Human Gene PSD3 (ENST00000327040.13)
  Description: Homo sapiens pleckstrin and Sec7 domain containing 3 (PSD3), transcript variant 1, mRNA. (from RefSeq NM_015310)
Gencode Transcript: ENST00000327040.13
Gencode Gene: ENSG00000156011.17
Transcript (Including UTRs)
   Position: hg38 chr8:18,527,303-19,013,703 Size: 486,401 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg38 chr8:18,535,743-19,013,583 Size: 477,841 Coding Exon Count: 16 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated at UCSC: 2021-01-14 15:32:12

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:18,527,303-19,013,703)mRNA (may differ from genome)Protein (1047 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
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HPRDLynxMGIneXtProtOMIMPubMed
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: PSD3_HUMAN
DESCRIPTION: RecName: Full=PH and SEC7 domain-containing protein 3; AltName: Full=Epididymis tissue protein Li 20mP; AltName: Full=Exchange factor for ADP-ribosylation factor guanine nucleotide factor 6; AltName: Full=Hepatocellular carcinoma-associated antigen 67; AltName: Full=Pleckstrin homology and SEC7 domain-containing protein 3;
FUNCTION: Guanine nucleotide exchange factor for ARF6 (By similarity).
SUBCELLULAR LOCATION: Cell junction, synapse, postsynaptic cell membrane, postsynaptic density (By similarity).
TISSUE SPECIFICITY: Isoform 2 is expressed in epididymis (at protein level).
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 1 SEC7 domain.
SEQUENCE CAUTION: Sequence=AAF61269.2; Type=Erroneous initiation; Sequence=AAH75044.1; Type=Erroneous initiation; Sequence=AAH75045.1; Type=Erroneous initiation; Sequence=BAA76786.2; Type=Erroneous initiation;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013749 Tetrachlorodibenzodioxin
  • D000082 Acetaminophen
  • D001564 Benzo(a)pyrene
  • C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C014024 2,4,5,2',4',5'-hexachlorobiphenyl
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D000535 Aluminum
  • D002945 Cisplatin
          more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 47.27 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 323.96 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -68.60120-0.572 Picture PostScript Text
3' UTR -2379.708440-0.282 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR000904 - Sec7
IPR023394 - SEC7_alpha_orthog

Pfam Domains:
PF00169 - PH domain
PF01369 - Sec7 domain

ModBase Predicted Comparative 3D Structure on Q9NYI0
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsemblWormBase 
Protein SequenceProtein Sequence Protein SequenceProtein Sequence 
AlignmentAlignment AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005085 guanyl-nucleotide exchange factor activity
GO:0005086 ARF guanyl-nucleotide exchange factor activity

Biological Process:
GO:0032012 regulation of ARF protein signal transduction

Cellular Component:
GO:0005886 plasma membrane
GO:0014069 postsynaptic density
GO:0016020 membrane
GO:0030054 cell junction
GO:0032587 ruffle membrane
GO:0042995 cell projection
GO:0045202 synapse
GO:0045211 postsynaptic membrane


-  Descriptions from all associated GenBank mRNAs
  AL832778 - Homo sapiens mRNA; cDNA DKFZp686G087 (from clone DKFZp686G087).
AK091317 - Homo sapiens cDNA FLJ33998 fis, clone FCBBF1000023, moderately similar to Mus musculus pleckstrin and Sec7 domain containing 3 (Psd3), transcript variant 2, mRNA.
AX746913 - Sequence 438 from Patent EP1308459.
GU727648 - Homo sapiens epididymis tissue sperm binding protein Li 20mP mRNA, complete cds.
BX647320 - Homo sapiens mRNA; cDNA DKFZp686A1849 (from clone DKFZp686A1849).
AF243495 - Homo sapiens hepatocellular carcinoma-associated antigen 67 (HCA67) mRNA, complete cds.
AB023159 - Homo sapiens KIAA0942 mRNA for KIAA0942 protein.
BX647406 - Homo sapiens mRNA; cDNA DKFZp686E1349 (from clone DKFZp686E1349).
AK296546 - Homo sapiens cDNA FLJ54694 complete cds, highly similar to Pleckstrin and Sec7 domain-containing protein3.
BC045112 - Homo sapiens pleckstrin and Sec7 domain containing 3, mRNA (cDNA clone IMAGE:5171384), with apparent retained intron.
BC075044 - Homo sapiens pleckstrin and Sec7 domain containing 3, mRNA (cDNA clone MGC:104121 IMAGE:30915575), complete cds.
BC075045 - Homo sapiens pleckstrin and Sec7 domain containing 3, mRNA (cDNA clone MGC:103960 IMAGE:30915359), complete cds.
EU832237 - Synthetic construct Homo sapiens clone HAIB:100067266; DKFZo004E1026 pleckstrin and Sec7 domain containing 3 protein (PSD3) gene, encodes complete protein.
EU832242 - Synthetic construct Homo sapiens clone HAIB:100067271; DKFZo004F0326 pleckstrin and Sec7 domain containing 3 protein (PSD3) gene, encodes complete protein.
AF519767 - Homo sapiens ADP-ribosylation factor guanine nucleotide factor 6 mRNA, complete cds.
AK315099 - Homo sapiens cDNA, FLJ96057.
EU832144 - Synthetic construct Homo sapiens clone HAIB:100067173; DKFZo008E1025 pleckstrin and Sec7 domain containing 3 protein (PSD3) gene, encodes complete protein.
EU832149 - Synthetic construct Homo sapiens clone HAIB:100067178; DKFZo008F0325 pleckstrin and Sec7 domain containing 3 protein (PSD3) gene, encodes complete protein.
AB463178 - Synthetic construct DNA, clone: pF1KA0942, Homo sapiens PSD3 gene for pleckstrin and Sec7 domain containing 3, without stop codon, in Flexi system.
BC011238 - Homo sapiens pleckstrin and Sec7 domain containing 3, mRNA (cDNA clone IMAGE:4153308), complete cds.
AL353936 - Homo sapiens mRNA; cDNA DKFZp761K1423 (from clone DKFZp761K1423).
JD304671 - Sequence 285695 from Patent EP1572962.
JD250616 - Sequence 231640 from Patent EP1572962.
JD188372 - Sequence 169396 from Patent EP1572962.
JD313133 - Sequence 294157 from Patent EP1572962.
JD075956 - Sequence 56980 from Patent EP1572962.
JD502806 - Sequence 483830 from Patent EP1572962.
JD171271 - Sequence 152295 from Patent EP1572962.
JD138126 - Sequence 119150 from Patent EP1572962.
AK313826 - Homo sapiens cDNA, FLJ94448.
KJ902334 - Synthetic construct Homo sapiens clone ccsbBroadEn_11728 PSD3 gene, encodes complete protein.
JD084540 - Sequence 65564 from Patent EP1572962.
JD529004 - Sequence 510028 from Patent EP1572962.
JD195589 - Sequence 176613 from Patent EP1572962.
JD303310 - Sequence 284334 from Patent EP1572962.
JD434236 - Sequence 415260 from Patent EP1572962.
JD504474 - Sequence 485498 from Patent EP1572962.
JD494990 - Sequence 476014 from Patent EP1572962.
JD085354 - Sequence 66378 from Patent EP1572962.
JD520755 - Sequence 501779 from Patent EP1572962.
JD517047 - Sequence 498071 from Patent EP1572962.
JD418313 - Sequence 399337 from Patent EP1572962.
JD361285 - Sequence 342309 from Patent EP1572962.
JD077582 - Sequence 58606 from Patent EP1572962.
JD088936 - Sequence 69960 from Patent EP1572962.
JD050665 - Sequence 31689 from Patent EP1572962.
JD354866 - Sequence 335890 from Patent EP1572962.
JD504636 - Sequence 485660 from Patent EP1572962.
JD283527 - Sequence 264551 from Patent EP1572962.
JD419088 - Sequence 400112 from Patent EP1572962.
JD251786 - Sequence 232810 from Patent EP1572962.
JD293905 - Sequence 274929 from Patent EP1572962.
JD324083 - Sequence 305107 from Patent EP1572962.
JD325549 - Sequence 306573 from Patent EP1572962.
JD371459 - Sequence 352483 from Patent EP1572962.
JD326422 - Sequence 307446 from Patent EP1572962.
JD039551 - Sequence 20575 from Patent EP1572962.
JD303363 - Sequence 284387 from Patent EP1572962.
JD551047 - Sequence 532071 from Patent EP1572962.
JD567081 - Sequence 548105 from Patent EP1572962.
JD110831 - Sequence 91855 from Patent EP1572962.
JD061749 - Sequence 42773 from Patent EP1572962.
JD368118 - Sequence 349142 from Patent EP1572962.
JD073246 - Sequence 54270 from Patent EP1572962.
JD188161 - Sequence 169185 from Patent EP1572962.
JD179173 - Sequence 160197 from Patent EP1572962.
JD526911 - Sequence 507935 from Patent EP1572962.
JD506385 - Sequence 487409 from Patent EP1572962.
JD260295 - Sequence 241319 from Patent EP1572962.
JD052612 - Sequence 33636 from Patent EP1572962.
JD262444 - Sequence 243468 from Patent EP1572962.
JD180646 - Sequence 161670 from Patent EP1572962.
JD228012 - Sequence 209036 from Patent EP1572962.
JD509070 - Sequence 490094 from Patent EP1572962.
JD113676 - Sequence 94700 from Patent EP1572962.
JD548444 - Sequence 529468 from Patent EP1572962.
JD161134 - Sequence 142158 from Patent EP1572962.
JD099660 - Sequence 80684 from Patent EP1572962.
JD433458 - Sequence 414482 from Patent EP1572962.
JD433311 - Sequence 414335 from Patent EP1572962.
JD559120 - Sequence 540144 from Patent EP1572962.
JD147108 - Sequence 128132 from Patent EP1572962.
JD250896 - Sequence 231920 from Patent EP1572962.
JD059155 - Sequence 40179 from Patent EP1572962.
JD480870 - Sequence 461894 from Patent EP1572962.
JD330482 - Sequence 311506 from Patent EP1572962.
JD566773 - Sequence 547797 from Patent EP1572962.
JD263664 - Sequence 244688 from Patent EP1572962.
JD245407 - Sequence 226431 from Patent EP1572962.
JD381794 - Sequence 362818 from Patent EP1572962.
JD521683 - Sequence 502707 from Patent EP1572962.
JD262405 - Sequence 243429 from Patent EP1572962.
JD261586 - Sequence 242610 from Patent EP1572962.
JD325526 - Sequence 306550 from Patent EP1572962.
JD073998 - Sequence 55022 from Patent EP1572962.
JD309426 - Sequence 290450 from Patent EP1572962.
JD142898 - Sequence 123922 from Patent EP1572962.
JD491825 - Sequence 472849 from Patent EP1572962.
JD548699 - Sequence 529723 from Patent EP1572962.
JD063255 - Sequence 44279 from Patent EP1572962.
JD261133 - Sequence 242157 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04144 - Endocytosis

-  Other Names for This Gene
  Alternate Gene Symbols: A6NFQ4, E9KL50, EFA6R, ENST00000327040.1, ENST00000327040.10, ENST00000327040.11, ENST00000327040.12, ENST00000327040.2, ENST00000327040.3, ENST00000327040.4, ENST00000327040.5, ENST00000327040.6, ENST00000327040.7, ENST00000327040.8, ENST00000327040.9, HCA67, KIAA0942, NM_015310, PSD3_HUMAN, Q6B003, Q9NYI0, Q9Y2F1, uc003wza.1, uc003wza.2, uc003wza.3, uc003wza.4, uc003wza.5
UCSC ID: ENST00000327040.13
RefSeq Accession: NM_015310
Protein: Q9NYI0 (aka PSD3_HUMAN)
CCDS: CCDS43720.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.