LAPTM4A (lysosomal protein transmembrane 4 alpha) - Rat Genome Database

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Gene: LAPTM4A (lysosomal protein transmembrane 4 alpha) Canis lupus familiaris
Analyze
Symbol: LAPTM4A (Ensembl: MATN3)
Name: lysosomal protein transmembrane 4 alpha
RGD ID: 12371252
Description: ASSOCIATED WITH genetic disease (ortholog); FOUND IN endomembrane system (inferred); Golgi apparatus (inferred); late endosome membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lysosomal-associated protein transmembrane 4 alpha; lysosomal-associated transmembrane protein 4A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11715,066,326 - 15,081,562 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1715,066,885 - 15,080,752 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1715,026,395 - 15,043,908 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01715,214,034 - 15,231,554 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1715,214,035 - 15,231,476 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11715,067,635 - 15,085,234 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01715,074,180 - 15,091,684 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01715,105,848 - 15,123,371 (-)NCBIUU_Cfam_GSD_1.0
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

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
LAPTM4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11715,066,326 - 15,081,562 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1715,066,885 - 15,080,752 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1715,026,395 - 15,043,908 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01715,214,034 - 15,231,554 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1715,214,035 - 15,231,476 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11715,067,635 - 15,085,234 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01715,074,180 - 15,091,684 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01715,105,848 - 15,123,371 (-)NCBIUU_Cfam_GSD_1.0
LAPTM4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38220,032,650 - 20,051,628 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl220,032,650 - 20,051,628 (-)EnsemblGRCh38hg38GRCh38
GRCh37220,232,411 - 20,251,389 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36220,095,894 - 20,114,926 (-)NCBINCBI36Build 36hg18NCBI36
Build 34220,154,040 - 20,173,073NCBI
Celera220,094,750 - 20,114,129 (-)NCBICelera
Cytogenetic Map2p24.1NCBI
HuRef219,989,688 - 20,009,087 (-)NCBIHuRef
CHM1_1220,161,760 - 20,181,158 (-)NCBICHM1_1
T2T-CHM13v2.0220,066,155 - 20,085,173 (-)NCBIT2T-CHM13v2.0
Laptm4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39128,972,072 - 8,988,742 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl128,971,598 - 8,988,742 (+)EnsemblGRCm39 Ensembl
GRCm38128,921,307 - 8,938,742 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl128,921,664 - 8,938,742 (+)EnsemblGRCm38mm10GRCm38
MGSCv37128,928,113 - 8,945,548 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36128,947,419 - 8,964,736 (+)NCBIMGSCv36mm8
Celera129,304,882 - 9,322,098 (+)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map123.96NCBI
Laptm4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8637,438,503 - 37,456,238 (+)NCBIGRCr8
mRatBN7.2631,719,287 - 31,737,023 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl631,718,976 - 31,737,020 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx632,011,285 - 32,029,021 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0632,327,147 - 32,344,883 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0631,801,757 - 31,819,494 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0634,042,132 - 34,059,960 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl634,028,936 - 34,059,961 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0643,823,229 - 43,841,057 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4632,410,289 - 32,427,917 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1632,413,241 - 32,430,870 (+)NCBI
Celera631,167,791 - 31,185,419 (+)NCBICelera
Cytogenetic Map6q14NCBI
Laptm4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554692,604,464 - 2,627,043 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554692,604,464 - 2,626,835 (-)NCBIChiLan1.0ChiLan1.0
LAPTM4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212106,473,385 - 106,495,128 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A106,477,357 - 106,499,100 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A20,019,774 - 20,038,289 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A20,135,960 - 20,154,667 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A20,135,960 - 20,154,667 (-)Ensemblpanpan1.1panPan2
Laptm4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629259,503,393 - 59,519,963 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493649311,319,923 - 11,336,204 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LAPTM4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3118,152,587 - 118,170,278 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13118,151,866 - 118,170,279 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23126,183,059 - 126,201,156 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LAPTM4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11487,668,955 - 87,688,080 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1487,668,710 - 87,690,467 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604524,539,687 - 24,558,540 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Laptm4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247382,763,165 - 2,790,289 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247382,763,287 - 2,790,244 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LAPTM4A
152 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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000006160   ⟹   ENSCAFP00000005704
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1715,066,885 - 15,080,752 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845032885   ⟹   ENSCAFP00845025734
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1715,214,035 - 15,231,476 (-)Ensembl
RefSeq Acc Id: XM_038453327   ⟹   XP_038309255
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1715,026,395 - 15,043,908 (-)NCBI
RefSeq Acc Id: XM_038498294   ⟹   XP_038354222
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11715,067,635 - 15,085,234 (-)NCBI
RefSeq Acc Id: XM_038560851   ⟹   XP_038416779
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01715,105,848 - 15,123,371 (-)NCBI
RefSeq Acc Id: XM_038624878   ⟹   XP_038480806
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01715,074,180 - 15,091,684 (-)NCBI
RefSeq Acc Id: XM_038690787   ⟹   XP_038546715
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01715,214,034 - 15,231,554 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000005704   ⟸   ENSCAFT00000006160
RefSeq Acc Id: XP_038354222   ⟸   XM_038498294
RefSeq Acc Id: XP_038480806   ⟸   XM_038624878
RefSeq Acc Id: XP_038546715   ⟸   XM_038690787
- UniProtKB: A0A8C0SH33 (UniProtKB/TrEMBL),   A0A8I3P7Q4 (UniProtKB/TrEMBL),   A0A8C0NB92 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038309255   ⟸   XM_038453327
- UniProtKB: A0A8C0SH33 (UniProtKB/TrEMBL),   A0A8I3P7Q4 (UniProtKB/TrEMBL),   A0A8C0NB92 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038416779   ⟸   XM_038560851
- UniProtKB: A0A8C0NB92 (UniProtKB/TrEMBL),   A0A8C0SH33 (UniProtKB/TrEMBL),   A0A8I3P7Q4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845025734   ⟸   ENSCAFT00845032885


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000003829 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030015022 UniProtKB/TrEMBL
  ENSCAFG00040013263 UniProtKB/TrEMBL
  ENSCAFG00845018598 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000006160.6 UniProtKB/TrEMBL
  ENSCAFT00030028034.1 UniProtKB/TrEMBL
  ENSCAFT00030028077.1 UniProtKB/TrEMBL
  ENSCAFT00040024485.1 UniProtKB/TrEMBL
  ENSCAFT00845032885 ENTREZGENE
  ENSCAFT00845032885.1 UniProtKB/TrEMBL
InterPro LAPTM4/5 UniProtKB/TrEMBL
  LAPTM_4A/5 UniProtKB/TrEMBL
NCBI Gene LAPTM4A ENTREZGENE
PANTHER LYSOSOMAL-ASSOCIATED TRANSMEMBRANE PROTEIN UniProtKB/TrEMBL
  LYSOSOMAL-ASSOCIATED TRANSMEMBRANE PROTEIN 4A UniProtKB/TrEMBL
Pfam Mtp UniProtKB/TrEMBL
UniProt A0A8C0NB92 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SH33 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P7Q4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:42583 ENTREZGENE