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
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC

-  Comments and Description Text from UniProtKB
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
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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     
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.