GgaINT0127520 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7961181-7961569:-
Coord C1 exon
chr18:7961526-7961569
Coord A exon
chr18:7961340-7961525
Coord C2 exon
chr18:7961181-7961339
Length
186 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATG
5' ss Score
5.98
3' ss Seq
GTGGTGTTGTTCATTACCAGGCA
3' ss Score
7.1
Exon sequences
Seq C1 exon
CAGGAGAATAATGGGAAGAGTGGCCTCAGGCTCTGTGCTGAAGG
Seq A exon
GTAATGCTGCTCGTGTCCTTGGTGCAGCTGTGAGGCTGCACAGATCTCAACCACAGGCATATCAGCCTTCATTGTGGTGGGAGGGAAAAGGGTTTGAACATCTCACTGTGAGTACATAATGTGGCTGATGTGTTGTCTTGTTGCACTGCTGATCAGGATTTCTGCTGTGGTGTTGTTCATTACCAG
Seq C2 exon
GCATAGCACTAGAAGAGGCAGTAAACGAGCAAAACCTGTCAGCAAGAGGACTTTTTAGGAGTGATGTGATCGGTGTTGTTTTTAAGGATGACTTCTCCTACCACCTCAGATTTCAGAGCTACAGCGTGATATCTCCCATTGAAACCTTTGAACACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023373:ENSGALT00000038535:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(25.7=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
CAGGAGAATAATGGGAAGAGTGGC
R:
CGATGTGTTCAAAGGTTTCAATGGG
Band lengths:
203-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]