GgaINT0126009 @ galGal3
Intron Retention
Gene
ENSGALG00000002982 | F1NAR8_CHICK
Description
NA
Coordinates
chr17:7612050-7612499:-
Coord C1 exon
chr17:7612337-7612499
Coord A exon
chr17:7612257-7612336
Coord C2 exon
chr17:7612050-7612256
Length
80 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CCCTCTGTGTCTCCCCGCAGTCT
3' ss Score
13.33
Exon sequences
Seq C1 exon
GAGCCTCAACAACAAGCGGCTCTACATGGCAGTGTTTGCTGCCGTGCTGGGGAACTTCAGCTTTGGCTTTGCCCTGGTTTACCCCTCACCCGTGATCCCTGCCCTGGAGACTCACCCCAACCCCGCGCTGAGGCTGGACCGCTACAGAGCATCCTGGTTTGGG
Seq A exon
GTGAGGTGCGGGACCGTCGCCACTGGGGGGGATGCAGGGAGAGCCAGGCTCCACCAAAGCCCCTCTGTGTCTCCCCGCAG
Seq C2 exon
TCTGTGTTCATGCTGGGGGCGGCGGCGGGGGGGCTCAGCACCATGCTTCTCAATGACCACCTGGGCCGCAAGCTCAGCATCATGTTCTCAGCCGTGCCCTCCGCCGTGGGATATGCGCTGATGGCCAGCGCCCAGGGCATCGAGATGCTGCTGCTGGGCCGCGTGCTTACGGGCTACGCCGGTGGCGTGACGTCTGCCTCCATCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002982:ENSGALT00000004719:2
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:
PF0008319=Sugar_tr=PU(10.9=81.8)
A:
NA
C2:
PF0008319=Sugar_tr=FE(16.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACCCCTCACCCGTGATCC
R:
ACGGCTGAGAACATGATGCTG
Band lengths:
181-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]