GgaINT0011576 @ galGal3
Intron Retention
Description
NA
Coordinates
chr20:9724493-9725028:+
Coord C1 exon
chr20:9724493-9724633
Coord A exon
chr20:9724634-9724860
Coord C2 exon
chr20:9724861-9725028
Length
227 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TAGCATTCTTGCTTTTCTAGGTA
3' ss Score
9.43
Exon sequences
Seq C1 exon
CTCTAACAGTCACCAAGTCCAAAATCCTGCAGCAAAAATCCTTTGATCTCCCTGGCAGCCAAAGGAAGCTCAACCCAAGTCAGAACAAGGCTGTGCTAAATGCCTTAACAAAACCCTTCACGCTCATCCAAGGCCCACCAG
Seq A exon
GTAAGGCAGAGGATAGCCCTTTGAGTACTTGCTCCTTAAAGGCAGGTGAGAACTTGTCTGTTGCTTTCCCTGGGACAGATGAAGGTAATGCAGGTTGGTATCACCTCAGGCTGTTCAGGGCAGTCCCCTTGGTTCTGGGGTTTTATTTGTGGCTGATCATTTGGACAGTGATCTAGAGCAAGAGTATTGTGGTTAAAGCATTCTCAGTAGCATTCTTGCTTTTCTAG
Seq C2 exon
GTACAGGCAAAACTGTTGTTGGAACTCACATTGTCTACTGGTTCCATAAGCTGAATGAGGAGGCCACCGCGAAGGAGCAACTGCCGTGCCCTGATGAGGATGAGCCCCAAGGGAAAAAGTGCATCTTGTATTGTGGCCCATCCAACAAGTCTGTTGATGTTGTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.175
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(10.0=52.1)
A:
NA
C2:
PF130861=AAA_11=FE(22.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGTCACCAAGTCCAAAATCCT
R:
AACAGACTTGTTGGATGGGCC
Band lengths:
292-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]