Picalm (phosphatidylinositol binding clathrin assembly protein) - Rat Genome Database

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Gene: Picalm (phosphatidylinositol binding clathrin assembly protein) Chinchilla lanigera
Analyze
Symbol: Picalm
Name: phosphatidylinositol binding clathrin assembly protein
RGD ID: 9012536
Description: ENCODES a protein that exhibits 1-phosphatidylinositol binding (ortholog); clathrin binding (ortholog); clathrin heavy chain binding (ortholog); INVOLVED IN amyloid-beta clearance by transcytosis (ortholog); axonogenesis (ortholog); clathrin coat assembly (ortholog); ASSOCIATED WITH acute myeloid leukemia (ortholog); Alzheimer's disease (ortholog); Cognitive Dysfunction (ortholog); FOUND IN cell surface (ortholog); clathrin coat of coated pit (ortholog); clathrin-coated pit (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554146,871,520 - 6,969,208 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554146,871,220 - 6,970,569 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid-beta clearance by transcytosis  (ISO)
axonogenesis  (ISO)
clathrin coat assembly  (ISO)
clathrin-dependent endocytosis  (ISO)
dendrite morphogenesis  (ISO)
endocytosis  (ISO)
endosomal transport  (ISO)
hemopoiesis  (ISO)
intracellular iron ion homeostasis  (ISO)
learning or memory  (ISO)
membrane bending  (ISO)
multicellular organismal-level iron ion homeostasis  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of protein localization to cell surface  (ISO)
negative regulation of protein localization to plasma membrane  (ISO)
negative regulation of receptor-mediated endocytosis  (ISO)
positive regulation of amyloid precursor protein catabolic process  (ISO)
positive regulation of amyloid-beta formation  (ISO)
positive regulation of axonogenesis  (ISO)
positive regulation of dendrite extension  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of Ras protein signal transduction  (ISO)
positive regulation of synaptic vesicle clustering  (ISO)
positive regulation of synaptic vesicle endocytosis  (ISO)
receptor internalization  (ISO)
receptor-mediated endocytosis  (ISO)
regulation of amyloid precursor protein catabolic process  (ISO)
regulation of amyloid-beta formation  (ISO)
regulation of endocytosis  (ISO)
regulation of protein localization  (ISO)
regulation of protein transport  (ISO)
regulation of synaptic vesicle endocytosis  (ISO)
regulation of synaptic vesicle transport  (ISO)
regulation of terminal button organization  (ISO)
regulation of vesicle size  (ISO)
synaptic vesicle endocytosis  (ISO)
synaptic vesicle maturation  (ISO)
vesicle budding from membrane  (ISO)
vesicle cargo loading  (ISO)
vesicle-mediated transport  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Picalm
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554146,871,520 - 6,969,208 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554146,871,220 - 6,970,569 (+)NCBIChiLan1.0ChiLan1.0
PICALM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381185,957,175 - 86,069,860 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1185,957,175 - 86,069,882 (-)EnsemblGRCh38hg38GRCh38
GRCh371185,668,218 - 85,780,902 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361185,346,133 - 85,457,756 (-)NCBINCBI36Build 36hg18NCBI36
Build 341185,346,133 - 85,457,756NCBI
Celera1182,977,768 - 83,089,435 (-)NCBICelera
Cytogenetic Map11q14.2NCBI
HuRef1181,965,384 - 82,078,030 (-)NCBIHuRef
CHM1_11185,553,010 - 85,665,742 (-)NCBICHM1_1
T2T-CHM13v2.01185,893,875 - 86,006,599 (-)NCBIT2T-CHM13v2.0
Picalm
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39789,778,711 - 89,858,655 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl789,779,421 - 89,862,673 (+)EnsemblGRCm39 Ensembl
GRCm38790,130,192 - 90,209,447 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl790,130,213 - 90,213,465 (+)EnsemblGRCm38mm10GRCm38
MGSCv37797,278,742 - 97,357,442 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36790,005,424 - 90,084,124 (+)NCBIMGSCv36mm8
Celera787,455,394 - 87,534,538 (+)NCBICelera
Cytogenetic Map7D3NCBI
cM Map750.47NCBI
Picalm
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81153,468,982 - 153,550,086 (+)NCBIGRCr8
mRatBN7.21144,056,415 - 144,138,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1144,056,721 - 144,137,557 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1151,982,728 - 152,062,265 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01159,159,274 - 159,238,823 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01152,033,188 - 152,112,743 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01154,377,229 - 154,458,966 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1154,377,247 - 154,458,425 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01160,681,689 - 160,763,382 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41146,754,085 - 146,834,197 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11146,832,490 - 146,912,603 (+)NCBI
Celera1142,288,691 - 142,367,949 (+)NCBICelera
Cytogenetic Map1q32NCBI
PICALM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2986,878,789 - 86,989,754 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11187,929,638 - 88,040,190 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01181,011,324 - 81,122,352 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11184,619,241 - 84,730,516 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1184,619,241 - 84,730,684 (-)Ensemblpanpan1.1panPan2
PICALM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12113,437,819 - 13,540,167 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2113,437,925 - 13,539,616 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2113,303,451 - 13,405,757 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02113,619,410 - 13,719,561 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2113,619,520 - 13,719,419 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12113,405,869 - 13,508,626 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02113,478,428 - 13,581,047 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02113,531,568 - 13,633,911 (+)NCBIUU_Cfam_GSD_1.0
Picalm
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494772,186,022 - 72,286,358 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649813,784,886 - 13,886,167 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649813,785,638 - 13,885,931 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PICALM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl919,835,938 - 20,123,566 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1919,835,934 - 19,947,239 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2922,107,100 - 22,184,702 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PICALM
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1177,214,391 - 77,325,626 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl177,213,836 - 77,324,875 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604348,400,453 - 48,511,604 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Picalm
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248453,891,061 - 3,990,342 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248453,875,601 - 3,990,347 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000020743   ⟹   ENSCLAP00000020545
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554146,871,520 - 6,954,561 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000020744   ⟹   ENSCLAP00000020546
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554146,871,569 - 6,969,208 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000020745   ⟹   ENSCLAP00000020547
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554146,871,569 - 6,969,208 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000020746   ⟹   ENSCLAP00000020548
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554146,871,569 - 6,969,208 (+)Ensembl
RefSeq Acc Id: XM_005379748   ⟹   XP_005379805
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554146,871,220 - 6,970,569 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005379805 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000020545.1
  ENSCLAP00000020546
  ENSCLAP00000020546.1
  ENSCLAP00000020547.1
  ENSCLAP00000020548.1
Reference Protein Sequences
RefSeq Acc Id: XP_005379805   ⟸   XM_005379748
- UniProtKB: A0A8C2VTT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000020546   ⟸   ENSCLAT00000020744
RefSeq Acc Id: ENSCLAP00000020545   ⟸   ENSCLAT00000020743
RefSeq Acc Id: ENSCLAP00000020548   ⟸   ENSCLAT00000020746
RefSeq Acc Id: ENSCLAP00000020547   ⟸   ENSCLAT00000020745
Protein Domains
ENTH


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000014073 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000020743.1 UniProtKB/TrEMBL
  ENSCLAT00000020744 ENTREZGENE
  ENSCLAT00000020744.1 UniProtKB/TrEMBL
  ENSCLAT00000020745.1 UniProtKB/TrEMBL
  ENSCLAT00000020746.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.150 UniProtKB/TrEMBL
  1.25.40.90 UniProtKB/TrEMBL
InterPro ANTH_dom UniProtKB/TrEMBL
  ANTH_dom_sf UniProtKB/TrEMBL
  AP180-like UniProtKB/TrEMBL
  ENTH UniProtKB/TrEMBL
  ENTH_VHS UniProtKB/TrEMBL
NCBI Gene Picalm ENTREZGENE
PANTHER PTHR22951 UniProtKB/TrEMBL
  PTHR22951:SF16 UniProtKB/TrEMBL
Pfam ANTH UniProtKB/TrEMBL
PROSITE ENTH UniProtKB/TrEMBL
SMART ENTH UniProtKB/TrEMBL
Superfamily-SCOP GAT-like domain UniProtKB/TrEMBL
  SSF48464 UniProtKB/TrEMBL
UniProt A0A8C2VTT8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VTU3_CHILA UniProtKB/TrEMBL
  A0A8C2VU56_CHILA UniProtKB/TrEMBL
  A0A8C2VYZ6_CHILA UniProtKB/TrEMBL