBI
Protein Sequences
Protein RefSeqs XP_021114322 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000006905
RefSeq Acc Id: XP_021114322   ⟸   XM_021258663
- UniProtKB: G5ASH9 (UniProtKB/TrEMBL),   A0AAX6T321 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000006905   ⟸   ENSHGLT00000006989


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000005042 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000006989 ENTREZGENE
InterPro CLN5 UniProtKB/TrEMBL
NCBI Gene Cln5 ENTREZGENE
PANTHER CEROID-LIPOFUSCINOSIS NEURONAL PROTEIN 5 UniProtKB/TrEMBL
  CEROID-LIPOFUSCINOSIS, NEURONAL 5 UniProtKB/TrEMBL
Pfam CLN5 UniProtKB/TrEMBL
UniProt A0AAX6T321 ENTREZGENE, UniProtKB/TrEMBL
  G5ASH9 ENTREZGENE, UniProtKB/TrEMBL