GgaINT0054959 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15869330-15870183:-
Coord C1 exon
chr5:15870027-15870183
Coord A exon
chr5:15869459-15870026
Coord C2 exon
chr5:15869330-15869458
Length
568 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
GTCATTTCTCCCTCCTCTAGCTC
3' ss Score
10.06
Exon sequences
Seq C1 exon
GTTGAACCAAATGAATATTATCAAGCATGTGTGGATGATGCTTGTGCTTGTGATACTGGAGGAGACTGTGAATGTTTCTGTACAGCAGTAGCTGCCTATGCTCAAGCGTGCAATGAGCTGGACATCTGCATTTCATGGAGAACTCCATCCATTTGTC
Seq A exon
GTAAGTCTCACCCCACTTCTTTCTGAAGGGGTTCAGAGCGAAAGAAAGGAACAGACAAGAAACAAACAAAATCTAACAAAGAAACAAACAACAACAACAACAAAAAGTAGGAAGAAGAAAGGAAGGAGGATAAAACTGTGTTTGTAAGAGACGCTGCTATATCCTAAAAATGGGCAGAAAAAAAACAACTGTGCAGTAATAACAAAAAACAAAACAAACAAAAAAACAACACAAAACCCAAAGCAATTTGAGTAAATCATTGGAAGTCAATCTACTTAAAAAGAAACCATCTGCCAGTAACTCTACAGGCAGTATTATTAGTGTCCTATTTACTTGTCAGTCATTTTTTTGCATGCTTAAAGTGTAACTCTGTTTGCTGCTTTATAACTTTATTGGCTTCCAAATGTTGTAAAATTATAATAGTATTAAAAGTGAAATAAGACAACACGCTGTTCACCACTTACATGATTATGCTGATGACATGGAACTTTTACCTAGCAAAATAACAGCAATGGAAATAAATAAAATTAAATTAAAGATCTTTTTCTGTCATTTCTCCCTCCTCTAG
Seq C2 exon
CTCTGTTCTGTGATTACTACAATCCACAGGGAGAATGTGAGTGGCACTACAAGCCCTGTGGAGCCCCTTGTATGAAGACCTGCAATAATCCAAGTGGGAAGTGCCTTCACGAGTTAAGAGGTTTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:26
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:
PF087426=C8=FE(69.3=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTATCAAGCATGTGTGGATGATGC
R:
CTTCCAAACCTCTTAACTCGTGA
Band lengths:
270-838
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]