HsaINT0070373 @ hg19
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:4424]
Coordinates
chr9:127644063-127644848:-
Coord C1 exon
chr9:127644789-127644848
Coord A exon
chr9:127644234-127644788
Coord C2 exon
chr9:127644063-127644233
Length
555 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTTTCCCACTGGTTTTTCAGAAA
3' ss Score
9.25
Exon sequences
Seq C1 exon
ACCATAAAGCAGATGCAGCAGCGGATGCTGGAGCTCCGGAAGACTCTGCAGAAGGAGCTG
Seq A exon
GTGAGTACTCGCATGGGAGCTGGCCCCACTTCCCAGCACTCCCCCTGCTGCCTGTGCCCGGTCCTCCTGAGGTCCCTCGCCGCCTGACTATGCTCCCTCCACCCCCTAATTAATTGCAAGGGATCGCTGGGCAATCCAACGTTAGCTGGTGGGACAGCCTGCCAGCCTGCATGCACCTCTGAAGCAGCTCCGTGGCTACAGCCCTGTTCCTGCCTTCTCTGAGCCTGCATCCTCATCTGGAAGTGGGGTTGCCTGCCACGCCAGCGCAGTGATGCTCTAACAGTGTGTGTGTGTGGCAGAGTGCTTGGCCTGATGCGGGATGCGAGCAGCTTCAGGCCCCAGGGACATGTGTTCTTGCCATGGAAAACGGAATGTCTGAATTTACCCAAACGATGTCACTCCCTCCTCAAGCCTACCTGGAGGTGCTTCCTTCCCAGGTGGGGCCCTTTTTGCCCTACGATAGTGATCATAGTTTGGACCAGGTGAACCTCCCGTGTGATTTTTTCCACCTGTCTCAGAGGGTTCGGTGTAGCATCTTTCCCACTGGTTTTTCAG
Seq C2 exon
AAAATCAGACCCGATAATGAGCTCTTCGAAGTCCGGGAGAAACCTGGACCTGAGATGGCAAACATGGCGCCTTCCGTCACGAATAACACTGACCTGACAGATGCCCGCGAGATCAACTTTGAGTACCTTAAACATGTGGTTTTAAAATTCATGTCTTGTCGCGAATCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935-GOLGA1:NM_002077:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.512 A=NA C2=0.484
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146515=GRIP=PU(46.7=36.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATAAAGCAGATGCAGCAGC
R:
CTCGGATTCGCGACAAGACAT
Band lengths:
230-785
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)