GgaINT0047778 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19100360-19101148:-
Coord C1 exon
chr7:19100993-19101148
Coord A exon
chr7:19100476-19100992
Coord C2 exon
chr7:19100360-19100475
Length
517 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
AGTGCTTTGGTTTTATTTAGGTG
3' ss Score
8.86
Exon sequences
Seq C1 exon
GAAAAAATTAAGGATAAGCTGCGCCCGATCCCTATAGCAGTCAGTGTTAATATTGCTGGCCTGGAGTCTGGCTCATCATCCACCAGAAAAGAGAGAGCGCTTCCGGACCTGATACCCATACTAAATTCAAACGAATCTGAAACAAAGATCACAAAA
Seq A exon
GTAAGTCTTTAATAGCATATTTTCCTAGAAATCCGTACCATGGAAGTCACCAAACATTAAAGACTGTGGAAAACTAAACTGTGACCAAAGGAAATAAGTGGTGTGGCTCTGGACTGGTGTATGTTTTGTGCTTTGTTATGAATGTGTTACGAAATGTTCTGAACTTAGTCCTGCGTTTCTTTTGTAACATAAGGGAAAATCATATGACTGTTAGGCTTTTTCTATTCCCCACTCCCTCCCAGCATGTTTAGGAGGAAGTATGCTTTTAAATAACAGAAGTCTTTCATCTTCTGCAGTGCACACTTATCCCACATAACAACAACAACAACAACAAAAAACCCATGCAGTCCAATTCCTTCATGGAGAGGATGCTGTAACAGCATTAGAGCTCCGCATCGGTGACATATCTGGGAAAGCTGTTGAGCTCCCTTTAGCTGCTTTATGCACTGCACGTCAGAAATCATGTTTTAAGCTAGTACCATGTGGCATGCAATAAAAGTGCTTTGGTTTTATTTAG
Seq C2 exon
GTGGAGTTCTTGAAAGAAGGATGTGGAGAAGATAATGAATGTCACAGCAATCTGAAACTTCAGTACCGGTTTTGCACTAGAGAAGGAAATGAAGACAGATTTACCTATTTACCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(10.7=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(7.9=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:
ATTAAGGATAAGCTGCGCCCG
R:
TCGGTAAATAGGTAAATCTGTCTTCA
Band lengths:
265-782
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]