DreINT0084851 @ danRer10
Intron Retention
Gene
ENSDARG00000069117 | kcnh5b
Description
potassium voltage-gated channel, subfamily H (eag-related), member 5b [Source:ZFIN;Acc:ZDB-GENE-090319-1]
Coordinates
chr13:37210470-37210997:-
Coord C1 exon
chr13:37210798-37210997
Coord A exon
chr13:37210723-37210797
Coord C2 exon
chr13:37210470-37210722
Length
75 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAA
5' ss Score
4.51
3' ss Seq
GTGAATTAATCTTTGCCCAGGTG
3' ss Score
5.29
Exon sequences
Seq C1 exon
CTCTCCTTTACGCCACTATCTTCGGTAATGTGACCACAATTTTCCAGCAGATGTATGCGAACACCAACCGTTACCATGAAATGCTGAATAACGTGCGAGATTTCCTCAAGCTTTACCAAGTGCCCAAAGGCCTCAGTGAGAGAGTGATGGACTACATTGTCTCCACATGGTCCATGTCCAAAGGCATTGACACAGAGAAG
Seq A exon
GTGAAACTGAAGCATGTCTAAAGTTTTTGATAGTATTTTTGTAGAGTACTAAGGTGTGAATTAATCTTTGCCCAG
Seq C2 exon
GTGCTCTCCATCTGCCCTAAAGACATGCGGGCAGACATCTGTGTGCACCTAAACAGGAAAGTGTTTAATGAGCATCCAGCATTCCGACTGGCCAGTGACGGATGTCTGCGATCATTGGCCGTGGAGTTTCAGATGATACACTCTGCCCCCGGTGACCTCATCTTCCATGCGGGGGAAAGCGTGGACTTGCTCTGCTTTGTGGTGTCAGGGTCACTGGAGGTCATCCAGGATGACGAGGTCATCGCTATATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069117:ENSDART00000138934:8
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(4.5=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(44.8=45.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGTCCATGTCCAAAGGCA
R:
CTGAAACTCCACGGCCAATGA
Band lengths:
167-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]