HsaINT0070382 @ hg38
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:HGNC:4424]
Coordinates
chr9:124921129-124921892:-
Coord C1 exon
chr9:124921723-124921892
Coord A exon
chr9:124921241-124921722
Coord C2 exon
chr9:124921129-124921240
Length
482 bp
Sequences
Splice sites
5' ss Seq
GAGGTTCTT
5' ss Score
1.82
3' ss Seq
TCTGCTTTCTTTTGATGAAGAGA
3' ss Score
3.78
Exon sequences
Seq C1 exon
CTTTTAAAAAAAGAAGAAAGTCTAGGGAAAATGGAACAAGAATTGGAGGCACGAACCAGAGAACTTAGTCGTACCCAGGAGGAGTTGATGAACTCCAATCAGATGTCATCAGACTTAAGCCAGAAGCTAGAAGAATTGCAGAGACACTACTCAACGCTGGAAGAGCAGAG
Seq A exon
GTTCTTGCTTGGTCTGTGGGGCCCTTGGGAAGAGGTGTTAGTGTAGTTCTGGCTATAGCCTGCCCACCTTTCCCCATTGTTCATTACACCACTTTCTGATTCCGGTGCTGGCAAAGGCTTCTGGACACATCCTTACCTGCCTAGGACTCAGGCCTCACCCTACCTCCAACCCATTTTCCCCTTCAGCTGCTGAAACTCAGGACAGTTCCACCCTGCTGAACAATTCAGTGTGGTTTTAGTTTGTAAAGTATTAATAGACTAAGGAAAGGCAGGTCAGGATTTCTTTCTTAAACTAGGGTGGACTTTTTCTCTTTGGGCTCCTGCTTCAGAGAGAGCCGAGGCTTTTTCCGTTGAAAACCTGCATGTGGCTAATGATGCTTGTAGCCCTGACACAGAAGAAACCATTTGTATTTTTCCTGCAGAAGACTGTATATTAGATGAGATATCCAAATTTGTTCATTGTCTGCTTTCTTTTGATGAAG
Seq C2 exon
AGATCATGTGATAGCTTCAAAAACAGGTGCAGAAAGTAAGATCACAGCCCTGGAACAAAAGGAACAAGAGCTCCAAGCACTCATTCAGCAGCTTTCCATTGATTTGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935:ENST00000373555:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.843 A=NA C2=0.461
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=PU(15.4=95.0),PF045827=Reo_sigmaC=PU(12.8=95.0),PF048597=DUF641=PU(19.6=90.0)
A:
NA
C2:
PF104734=CENP-F_leu_zip=FE(30.1=100),PF045827=Reo_sigmaC=FE(24.8=100),PF048597=DUF641=FE(40.2=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAAGAAAGTCTAGGGAAAATGGA
R:
TTGCAAATCAATGGAAAGCTGCT
Band lengths:
270-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development