GgaINT0047773 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19105385-19106370:-
Coord C1 exon
chr7:19106279-19106370
Coord A exon
chr7:19105513-19106278
Coord C2 exon
chr7:19105385-19105512
Length
766 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TCAATCTGTTTCCTCTTTAGATT
3' ss Score
11.17
Exon sequences
Seq C1 exon
CAGATATTGCAGTAGGGGCTCCATATGATGGTTTTGGCAAAGTATATATATATCATGGATCCAAGAATGGAATAAATACAGAACCAGCACAG
Seq A exon
GTAATCATAACTTTCACTGTATATAATTACTCTTGCACAAAATTAAGGGGATGGTGGAGCTGTCTATCTTTTGCCTTTCCGTTACTGTAATTGGGTGGTGGATATGCACAGTTTACAGGAACCTTCAGAGATTGCACTGCTGACCAAAGGAATTACAAGTTCTTTATTTTTTAATGTGCATTTTTCTCCCTGGGACAGTCCATTGGTAGCAATAATACAAAGAGAAGTAAAAGAATTTGTAGATGCAGAAGTTTTTCTTTTTAAGACATTCTGGGATTTCTGAAATAGTTCCTTGCTTTTGGTTCAGATAAAACGCTCACATTAATGAAGAGTTTTCACTTTGGAAATAACTGTACATTTTTTTTTTCCTCTTCTTCTGGAAATATTGTTTTCTTCATTCTTATCTTCCATGACTTCCCCTTTTCCTTTTTTCATATCAATTGTTTGTGCCTTTTTTTTTTTCTTGAGGACCACTATGTCCAGTTAGCATGGTCAGAAGGGAACATAATTATACTTTCTAGAATACTGTTAGAATATTTTTCTAGAATATGTTCTTAAGTTTCAAGTACCTCTACTGCCTAAATATTACAAGTAAAGATCAAATGGGCAAAATTTTTATACAAAGGAAATCATCTTAGGACTTCAGTGTTGTTTATCTGAAGATAGAGGTTTTCTTTTTTGTTCCATAAGGCAATAATGTTCACTTAAGTATTTCACTTTTATAGCTTTTCAATGTCTGAATTCCCTCAATCTGTTTCCTCTTTAG
Seq C2 exon
ATTCTTGATGGTGAAAAAACAGGCACCAATTTCTTTGGTTACTCTATTGCTGGAAACATGGACCTGGATAAAAATTCCTACCCTGATATTGCTGTTGGTTCCCTTTCAGATTCTGTATCTGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF135171=VCBS=PD(5.3=12.9)
A:
NA
C2:
PF0183918=FG-GAP=WD(100=72.1)
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:
AGATATTGCAGTAGGGGCTCCA
R:
ACAGAATCTGAAAGGGAACCAACA
Band lengths:
207-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]