GgaINT0047777 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19100993-19102180:-
Coord C1 exon
chr7:19102023-19102180
Coord A exon
chr7:19101149-19102022
Coord C2 exon
chr7:19100993-19101148
Length
874 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCATTTGAAATTTTTATCAGGAA
3' ss Score
6.97
Exon sequences
Seq C1 exon
AGATCAACTATACATTTGAAGCAGAAAATGAGAGGAGACAATTAGGCCTGCCATCTAGGGTACGGTTTAAAGACTATCTATCTGATCAGTTCACTGCAAGTACCACCCTAATAGGGCAGAACTCAAAACGGTGCGTGACAGCCAAGCTTGTTCTGCAG
Seq A exon
GTAAGGCAATGTATTTAATTTTTATTTCATTTATAACAAAACATACGCTTTTTCAGCCTTGTGGTATCTTTGTACGCAACTTAAAATTCATGTGCAATATAAGGCTTTGAAATGAGAAAACCAGAACTAAGTAGTACTTTACTATTCTCTGCACACATGGTGCTTCTTCCCGCTGCCTTTCTTTCAAAGAGTGAATAAAATTTGCAGCCAGTGCAGTGTGCTGTGGAGGTCAAGAGAGCTGAACCAATTTAGAACAATGGAGAGTCAACAAATGCCAAAAATTGAGAGCTGTTGGAAGACACAGAAGTAGTGGTAGAATTTAACAGTGACTGACTAGGAAAAGGATTTCAAGCCATGGGTTTTTGATGACTTGAATGGGCCCAATAGGAAAACTTGGTATGCACTCTCTTCTCACTTTGCTGCTGTGAGAGGCTGCTGGCCCCTAAAGGCGGCACTGCTCTAAAAGCTGAACAAATTGTCTGTCTGTGGCTCAGGAGTAATGAGCTTCCAGTGTAGCCTTTGGCCACGGGAAATTCAAGACCTTGGAATTACTTAACAGGAAGAAAGTGTGTTATTTTATTGTTATAGTGTGTTTCATTTGTCTGAGTTACCATTTGTTATACCTAGTAATTCCTAACTCTAAGAGAAATAATCAGATCGGGAAGCCAGAAAAAAAGATACAGTAAGGCTGGGATTTGTTGTGTTCATGTATATTTTTAGAAAATTACGTGTTTCTAAATAGTGAGTAGTTGTAATACTGCAAAATGTAGCAAGGGAGATGTTGCTTTACTACTTGTTCTAACATCAAAAGCTAGTCTGGAGGTTGTTTTTCTTTGCACTGTATGCTAAGTATGCCATTTGAAATTTTTATCAG
Seq C2 exon
GAAAAAATTAAGGATAAGCTGCGCCCGATCCCTATAGCAGTCAGTGTTAATATTGCTGGCCTGGAGTCTGGCTCATCATCCACCAGAAAAGAGAGAGCGCTTCCGGACCTGATACCCATACTAAATTCAAACGAATCTGAAACAAAGATCACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:11
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=0.077
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(10.9=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(10.7=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:
ACATTTGAAGCAGAAAATGAGAGGA
R:
TTTGTGATCTTTGTTTCAGATTCGT
Band lengths:
302-1176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]