GgaINT0142780 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4505985-4506520:-
Coord C1 exon
chr27:4506389-4506520
Coord A exon
chr27:4506113-4506388
Coord C2 exon
chr27:4505985-4506112
Length
276 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CCAGCACGTCATCTCTGCAGAGA
3' ss Score
5.51
Exon sequences
Seq C1 exon
GAGCTGCATTCTGGTGCCTGCTGGACATTATGCCCATCAAGAACGAGAAGGGGGAGGTGGTGCTCTTCCTCGTCTCCTTCAAGGACATCACAGAGAGCCGGGGCAAGAGCCATCCAAGTGACAAAAAGGAGG
Seq A exon
GTGAGCCGTGGTGGTGGGGTGGGGATGGGATCCGAGAATCACAGCCGTGTGTGTGGTGGACATGTGGTGGGGGGGTCCCAGCTCCAGTTGCTCCTGCCTGGCATTGTGTCCCATCTCAGTGCGTTTGGAGGGACCCCAGGACCTCTCTGAGCTTCAAGTGGCTCCCAGGGGAGGGGGATGGGAGAAATGGGGCTCATTGTCACAGCTTTGGGGGTGAGGGCCCCCCCCGGTGCCACAGGGCAGCGCTCCCGCTAAACCAGCACGTCATCTCTGCAG
Seq C2 exon
AGAAGCAGAGGAGCAAGAAACCCGGCAGCTCACACCTGCGGGCGGCACGGCGGCAGGGCCGGACGGTGCTGCACCGGCTCAGCAGCCAGTTTGCACGGCAGGACCGCGGTGAGATGAAAATCAATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PD(28.4=68.9)
A:
NA
C2:
PF084125=Ion_trans_N=PU(10.0=16.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGCATTCTGGTGCCTG
R:
CCGATTGATTTTCATCTCACCGC
Band lengths:
260-536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]