GgaINT0142786 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4503191-4503932:-
Coord C1 exon
chr27:4503733-4503932
Coord A exon
chr27:4503441-4503732
Coord C2 exon
chr27:4503191-4503440
Length
292 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
CCTGGCTCCTCTCTCTCCAGCTG
3' ss Score
10.76
Exon sequences
Seq C1 exon
CGCTGATGCACGCCGTTGTCTTTGGCAACGTCACGGCCATCATCCAGCGCATGTACTCGCGCCGCTCGCTCTATCACACCCGCATGAAGGACCTCAAGGACTTCATCCGCGTGCACCGCCTGCCCCAGCAGCTCAAGCAGAGGATGCTGGAGTACTTCCAGACCACCTGGTCGGTGAACAACGGCATAGATGCTAACGAG
Seq A exon
GTAGGAGGGTTCATAGGGCTGGACCTGCTGCTCTCCTGCACCCAGGGCCAGTGACAGGAGTGCAGGCGTGTGCGTGTGCACACGTCCATGTTCTGCTGCTGGAGAGATCAGAGCTGTGTGCAGGAGCAGGGCAGGTTCCTGGCTGTGTGGGGCATGAGAGCACACACATGGAGCAGTGGCAGCCTGTCCTGAGCTGTCCTGAGTTTGCCATGCAGAGAGGCCCTGGCAATGTTCTCAGCCCTACAGGGCACACGGATGCAACATTCTCCCATCCTGGCTCCTCTCTCTCCAG
Seq C2 exon
CTGCTGCGTGACTTCCCCGACGAGCTCCGTGCCGACGTGGCCATGCACCTGAACAAGGACATCCTGCAGCTGCCCATCTTTGAGACCGCCAGCCGAGGCTGCTTGCGCTCCCTCTCGCTGCACATCAAGACGTCGTTCTGTGCGCCGGGCGAGTACCTGCTGCGGCAGGGCGATGCGCTGCAGGCCAACTACTTTGTCTGCTCCGGCTCCCTCGAGGTGCTGAGGGACAGCGTGGTGTTGGCCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:9
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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.8=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.6)
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:
ATCATCCAGCGCATGTACTCG
R:
CGCACAGAACGACGTCTTGAT
Band lengths:
306-598
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]