Human Gene SYNRG (ENST00000612223.5_12) from GENCODE V47lift37
  Description: synergin gamma, transcript variant 1 (from RefSeq NM_007247.6)
Gencode Transcript: ENST00000612223.5_12
Gencode Gene: ENSG00000275066.5_19
Transcript (Including UTRs)
   Position: hg19 chr17:35,874,910-35,969,466 Size: 94,557 Total Exon Count: 22 Strand: -
Coding Region
   Position: hg19 chr17:35,879,043-35,969,403 Size: 90,361 Coding Exon Count: 22 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:35,874,910-35,969,466)mRNA (may differ from genome)Protein (1314 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SYNRG_HUMAN
DESCRIPTION: RecName: Full=Synergin gamma; AltName: Full=AP1 subunit gamma-binding protein 1; AltName: Full=Gamma-synergin;
FUNCTION: May play a role in endocytosis and/or membrane trafficking at the trans-Golgi network (TGN). May act by linking the adapter protein complex AP-1 to other proteins.
SUBUNIT: Interacts with SCAMP1 via its EH-domain (By similarity). Interacts with GGA1, GGA2 and GGA3. Interacts with the AP1G1 and AP1G2 subunits of the adapter protein complexes AP-1.
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Golgi apparatus, trans-Golgi network membrane; Peripheral membrane protein (By similarity). Note=Associates with membranes via the adapter protein complex AP-1. Colocalizes with AP1G1 (By similarity).
DOMAIN: The DFXDF motifs mediate the interaction with gamma- appendage subunits AP1G1 and AP1G2.
SIMILARITY: Contains 1 EH domain.
SEQUENCE CAUTION: Sequence=AK126988; Type=Miscellaneous discrepancy; Note=Intron retention;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SYNRG
Diseases sorted by gene-association score: chromosome 17q12 deletion syndrome (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  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 -24.9063-0.395 Picture PostScript Text
3' UTR -1504.004133-0.364 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
IPR011992 - EF-hand-like_dom
IPR000261 - EPS15_homology

SCOP Domains:
47473 - EF-hand

ModBase Predicted Comparative 3D Structure on Q9UMZ2
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0006897 endocytosis
GO:0015031 protein transport

Cellular Component:
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0016020 membrane
GO:0030121 AP-1 adaptor complex


-  Descriptions from all associated GenBank mRNAs
  AK025700 - Homo sapiens cDNA: FLJ22047 fis, clone HEP09283, highly similar to AF169548 Homo sapiens gamma-synergin mRNA.
BC084536 - Homo sapiens cDNA clone IMAGE:2819830, containing frame-shift errors.
BC090930 - Homo sapiens AP1 gamma subunit binding protein 1, mRNA (cDNA clone MGC:104959 IMAGE:3077104), complete cds.
BC117313 - Homo sapiens AP1 gamma subunit binding protein 1, mRNA (cDNA clone MGC:150922 IMAGE:40125864), complete cds.
BC143452 - Homo sapiens cDNA clone IMAGE:9051960, containing frame-shift errors.
BC143476 - Homo sapiens AP1 gamma subunit binding protein 1, mRNA (cDNA clone MGC:177001 IMAGE:9051984), complete cds.
BC143478 - Homo sapiens AP1 gamma subunit binding protein 1, mRNA (cDNA clone MGC:177003 IMAGE:9051986), complete cds.
AF169548 - Homo sapiens gamma-synergin mRNA, complete cds.
AB462949 - Synthetic construct DNA, clone: pF1KB1529, Homo sapiens AP1GBP1 gene for AP1 gamma subunit binding protein 1, without stop codon, in Flexi system.
AK025335 - Homo sapiens cDNA: FLJ21682 fis, clone COL09332, highly similar to AF169548 Homo sapiens gamma-synergin mRNA.
AK308292 - Homo sapiens cDNA, FLJ98240.
AK091801 - Homo sapiens cDNA FLJ34482 fis, clone HLUNG2004067.
JD220435 - Sequence 201459 from Patent EP1572962.
JD264555 - Sequence 245579 from Patent EP1572962.
JD268346 - Sequence 249370 from Patent EP1572962.
JD524786 - Sequence 505810 from Patent EP1572962.
JD352587 - Sequence 333611 from Patent EP1572962.
JD048137 - Sequence 29161 from Patent EP1572962.
JD450731 - Sequence 431755 from Patent EP1572962.
JD534123 - Sequence 515147 from Patent EP1572962.
JD457573 - Sequence 438597 from Patent EP1572962.
JD293525 - Sequence 274549 from Patent EP1572962.
JD293524 - Sequence 274548 from Patent EP1572962.
DQ580950 - Homo sapiens piRNA piR-49062, complete sequence.
JD301807 - Sequence 282831 from Patent EP1572962.
JD453804 - Sequence 434828 from Patent EP1572962.
JD087995 - Sequence 69019 from Patent EP1572962.
JD297354 - Sequence 278378 from Patent EP1572962.
JD305036 - Sequence 286060 from Patent EP1572962.
JD063309 - Sequence 44333 from Patent EP1572962.
JD169075 - Sequence 150099 from Patent EP1572962.
JD512382 - Sequence 493406 from Patent EP1572962.
JD369745 - Sequence 350769 from Patent EP1572962.
JD390993 - Sequence 372017 from Patent EP1572962.
JD563673 - Sequence 544697 from Patent EP1572962.
JD368391 - Sequence 349415 from Patent EP1572962.
JD559456 - Sequence 540480 from Patent EP1572962.
JD460728 - Sequence 441752 from Patent EP1572962.
JD398941 - Sequence 379965 from Patent EP1572962.
JD398940 - Sequence 379964 from Patent EP1572962.
JD324310 - Sequence 305334 from Patent EP1572962.
JD458817 - Sequence 439841 from Patent EP1572962.
JD172091 - Sequence 153115 from Patent EP1572962.
JD250219 - Sequence 231243 from Patent EP1572962.
JD302203 - Sequence 283227 from Patent EP1572962.
JD502094 - Sequence 483118 from Patent EP1572962.
JD181682 - Sequence 162706 from Patent EP1572962.
JD380767 - Sequence 361791 from Patent EP1572962.
JD171965 - Sequence 152989 from Patent EP1572962.
JD419854 - Sequence 400878 from Patent EP1572962.
JD360263 - Sequence 341287 from Patent EP1572962.
JD369796 - Sequence 350820 from Patent EP1572962.
JD209236 - Sequence 190260 from Patent EP1572962.
JD331157 - Sequence 312181 from Patent EP1572962.
JD562611 - Sequence 543635 from Patent EP1572962.
JD042992 - Sequence 24016 from Patent EP1572962.
JD449502 - Sequence 430526 from Patent EP1572962.
JD237570 - Sequence 218594 from Patent EP1572962.
JD360074 - Sequence 341098 from Patent EP1572962.
JD073999 - Sequence 55023 from Patent EP1572962.
JD185206 - Sequence 166230 from Patent EP1572962.
JD437048 - Sequence 418072 from Patent EP1572962.
JD383219 - Sequence 364243 from Patent EP1572962.
JD094858 - Sequence 75882 from Patent EP1572962.
JD188089 - Sequence 169113 from Patent EP1572962.
JD222719 - Sequence 203743 from Patent EP1572962.
JD437568 - Sequence 418592 from Patent EP1572962.
JD442019 - Sequence 423043 from Patent EP1572962.
JD331452 - Sequence 312476 from Patent EP1572962.
AK126988 - Homo sapiens cDNA FLJ45043 fis, clone BRAWH3021012.
AK302821 - Homo sapiens cDNA FLJ61496 complete cds, highly similar to AP1 subunit gamma-binding protein 1.

-  Other Names for This Gene
  Alternate Gene Symbols: A8MWU4, AP1GBP1, B7ZKZ2, B7ZKZ3, ENST00000612223.1, ENST00000612223.2, ENST00000612223.3, ENST00000612223.4, NM_007247, Q17RI2, Q5BKU5, Q6ZT17, Q9UMZ2, SYNG, SYNRG , SYNRG_HUMAN, uc327nvj.1, uc327nvj.2
UCSC ID: ENST00000612223.5_12
RefSeq Accession: NM_007247.6
Protein: Q9UMZ2 (aka SYNRG_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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