GgaINT1000798 @ galGal4
Intron Retention
Description
NA
Coordinates
JH375182.1:352001-354333:+
Coord C1 exon
JH375182.1:352001-352082
Coord A exon
JH375182.1:352083-354063
Coord C2 exon
JH375182.1:354064-354333
Length
1981 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
CTAAAGCCTTTCTCTTTCAGGTC
3' ss Score
9.41
Exon sequences
Seq C1 exon
AATGAAGATGCTGGTGACTACAAATGTGTGGCAACCAATGATGCTGGTGTGGTGGAACGCAGTCTAACACTCACCCTTCAGA
Seq A exon
GTAAGGCGCTAAATGATAAGCCTCATGCCACTATATGGGAGCATTCATCTCCCTTTGCAGTATTTAATTTTTGTCAGATCTTGCCTGACCAATCTGGTGACCTTCTATGATGGAGTTACGGATTTGGTGGACGGGGAAGGGTGGTGGATGTCATCTGTGTGAACTTCTGCAAGGCCTTTGACATGGTCCCTCACCACAACCTTCTCTCTAAATTGGAGAGGTGTGGATTTGAAGGATGGACTGTTCAGTGGATTAGGAATTGTCTGGCTGGATGCAGCCAAAGGGTTGTGATCAATGGTTCAGTGTCAGGGTGGAGGCTGGTCACAAGCGGTGTCCCTCAGGGGTCAGTCTTGGAACTGGTGCTCTTCCACATCTTCATCAGTGACATAGATGATGGCATTGAGTGCACCCTCAGCAAGTTTGCAGATGACACCAAGCGGAGCAGTGCAGTCGATATATTGGAAGAAAGGGAAACCATCCAGAGGGACCTGGACAGGCTGGAGAAGTGGGCCCATGTGAACCTAATGAAGTTCAATAAGACCAAGTGGGTCAGGTCAATCCCAGGTATTTATACAACCTGGGGGAACATCTCCTTGAGAGCAGCCCTGTGGAGAAGGACTTGGGGGTCCTGGTGGACAAGAAGCTGGACATGAGCCAGCAGTGTGTACTTGCAGCCTGGAAGGGCAACTGTGTTCTGGGCTGCATTAAAAAAGGGGTGGCCAGCAGGGAGAGGGAGGTGATTGCGCCCCTCTATTCGGCTCTTGTGAGGCCCCATCTGCAGTACTGCGTCCAGGCCTGGGGCCCCAGTACAGGAAGGACGTGGAGCTCTTGGAGCAGGTCCAGAGGAGGGTCACTAAGGTAATCATAGGGCTGGAGCACCTCTCCTATGAGGAAAGGTTGAGGGAACTGGGCTTGTTTAGCTTGGAGAGAGAAGGCTCCAGGGAGACGTTATTGCAGCCTTCCAGTACTTGAAGGGAGCGTATAAACAGGAGGGGGAATGGCTGTTTACGAGGATGGATAGTGATAGGACAAGGGAGAATGGTTTTAAACCGAGACAGGGGAGGTTTAGGTTAGATATTAGGAGGAATTTTTTCACACAGAGTGGTGGTGATGCACTGGAACAGGTTGCCCAAGGAGGTTGTGGATGCCCCATCCCTGGAGGCATTCAAGGCCGGGCTGGATGTGACTCTGGGCAGCCTGGTCTGGTGGTTGGTGACCCTGTACATGGCAGGGGGGTTGAAACTAGATGATCATTGTGGTCATTTTCAATCTGGGCCATTCTGTGATTCTATGATATGATTCTATTTGCAGCTCCTGTTGGTTTTGAAGGCTGGGCACCTCACTATACTTCAGATTAAGATTGATCTCACCTTTCACTGTTAGTAATGAAGCTGGCAACTGAGATCAAGGAAGGAAAGCGCATGGAGGATGATGTAGCTCATTCATTTTAGAAATCAGTTTAGGTGGGGATGAATCACCTTCTGAAAAGGGTCCATTTCTCCCAGTTGTATGTACAACTGGATTAAACTAGACCTGACCTTTAAATTGAGAAAGTTACGTGAGATGAATGCCTATATTTTATGTTTTGCAGAAATAATATTTTGGATTTTTTTTTCTACTGGTTGTAGAACTTTTTCACTGGTGGTTGAGGTAGTAGACGCAAGCAATCTGGATGTGTGCCTTATATCTCTGTTGCCTCAGGCCATGGTTAGTAGCATCTTTCTGCAGATTTTTTAAAACATAATATAGGAAGACTGCGTCCCAGTCCCAACTTTGGCCCTCAGTTTGCTACACATTAAAATCAATCTTATCAGTGTTGTTTTAATTTGCATGTTCTATCATTTGACAGTGGAAGACCAATGATAATAATTTGTCAAAATAAAGAGACTAAGTTGTTTTGCTCTTTCTGACAAGACTTCTAATACTTACTATAATGGAAAAATGTACCCGTGTGCTGTTGCCTAAAGCCTTTCTCTTTCAG
Seq C2 exon
GTCCTCCAGTCATCACCATTGAGCCTGCAGGGACCACTGTTGAAGCTGGTGCTACAGTAATGCTGAACTGCCAGGCCAGTGGAGAACCCCCTCCAGCCATTAGATGGTCCCGCCAAGGTCATCCATTTGTGAGCGATGACAGGATGACTGTTTTGTCTAATGGCTCACTGCATATCATTGCAGCACAGAAGGAAGATACATCTGAATATGAGTGTGTAGCGAGAAATCAAATGGGATCTGTGCTTGTTAGAGTTCCACTGACTGTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141:ENSGALT00000008254:86
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=0.209
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(28.4=89.3)
A:
NA
C2:
PF0767911=I-set=WD(100=95.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTGACTACAAATGTGTGGC
R:
CCTGGACAGTCAGTGGAACTC
Band lengths:
342-2323
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]