GgaINT0142787 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4502892-4503440:-
Coord C1 exon
chr27:4503191-4503440
Coord A exon
chr27:4503107-4503190
Coord C2 exon
chr27:4502892-4503106
Length
84 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TGCTCTGTCCCCTCCCACAGGCA
3' ss Score
12.67
Exon sequences
Seq C1 exon
CTGCTGCGTGACTTCCCCGACGAGCTCCGTGCCGACGTGGCCATGCACCTGAACAAGGACATCCTGCAGCTGCCCATCTTTGAGACCGCCAGCCGAGGCTGCTTGCGCTCCCTCTCGCTGCACATCAAGACGTCGTTCTGTGCGCCGGGCGAGTACCTGCTGCGGCAGGGCGATGCGCTGCAGGCCAACTACTTTGTCTGCTCCGGCTCCCTCGAGGTGCTGAGGGACAGCGTGGTGTTGGCCATCCTGG
Seq A exon
GTGAGGGCCGTCCCCACAGCACGTTGCTGCCCGCCCGGCACGGGGCTGGCACCGCCATAGCCCATGCTCTGTCCCCTCCCACAG
Seq C2 exon
GCAAAGGGGATCTGATCGGTGCCGACCTGGCCAGCAGGGACCCGGTGATCAAAACCAACGCGGACGTGAAGGCGCTGACCTACTGCGACCTGCAGTACATTGGGCTGCGGGGGCTGCGTGAGGTGCTGCAGCTCTACCCCGAGTATGCCAGCAAGTTCGCAGCGGACATCCACCAGGACCTCACCTTCAACCTGCGGGAGGGCAGCGAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(45.5=47.6)
A:
NA
C2:
PF0002724=cNMP_binding=PD(53.4=65.3)
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:
ATCAAGACGTCGTTCTGTGCG
R:
GTTTTGATCACCGGGTCCCTG
Band lengths:
182-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]