GgaINT0011578 @ galGal3
Intron Retention
Description
NA
Coordinates
chr20:9725150-9725809:+
Coord C1 exon
chr20:9725150-9725291
Coord A exon
chr20:9725292-9725692
Coord C2 exon
chr20:9725693-9725809
Length
401 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TATATTGTCTCTTTATTCAGCAC
3' ss Score
7.32
Exon sequences
Seq C1 exon
AGATACTGATGAAGATGAAGAGCCTGAAACCACTGAGAGTTTATGGGGAGGCCATAGAGACGCTGGAGTACCCATACCCAGGGAGCAGCCGGCACCTCTCCCGCAAAGCCTTGCGGGATGCAAAGCCGAACCATGAGCTCAG
Seq A exon
GTAGGACCCGTGCAGCTGAACAACGCAGAGCAGCTGTGGTTTCCAGTGCAGAACAGCACTATTAACCTGCTTTTTTTTTTTTTTTTTCTTTCTTTTCAACTGAAGGCTTATATCTAACCCATGATCTAGTCAGGAAACTCAGGTGGTTGAAAATACAATAGATTTTCTCCTTTTTTCAACTCTGAAAGTCTCTGGCTTCATTCCTGCTTGCAACCATCAAAGGGTGGTTGCTGTATTTAGTCCCCAAGGGCAAAGTGAGAGTTAGCTCTGTAAAAATGTACAAATCTGGTTGTGACTTCTTCAGCTAACGTGATTTCTCCACATAGGCAGGTGTGGCATGCTTCACTGTAGAAGCTCGGGTCTCCACGGGGAAAATATTTATATATTGTCTCTTTATTCAG
Seq C2 exon
CACGATAATTCTGCACCATCGGATCCGACAGCCATCCAACCCCAAATGTCAGCAGATCTGTCAATTTGACCGTCGAGTGAGGGCAGGAGAGGAGATAACAGAAGAAGAAATAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.275
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(18.9=100)
A:
NA
C2:
PF130861=AAA_11=FE(15.7=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:
AGATACTGATGAAGATGAAGAGCCTG
R:
CTTCTGTTATCTCCTCTCCTGCC
Band lengths:
246-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]