HsaINT0070379 @ hg19
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:4424]
Coordinates
chr9:127688988-127690564:-
Coord C1 exon
chr9:127690467-127690564
Coord A exon
chr9:127689021-127690466
Coord C2 exon
chr9:127688988-127689020
Length
1446 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TTTTTATTGTTTTGTTTTAGGAA
3' ss Score
12.86
Exon sequences
Seq C1 exon
CTTCCATGCGGAAATTTCAAGAGCAGAATGAGACATTCCAAGCCAACAGAGCCAAAATGGCAGAAGGACTGGCTTTGGCATTAGCCAGAAAGGACCAG
Seq A exon
GTATTTTATATGTGGCACTGCCCAGAACTGGTGGAAAGATTTCACTTAGTGACGTGATTTCAAAAATCATGACATAACCTATAGAAAATATTTATAGCCTAGGAGAAGAGAAATGTTAAAAGTTCGTTAAGGTTTTCTTTGGCCTTTTCTTGTAAAGTGAAGAAACTTTACAGTTCTAATCATGAAATGTGTCCAGAATGTGAGAGTATCATTCCTTGTATCTGTGTAGTTTCATAAAATTGAGAAGGGAAATAGTGTATCTGTAATCTGATGGCAGGCCCCAAAATAAGAGAAAAGGTCTCTCCCCTCTAAAAACCTCTCTGAAAGTCTAACCCCCAAACATTTGCCTTTTATCCTGGAGAAGATGTTATTAACTTAGTCATAATCCATAGTATACAGAGTTCTTCCAACCTCTGTTCCCACGTTTCTTCAATCCCAACCAGCAGGACAGAGGGGAAATCCTATAATCTCAGCAGAACCAACCACTGGAAGATGCTGAATGAATAACCACAAGGAAGGAAAATAATTCTGTTACTGGCTATTACAGTAATTATGAAGTATATTTTGTTCAAAATAATAGATGACATTTTAAATTTAAGATAAGCATCAATATATTATAATGTTAATTTTGATTTATTAAGACAGAGTTTATTATGTTTCACTTAAGAAATTGTATAATTTATTTCATCTGGAGGAGGTGGGTTGGTTGGTTGGTTTTAAAGTGTCTGTTCATCATCTAGGACATTTACTAGCCAGAAAAAATACAATTTACCAATACTTAGTGGATAACTGTGGTATGAATGTATATAAATGAAGAAATAATCTAAAATTGATGGATTCTGATTATAGGCAATCAGGATATTGCCTTTGTGCAAATGGGCTTTTTTTCCCACTATTTTATGGTTTGTGAATAAGGGGCATAATTCTTTTTCTTTTGACTTACACAGATGGCATAAAGCATGTTGGTAAAATCAAAATGAAAAGGAAAATGATTATCAGGGACTGCAAAAGATCCCCCCTACTCCCCCAGTTTCAGGAATTAATTTCTAAACATCATTTCCAGAATTACTCAACTCAGCTGGTCCCAGCTACCCACTCCCAAGAAATAACAGTACTCATGGCAAAACTCCCAGGAACAAGCCAAAAAGCTGCATCAGAACAGCAGATACAGCTTTTCTTGGGTGCCCTGCTTAGTAAAAATCTGCAGGCTTATATTCATGAATTCATTCCATTCTAGAATCTTAGATAAAGTTCATTTTCTTCTATTTTTGTGACTCTTGCCTTTCTTAATATTAAACCAAGTTTATAGATTTTTTTTTAATTGGCTTTTTTGTTTTGTTTGGTTAGTTGCTTTCTGGGAAGAGTTGGGTTGTTTTGTTTTCTGAAAATCTTGGTATTACAGATACTCTTCACTGGAAACCATACTTTTTTATTGTTTTGTTTTAG
Seq C2 exon
GAATGGTCAGAAAAGATGGATCAGCTTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935-GOLGA1:NM_002077:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.573 A=NA C2=0.727
Domain overlap (PFAM):
C1:
PF123293=TMF_DNA_bd=PD(10.5=18.2),PF0003816=Filament=FE(44.4=100)
A:
NA
C2:
PF120723=DUF3552=FE(10.6=100),PF083176=Spc7=FE(8.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)