LMBRD1 (LMBR1 domain containing 1) - Rat Genome Database

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Gene: LMBRD1 (LMBR1 domain containing 1) Canis lupus familiaris
Analyze
Symbol: LMBRD1
Name: LMBR1 domain containing 1
RGD ID: 12430631
Description: ENCODES a protein that exhibits AP-2 adaptor complex binding (inferred); clathrin heavy chain binding (inferred); cobalamin binding (inferred); INVOLVED IN clathrin-dependent endocytosis (inferred); gastrulation (inferred); insulin receptor internalization (inferred); ASSOCIATED WITH Donnai-Barrow syndrome (ortholog); genetic disease (ortholog); inherited metabolic disorder (ortholog); FOUND IN clathrin-coated endocytic vesicle (inferred); clathrin-coated vesicle (inferred); endoplasmic reticulum membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lysosomal cobalamin transport escort protein LMBD1; probable lysosomal cobalamin transporter
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11232,274,056 - 32,383,737 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1232,274,412 - 32,383,578 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1232,132,969 - 32,242,646 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01232,815,725 - 32,925,418 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1232,814,082 - 32,925,264 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11232,332,828 - 32,442,060 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01232,385,294 - 32,494,836 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01232,498,019 - 32,607,811 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
LMBRD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11232,274,056 - 32,383,737 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1232,274,412 - 32,383,578 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1232,132,969 - 32,242,646 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01232,815,725 - 32,925,418 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1232,814,082 - 32,925,264 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11232,332,828 - 32,442,060 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01232,385,294 - 32,494,836 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01232,498,019 - 32,607,811 (-)NCBIUU_Cfam_GSD_1.0
LMBRD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38669,674,010 - 69,797,010 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl669,672,757 - 69,867,236 (-)EnsemblGRCh38hg38GRCh38
GRCh37670,383,902 - 70,506,902 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36670,442,470 - 70,563,609 (-)NCBINCBI36Build 36hg18NCBI36
Build 34670,442,470 - 70,563,609NCBI
Celera670,774,043 - 70,895,462 (-)NCBICelera
Cytogenetic Map6q13NCBI
HuRef667,576,549 - 67,697,877 (-)NCBIHuRef
CHM1_1670,551,896 - 70,673,235 (-)NCBICHM1_1
T2T-CHM13v2.0670,854,076 - 70,977,089 (-)NCBIT2T-CHM13v2.0
Lmbrd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39124,716,073 - 24,805,382 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl124,717,711 - 24,805,382 (+)EnsemblGRCm39 Ensembl
GRCm38124,676,992 - 24,766,301 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl124,678,630 - 24,766,301 (+)EnsemblGRCm38mm10GRCm38
MGSCv37124,685,383 - 24,823,146 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36124,540,892 - 24,709,881 (+)NCBIMGSCv36mm8
Celera124,508,667 - 24,599,013 (+)NCBICelera
Cytogenetic Map1A5NCBI
cM Map110.18NCBI
Lmbrd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8934,592,723 - 34,674,425 (+)NCBIGRCr8
mRatBN7.2927,096,387 - 27,178,095 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl927,096,297 - 27,178,090 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx935,615,276 - 35,695,823 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0940,727,383 - 40,803,693 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0939,043,329 - 39,123,873 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0930,939,555 - 31,038,381 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl930,939,555 - 31,038,379 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0929,762,573 - 29,854,653 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4923,426,569 - 23,511,388 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1923,438,200 - 23,512,800 (+)NCBI
Celera924,630,912 - 24,711,848 (+)NCBICelera
Cytogenetic Map9q21NCBI
Lmbrd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554884,772,504 - 4,879,423 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554884,774,835 - 4,879,401 (-)NCBIChiLan1.0ChiLan1.0
LMBRD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2589,668,577 - 89,790,911 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1687,594,087 - 87,716,444 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0667,515,861 - 67,638,039 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1670,814,770 - 70,937,082 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl670,814,770 - 70,937,116 (-)Ensemblpanpan1.1panPan2
Lmbrd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494667,532,246 - 67,635,247 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366181,689,646 - 1,792,802 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366181,694,886 - 1,792,586 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LMBRD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl149,868,613 - 49,977,965 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1149,869,184 - 49,977,984 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2156,034,683 - 56,143,017 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LMBRD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1175,169,347 - 5,295,565 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl175,169,478 - 5,295,127 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605811,191,408 - 11,317,423 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lmbrd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475327,283,871 - 27,375,897 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475327,283,570 - 27,423,118 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LMBRD1
1907 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: ENSCAFT00000035839   ⟹   ENSCAFP00000031145
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1232,274,412 - 32,383,578 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845014594   ⟹   ENSCAFP00845011308
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1232,814,082 - 32,925,264 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845014646   ⟹   ENSCAFP00845011346
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1232,814,082 - 32,925,264 (-)Ensembl
RefSeq Acc Id: XM_003639436   ⟹   XP_003639484
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11232,274,056 - 32,383,737 (-)NCBI
Dog10K_Boxer_Tasha1232,132,969 - 32,242,646 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038492157   ⟹   XP_038348085
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11232,332,828 - 32,442,060 (-)NCBI
RefSeq Acc Id: XM_038554443   ⟹   XP_038410371
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01232,498,019 - 32,607,811 (-)NCBI
RefSeq Acc Id: XM_038554444   ⟹   XP_038410372
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01232,498,019 - 32,607,002 (-)NCBI
RefSeq Acc Id: XM_038618310   ⟹   XP_038474238
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01232,385,294 - 32,494,123 (-)NCBI
RefSeq Acc Id: XM_038618311   ⟹   XP_038474239
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01232,385,294 - 32,494,836 (-)NCBI
RefSeq Acc Id: XM_038675147   ⟹   XP_038531075
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1232,132,969 - 32,241,833 (-)NCBI
RefSeq Acc Id: XM_038683877   ⟹   XP_038539805
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01232,815,725 - 32,925,418 (-)NCBI
RefSeq Acc Id: XM_038683878   ⟹   XP_038539806
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01232,815,725 - 32,924,608 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_003639484   ⟸   XM_003639436
- Peptide Label: isoform X2
- UniProtKB: A0A8C0MBJ7 (UniProtKB/TrEMBL),   A0A8P0SPJ5 (UniProtKB/TrEMBL),   A0A8C0QBQ5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000031145   ⟸   ENSCAFT00000035839
RefSeq Acc Id: XP_038348085   ⟸   XM_038492157
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474239   ⟸   XM_038618311
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474238   ⟸   XM_038618310
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038539805   ⟸   XM_038683877
- Peptide Label: isoform X2
- UniProtKB: A0A8I3N584 (UniProtKB/TrEMBL),   A0A8C0QBQ5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038539806   ⟸   XM_038683878
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RYA6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038531075   ⟸   XM_038675147
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RYA6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038410371   ⟸   XM_038554443
- Peptide Label: isoform X2
- UniProtKB: A0A8C0QBQ5 (UniProtKB/TrEMBL),   A0A8I3N584 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038410372   ⟸   XM_038554444
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RYA6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845011308   ⟸   ENSCAFT00845014594
RefSeq Acc Id: ENSCAFP00845011346   ⟸   ENSCAFT00845014646

Promoters
RGD ID:13685478
Promoter ID:EPDNEW_C3547
Type:multiple initiation site
Name:LMBRD1_1
Description:LMBR1 domain containing 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11232,383,584 - 32,383,644EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000002545 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030003946 UniProtKB/TrEMBL
  ENSCAFG00040004862 UniProtKB/TrEMBL
  ENSCAFG00845008243 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000035839.4 UniProtKB/TrEMBL
  ENSCAFT00000108730.1 UniProtKB/TrEMBL
  ENSCAFT00030007538.1 UniProtKB/TrEMBL
  ENSCAFT00030007670.1 UniProtKB/TrEMBL
  ENSCAFT00040009392.1 UniProtKB/TrEMBL
  ENSCAFT00040009467.1 UniProtKB/TrEMBL
  ENSCAFT00845014594 ENTREZGENE
  ENSCAFT00845014594.1 UniProtKB/TrEMBL
  ENSCAFT00845014646.1 UniProtKB/TrEMBL
InterPro LMBR1-like_membr_prot UniProtKB/TrEMBL
KEGG Report cfa:100856550 UniProtKB/TrEMBL
NCBI Gene LMBRD1 ENTREZGENE
PANTHER LYSOSOMAL COBALAMIN TRANSPORT ESCORT PROTEIN LMBD1 UniProtKB/TrEMBL
  LYSOSOMAL COBALAMIN TRANSPORTER-RELATED UniProtKB/TrEMBL
Pfam LMBR1 UniProtKB/TrEMBL
UniProt A0A8C0MBJ7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QBQ5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0RCA1_CANLF UniProtKB/TrEMBL
  A0A8C0RYA6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N378_CANLF UniProtKB/TrEMBL
  A0A8I3N584 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0SPJ5 ENTREZGENE
  A0A8P0TJY4_CANLF UniProtKB/TrEMBL
UniProt Secondary A0A8P0SPJ5 UniProtKB/TrEMBL
VGNC ID VGNC:42712 ENTREZGENE