GgaINT0047772 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19106279-19106696:-
Coord C1 exon
chr7:19106503-19106696
Coord A exon
chr7:19106371-19106502
Coord C2 exon
chr7:19106279-19106370
Length
132 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTATTGCAACTTCTTTTCAACAG
3' ss Score
-4.36
Exon sequences
Seq C1 exon
ATGGCAAGATATTGTGGTTGGAGCCCCGCAATACTTTGATAGAAGTGGAGATATCGGTGGTGCTGTGTACATCTACATTAACCAGCGAGGCAAATGGGAAGGAATAAAACCTATTCGCTTAAATGGGACCGCTGACTCGATGTTTGGTCTCGCAGTTGAAAATGTTGGGGACATTAATCAGGACGGATATCCAG
Seq A exon
GTGAGTGAAAATGACTAACAGGAGAGTGTGCATGATTTTTGTGCTAACGCCACACTTTGAACGGCTGTCTTTATCACAACTGAAAGCTGCAGAAAGAATAAGAATTATTTATGTATTGCAACTTCTTTTCAA
Seq C2 exon
CAGATATTGCAGTAGGGGCTCCATATGATGGTTTTGGCAAAGTATATATATATCATGGATCCAAGAATGGAATAAATACAGAACCAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:6
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=0.130
Domain overlap (PFAM):
C1:
PF135171=VCBS=FE(86.7=100)
A:
NA
C2:
PF135171=VCBS=PD(5.3=12.9)
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:
AGTGGAGATATCGGTGGTGCT
R:
TGTGCTGGTTCTGTATTTATTCCA
Band lengths:
242-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]