GgaINT0005309 @ galGal3
Intron Retention
Gene
ENSGALG00000014179 | SBK1
Description
NA
Coordinates
chrUn_random:33310509-33311013:-
Coord C1 exon
chrUn_random:33310800-33311013
Coord A exon
chrUn_random:33310712-33310799
Coord C2 exon
chrUn_random:33310509-33310711
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CAGCCCTCTGCCCGCTGCAGGCA
3' ss Score
5.73
Exon sequences
Seq C1 exon
CTGCCTTGCAGCACAGCCATGAGTGCCGGATCGATCGAGCAGGAGCCGTCGCGCAAGCTGGCGTGCTGCGGGGTGCCGCTCATCACCGAAGACATGCAGTCGTTGGCCATCCGCACCCTCTCGGGCACCGACATCAACAAACACTACGACCTCATCCGCGAGCTCGGCAAGGGCACCTACGGCAAGGTGGACCTGGTGTCCCACAAAAGCACAG
Seq A exon
GTGAGGGGAGCGGGGGGCAGGCGCGGCACCTGGGTGTGCATCGCCATCGGCCTTGCCAGGGGCTCAGCCAGCCCTCTGCCCGCTGCAG
Seq C2 exon
GCACCAAGATGGCCCTGAAGTTCGTCAACAAGAGCAAGACGAAGCTGAAGAACTTCCTGCGGGAGTTCAGCATCACCAACACGCTCTCCTCCAGCCCCTTCATCATCAAGGTCTTCGACGTGGTCTTCGAGACAGAGGACTGCTACGTCTTTGCTCAGGAGTATGCCCCAGGAGGGGACCTCTTCGACATCATCCCCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014179:ENSGALT00000022935:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(8.8=34.8)
A:
NA
C2:
PF0006920=Pkinase=FE(25.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCATCACCGAAGACATGCA
R:
TTGTTGACGAACTTCAGGGCC
Band lengths:
168-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]