Human Gene GIN1 (uc003koa.1)
Description: Homo sapiens gypsy retrotransposon integrase 1 (GIN1), mRNA.
Transcript (Including UTRs)
Position: hg19 chr5:102,421,704-102,455,842 Size: 34,139 Total Exon Count: 8 Strand: -
Coding Region
Position: hg19 chr5:102,423,602-102,444,411 Size: 20,810 Coding Exon Count: 7
Data last updated at UCSC: 2013-06-14
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: GIN1_HUMAN
DESCRIPTION: RecName: Full=Gypsy retrotransposon integrase-like protein 1; Short=GIN-1; AltName: Full=Ty3/Gypsy integrase 1; AltName: Full=Zinc finger H2C2 domain-containing protein;
TISSUE SPECIFICITY: Widely expressed. Also found in tumors originating from parathyroid gland, colon, stomach, bladder, uterus and prostate.SIMILARITY: Contains 1 integrase catalytic domain.SEQUENCE CAUTION: Sequence=BAA90963.1; Type=Frameshift; Positions=375; Sequence=CAH10511.1; Type=Miscellaneous discrepancy; Note=Wrong choice of CDS;
Primer design for this transcript
Genetic Association Studies of Complex Diseases and Disorders
Genetic Association Database (archive): GIN1
CDC HuGE Published Literature: GIN1
MalaCards Disease Associations
Comparative Toxicogenomics Database (CTD)
The following chemicals interact with this gene
Common Gene Haplotype Alleles
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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
Microarray Expression Data
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mRNA Secondary Structure of 3' and 5' UTRs
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 IPR001584 - Integrase_cat-core
IPR012337 - RNaseH-like_dom
IPR015416 - Znf_H2C2_histone_UAS-bd
SCOP Domains: 53098 - Ribonuclease H-like
ModBase Predicted Comparative 3D Structure on Q9NXP7
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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.
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
CR627424 - Homo sapiens mRNA; cDNA DKFZp781I0575 (from clone DKFZp781I0575).BC151135 - Homo sapiens gypsy retrotransposon integrase 1, mRNA (cDNA clone MGC:184047 IMAGE:9057035), complete cds.BC157835 - Homo sapiens gypsy retrotransposon integrase 1, mRNA (cDNA clone MGC:189730 IMAGE:9057054), complete cds.JD081229 - Sequence 62253 from Patent EP1572962.JD229934 - Sequence 210958 from Patent EP1572962.JD243557 - Sequence 224581 from Patent EP1572962.JD269380 - Sequence 250404 from Patent EP1572962.JD349510 - Sequence 330534 from Patent EP1572962.JD441419 - Sequence 422443 from Patent EP1572962.JD256343 - Sequence 237367 from Patent EP1572962.JD441420 - Sequence 422444 from Patent EP1572962.JD441421 - Sequence 422445 from Patent EP1572962.JD564421 - Sequence 545445 from Patent EP1572962.AK295796 - Homo sapiens cDNA FLJ61279 complete cds.BC015325 - Homo sapiens gypsy retrotransposon integrase 1, mRNA (cDNA clone IMAGE:4414731), complete cds.AK225572 - Homo sapiens mRNA for hypothetical protein LOC54826 variant, clone: LNF01107.AK000132 - Homo sapiens cDNA FLJ20125 fis, clone COL06152.JD528575 - Sequence 509599 from Patent EP1572962.JD515830 - Sequence 496854 from Patent EP1572962.JD431423 - Sequence 412447 from Patent EP1572962.JF432633 - Synthetic construct Homo sapiens clone IMAGE:100073870 gypsy retrotransposon integrase 1 (GIN1) gene, encodes complete protein.KJ902697 - Synthetic construct Homo sapiens clone ccsbBroadEn_12091 GIN1 gene, encodes complete protein.JD171537 - Sequence 152561 from Patent EP1572962.JD037950 - Sequence 18974 from Patent EP1572962.JD273190 - Sequence 254214 from Patent EP1572962.
Other Names for This Gene
Alternate Gene Symbols: B2RXF7, B4DIV4, GIN1_HUMAN, NM_017676, NP_060146, Q6AI03, Q96BR2, Q9NXP7, TGIN1, ZH2C2UCSC ID: uc003koa.1RefSeq Accession: NM_017676
Protein: Q9NXP7
(aka GIN1_HUMAN)
CCDS: CCDS43349.1
Gene Model Information
category:
coding
nonsense-mediated-decay:
no
RNA accession:
NM_017676.2
exon count:
8 CDS single in 3' UTR:
no
RNA size:
3549
ORF size:
1569 CDS single in intron:
no
Alignment % ID:
100.00
txCdsPredict score:
3338.00 frame shift in genome:
no
% Coverage:
100.00
has start codon:
yes
stop codon in genome:
no
# of Alignments:
1
has end codon:
yes
retained intron:
no
# AT/AC introns
0
selenocysteine:
no
end bleed into intron:
0 # strange splices:
0
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Methods, Credits, and Use Restrictions
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for details on how this gene model was made and data restrictions if any.