GgaINT0047784 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19097997-19098710:-
Coord C1 exon
chr7:19098608-19098710
Coord A exon
chr7:19098171-19098607
Coord C2 exon
chr7:19097997-19098170
Length
437 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
AAGAAAGTTTATTTTCACAGGTG
3' ss Score
4.07
Exon sequences
Seq C1 exon
AGTGGCTAAGCCTTCTCAGGTATATTTTGGAGGTAACATCGTTGGTGAGAGTGCTATGAAATCTGAAGATAATATTGGAAACCTCATCGAGTACGAATTCAGA
Seq A exon
GTGAGTAATTTAGAACAGTTTCTCTTTTTGCGTGTGTTAATTCTCAAAAATGTTGCTGGATTTAAAAATGGATTTTCCCAAACTGCAGGAGCAGGATCTGGTTAGCTTTATGTGTCAAAAGTTTGTCATAAACTTGGAGTTTGCTACAGTTACGTAGACAAATGATTTGTTAACTCTAAATGTAAACGGTGGGTGTTTCATATGAAGACAGACTTGTAAACATCAGCAGCATAATGTTTTGAATTTTTAATCTTATAAGCTTGACATTTAGTTGCCTTCCAGATGTATATGAAAACTAGCACATCTCGTCTTTAAACTGTTTTCACTGTCTTTTAGTGGCTTTCTAATTTCCTGTTATTTGCATGACTCCAAGTCAGTAATGGTGATAAATCCCTTTGGAACAGGTTGCACAGTGTAAAGAAAGTTTATTTTCACAG
Seq C2 exon
GTGACCAACTTGGGCAGGCCACTGAAAACATTTGGTACGGCTTCCCTGGACATCCAGTGGCCAAAAGAAATTAGTAATGGCAAATGGCTGCTGTATTTGATGAAAATAGAATCCAAGGGCTTGGAAAAAGTTTCCTGTCAACCACAGAATGAAATCAATGTTTTGCATGTTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:18
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=0.034
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(7.1=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(11.9=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:
AAGCCTTCTCAGGTATATTTTGGAGG
R:
CGCAACATGCAAAACATTGATT
Band lengths:
270-707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]