GgaINT0109019 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:26131165-26132487:+
Coord C1 exon
chr1:26131165-26131446
Coord A exon
chr1:26131447-26132358
Coord C2 exon
chr1:26132359-26132487
Length
912 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
AATTGCATTATCTGCTTCAGACA
3' ss Score
4.81
Exon sequences
Seq C1 exon
GTTACTGAACTTTCTCAGCAGCTGGAGTTAGAGTCTAAAAAATGCATCCAGCTGGAAGCACAAAACCAGGATTTGCGAGAAGAGCTGTCTGCTCTGCGTGAGAACCATGAAAAACTGGAGAAGAGCAAGTGCCAGCTGAAGGAAGAGGTGGCAAACCTCAGACATCATTTGGAGGCTAATATGGTGAACCACAGCCAAATAGAACAGTACAAGAAAGAGATGGAAGAACGAGCAGGACAAGAAATCAGACAAAAACTACAAGAAGTCAATTTGTTTTTGCAG
Seq A exon
GTAAATGAATTTGTTGTGTATGTCTGTAGTTTTTATTATGTAACTTCTTTTTTTTTTTTTTCATTTTTTGTTTGTATTTTGATTCTTTGTGTGAGTACTTTACTTGTTAGGGGGAAGTTCTTTACCAGGAGAGTGGTGAGGTGCTGGAACGGGCTGCCCAGAGAGGTTGTAGATGCCCCGTCCCTGGAGGTGTTCAAGGCCAGGTTGGATGGGGCCCTGGGCAACCTGGTCTAGTAAATGGGGAGGTTGGTGCCCCTGCCCGGCAGGGGAATTGGAGATGCATGATCCTTGAGGTCCCTTCCAACCCAGGCCATTCTGTGATTCTATCTTTCCTGAAGGGAAGTGAGAAAATGGAAAATTGTTGGACAAAAGTGCTTTTGTGTGTGTAATTTGCCTGCAGGTGCCCAAGTTAATAGCATTCCCTTGACAGACTTCTGTTTTGCAGTTCTTAGAGGCTGTTGCTATCTGGTGATCTTTGTTATTGCTGTTCATCATATGAATATTGTAACTTAGAGATGGTTTGGCCATACATGCAGGTCATGTTTTATCACTGTACAGGATAAAATGCTCAGGGAAGAAGTCACTGAAGCTACCATGAGGCAGAAAGAGTGGGGATGGGATTCTCATAATTTCTTTGTAGAATCCTTTTTGTGTGCCCTGTCCTACAGACATAGAGTTGTTTTAGTAGCTGCTCTCGTAAGTAATACTGCTAGGAGCAGATCTTTATCTGGATGAAAACAGTTATTTAATGTATTGGTTCCAGGGTTCTGCCTTTATTGCTGATGGTAGCGAGGAGGTCCAGTTGTCTCAGCTGAGTAAAACTGGGCCCTTGAAATTGGTTATGTGCAACTGTCTGGGGAGAGGCAATTCACTTTTTCTTTGCAGTGGTTGAAATTGCATTATCTGCTTCAG
Seq C2 exon
ACACAGGCAGCCTCCCAGGACAGGTTAGAACAAATCAGAGCCAATCATCATGCCTCACTGAGAAACCAACTAAAGCACAGAATTAAAGATCTCGAATGTGAGTTGGACAGAATAAAAAATACTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.372 A=NA C2=0.558
Domain overlap (PFAM):
C1:
PF120013=DUF3496=PU(25.6=16.8)
A:
NA
C2:
PF120013=DUF3496=PU(28.8=53.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGAACTTTCTCAGCAGCTGG
R:
AGTTGGTTTCTCAGTGAGGCA
Band lengths:
350-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]