HsaINT0070366 @ hg19
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:4424]
Coordinates
chr9:127660828-127661757:-
Coord C1 exon
chr9:127661608-127661757
Coord A exon
chr9:127660924-127661607
Coord C2 exon
chr9:127660828-127660923
Length
684 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GTGTTCTTCTGAATTGGCAGAGA
3' ss Score
5.38
Exon sequences
Seq C1 exon
GCTGCCGCCAACCAGGAGAGCAGCCATGTGCAGCAGCAGGCCCTTGCTCTGGAGCAGCAGTTCTTGGAGCGCACCCAGGCGCTAGAAGCCCAGATAGTGGCCCTGGAGAGAACGCGGGCAGCTGACCAGACCACCGCAGAGCAAGGGATG
Seq A exon
GTGAGTGAAGAGCTAAGAGAGGGTGGGCCCAGGAGCACCAGGGTCCCCCACAGCGAAGTCAGCCTCGTGCTTGACAGTGTGTCACCACCTCTGCACTAGGAAACCACTTTAGAAGGCAGCTTTTTTTTTGTTTGAGACAGGGTCTCACTCTGTCACCCAGGCTGGAGCACAGTGGCATGATTACAACTGACTGCAGCCTCGACCTCTCAGACTCAAGTGATCCTGCCACCTCAGCCTCCCAAGTAGCTGGGACTACAGGCGTGCACCACCACAGCCAGCTAATTTTTAAATTTTTTGGAGAGACAAGGTCTCACTGTGTTGCCCAGGCTGGTCTTGAACGCCTAGGCTCAAGGGATCTGCCCACCTCAGCCTCCCAAAGTGCTGGAATTATAGGCATGAGCCACCGCACCCAGCCGAGAGCAGTTCTTATCTTTCCAGAGACACCTGCTCATGAGACTGGATGTATAAAGGCTGCTTTTTATAAAACAAAACAGATGGGTTTTCTTTTTCCTTGGAGTTTCCACAGAGACTTCCTACTTTCTGACCAGTCCCCTCTGCTTCTTCCCATTGGCTTTTAAAATGTATATTGTTCCTCCCTATGCCTTCTTCCTGGTCCATGCTCCCTGTGCCCAGGGAAATATGGTAGTGAAGACTTCTTTTATATGTGTTCTTCTGAATTGGCAG
Seq C2 exon
AGACAACTGGAGCAAGAAAATGCAGCCCTTAAAGAATGCAGGAATGAATATGAACGTTCTTTACAAAATCACCAATTTGAACTAAAGAAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935-GOLGA1:NM_002077:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.380 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF078886=CALCOCO1=PD(4.8=50.0),PF0157614=Myosin_tail_1=PD(1.4=14.3),PF083176=Spc7=PD(7.3=78.6),PF045827=Reo_sigmaC=PD(6.7=71.4),PF0192313=Cob_adeno_trans=PD(6.0=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACCAGGAGAGCAGCCATG
R:
CTTCAGCTTCTTTAGTTCAAATTGGT
Band lengths:
238-922
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)