GgaINT0127080 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7945326-7945838:-
Coord C1 exon
chr18:7945690-7945838
Coord A exon
chr18:7945402-7945689
Coord C2 exon
chr18:7945326-7945401
Length
288 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGC
5' ss Score
8.81
3' ss Seq
TTTCCTTTCTATCCCCACAGTGT
3' ss Score
12.46
Exon sequences
Seq C1 exon
GTGCTACTGCAGGGCTGCAGGGCTGCGGTGCCGGGCTGCTGCCCACAGGAGAACCCGCTGTGGTCGGACCTCACCGTGCTCCAGCATCTGGAGGCCTACGCTGCCGTGCGAGGGGTGAGGGGAGAGGATGCAGCTGTGTTCATCAGCCG
Seq A exon
GTACGCAGCCAAAGGATTCTTGTTTCCTCTCTCTGGAGGTATTGGACAGGAAAAGGGCTTTTTGCTAACAGGGTTGGTTGGCATGAGGACGAGAAAGCACTTTACTTCTTGCATTAGCTGCACTTACAGTCTTGAAATCCTGCAACAAATCTGTAAATTAGGAGGAGAATCACTAAGTAACCCCCAGTGATGCACATCAGCCAAAGGCTGCTTGTCAGCTCCTGCTTCCTCTGCACCCCTGGCTGCAGTGTCAGCATATGTCTGTATTTTTCCTTTCTATCCCCACAG
Seq C2 exon
TGTGGCCAAGGCCTTGGACCTCCAGAAGTGTTTAAAAACCCCAGCAAGGAGGCTGTCTGCTGGAGAAGCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021395:ENSGALT00000034529:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(46.7=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(23.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCCCACAGGAGAACC
R:
GCAGACAGCCTCCTTGCT
Band lengths:
173-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]