HsaINT0070366 @ hg38
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:HGNC:4424]
Coordinates
chr9:124898549-124899478:-
Coord C1 exon
chr9:124899329-124899478
Coord A exon
chr9:124898645-124899328
Coord C2 exon
chr9:124898549-124898644
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:ENST00000373555:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.372 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=PD(6.7=71.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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