GgaINT0097807 @ galGal3
Intron Retention
Gene
ENSGALG00000011007 | F1NN81_CHICK
Description
NA
Coordinates
chr2:31579209-31580612:-
Coord C1 exon
chr2:31580468-31580612
Coord A exon
chr2:31579354-31580467
Coord C2 exon
chr2:31579209-31579353
Length
1114 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TATGCACCTTTTGATTCTAGGCA
3' ss Score
7.19
Exon sequences
Seq C1 exon
TTTTAGAGACCATTTTGCGTGGAACAAGGTGACATCTTGCATCCATAACATCCTAAGTGGACAAAGATGGATTGAACACTATGGAGAGATCATCATCAAAAATCTTAATGACGACACTTGTTACTGCAAATTGACTTTCATAAAG
Seq A exon
GTGACTTTCACTAACAGCAATTTTGGCAGTGTCCTATCCAGCAAACACAGCAGGGGGTGGATGCTGTCTGCTGACACTCAGTTCAACTGCTTACAATCTGTGTTTTCATATAGTTCTCTAATTACCTGTGATTCTCTGAGAAACATGAACTATAAATGAACTGCAGCTCACTAGGTAGAGCCACGCAATAAAGAAAACAGTGCTTACACGGGGTGTTTCAAGCAGTGCACTTTCTAGCCCTCTGCAAGTGCTTGGAGGAGCCTAAGTGAGGGATTGTATTGTTCAAAGCTTTTGCTTCAGTATAAGGCATTGATATATAACCACCTCAAGAAATGCCCTCATAACTGAAATTAAAATTTACTTTTGGCAATAGATGACTTCTTCGAGAAAAGAAAAATTAACTGAAAGCCTAAAATAATGCCAGAATTTCTAACCTGAGAAGCAGTTTTGCTCAGCATTGTAAGAATAACCTGAATTTTCTGTATCTGACTGCTGAAGCAAGGCTCTGCTTATCATAGCTTGTATCTGCATGGCTGCATGGTCTATCTGTAAGTACTTCAGCATGCCTGTGCACCATGGTGCACTCAGCAGCAGAAGGAAAGTGAGTATCATCATTTTCCTTTTTTTGCTTGTTTTTCTGAATATTGTATGATTTCTAAAAAGCATTAGAGTATTCTTTTTAGGTATTTCATTCAAAGTACTGTAGTGTATTTGCAGAGTTGTAGTAGATGTTTGGAGATGGAGAGACTGCAAGTTTTATGTATTTGATATTATAAATTGGCTAAAATGGAGGTCACTGTGAGTAACAGTTCCTTCTCTTTCTGTTCTGCAAATGTGGGGAGGATTTAGGTAACCAAGTCAGGAATCAGTGTTATCTGTCACTGGACAAATTTGAAGGTCAGCTGTGCTTCACTTAGTGCTGCCCCTAACAAAGGGAGAACAGATATAATTCTCAACAGCCCATTTTAGTAGGCTGATTTATAGTATTAACAGCAGTTCTTTATTTATGATATTATAATGTACACCTAAATGAATAGTTTTCAATTCAGAAAAAATACCCTACAGCATGGCAATATCACTCTCACTTGATCTCTTATGCACCTTTTGATTCTAG
Seq C2 exon
GCAAAGTATTGGAATCCAAATGCACATGAGATCGAAGGCAGTGTCATGGATAAAACTGGGAATGTTGTGCATCGACTCTTTGGGAAGTGGCATGAAAGTTTGTACTGTGGGACAACTTCATCTTCAAAATGCATATGGAGAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011007:ENSGALT00000017923:18
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=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(13.9=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(13.9=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGACCATTTTGCGTGGAACA
R:
TTGCTCTCCATATGCATTTTGAAGA
Band lengths:
286-1400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]