BtaINT0067829 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015286 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:HGNC:4424]
Coordinates
chr11:95881368-95882166:-
Coord C1 exon
chr11:95882017-95882166
Coord A exon
chr11:95881464-95882016
Coord C2 exon
chr11:95881368-95881463
Length
553 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATACTTTCCTCAATTTGCAGAGA
3' ss Score
8.89
Exon sequences
Seq C1 exon
GCCGCCGCGAACACGGAGAGCAGCCGTGCCCAGCAGCAGGCCCTCGCTCTGGAGCAGCAGCAGGCGGAGCGGATCCACGCGCTGGAGACCCAGCTGGCGGGCCTGGGGAGAGCGCGGGTGGCCGACCTGACAGCCACAGAGCAGGAGCTG
Seq A exon
GTGAGTGAGGGAAGGACCGGGGATGGGAGCACCCTGCTCACGCGCAGCCAGGCTGCCAGGCCATTTGACAGGAGGAAGACCAGCCTGCCTCTGAACTCGGGCACCACTTTTAGCGGAGTTTTTCTCTTTTAACAGCACACCTGCTCATGAGACTGGTTGTAAAAAGACTGCTTTTTACAAAAACCCCAAGCAGATGGTTTTTCCTTTTCCTTGAGCTGCACGTGGACTTCCTGGCACTTCCTGACCGGTCCCATCAGCTGCTTTCCTGTCTTCCTAAAATGTGTACTGCTCACCCCTAATGGCTTGCGCCTTTCCCTGGTCTCCATCCTTGTTCCGTAGGCTTCAGAATCAAGTGCCTCAGTTCTTCTTGTGAGGAGAGTGTCAGGTGACTCTCCCTTTCTGACCCCAAACCCTATCCTCCTGTCCCACCCCTGCAGTGGCAACAAAAGGGAAGGGGGCAGTTTTAAAGGTTACATGTCAAAGAGATAGGCCTACACCCAGGGGAAATGGCGTAAAGACCTTTTATTTTATGTATACTTTCCTCAATTTGCAG
Seq C2 exon
AGAAAGCTGGAGCAAGAAAATGCAGCCCTTAAAGAAAGTAAGAATGAATGTGAATGTTCTTTACAGCATCACCAGCTTGAACTAAAGAAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015286:ENSBTAT00000020327:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.473 A=NA C2=0.406
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=PU(22.0=72.0)
A:
NA
C2:
PF045827=Reo_sigmaC=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCGAACACGGAGAGCAG
R:
TCAGCTTCTTTAGTTCAAGCTGGT
Band lengths:
239-792
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development