DreINT0084817 @ danRer10
Intron Retention
Gene
ENSDARG00000062565 | kcnh4a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4a [Source:ZFIN;Acc:ZDB-GENE-131125-34]
Coordinates
chr3:17434213-17435372:+
Coord C1 exon
chr3:17434213-17434407
Coord A exon
chr3:17434408-17435172
Coord C2 exon
chr3:17435173-17435372
Length
765 bp
Sequences
Splice sites
5' ss Seq
GGGGTGTGT
5' ss Score
3.14
3' ss Seq
TCTTTCTGCTTCTCTCACAGCTC
3' ss Score
10.81
Exon sequences
Seq C1 exon
GCTGGCTGCAGGAGCTGGGCAAGCGTCTGGAGACTCCATACACGAATGGTACAGTTGGCGGGCCGTCTCTGCGCAGCGCCTACATCGCTTCGCTCTACTTCACATTGAGCAGTCTGACTAGCGTCGGCTTCGGAAACGTCTGTGCCAACACAGATGCCGAGAAGATCTTCTCCATCTGCACCATGCTCATCGGGG
Seq A exon
GTGTGTTCACCAGCTCTTATTTCAGTGTATAATTAGCTTGTTTGTAGGTCAGATGAGCCTCTTTCTCATATCCATTGAGTAAAAAAAAAACTGTTTCAGAAAGTTTTCAGAAATCTAATTTAAGATGTAGAACATATTGTTCATTGAGATGATTCAGACTGCCTAGTAGTTTGAGACGCTTTCTGCTCAAGTGGCAGCTCTGATGCCTGCTCGTGTTTGTGTGTGAGTGTGTAGGGGTGGGACAACCACATAACTGATAATGATTGGCTAAAAATGCAAATGATGCTTTTAAATATCTAGACTAAGTCATTTATTTTTTAGACTTATTTGTTGGCCAATTGTGGTAAATATTAAAAGTTATAAACCATCTATTATGTTTTATTGTTTCACTATAGAAATTATAATATTTACAATAAAATATAGCATTTGATAGATGTCTCTGCGCATTAATTAACATTAATTAAGTATAAAATAGTTTAGAATCTTATATAATAATAATTTATGTAATTCAGTGTCCATTTTATTCAACATACAATTAGTTTTTGACATTTTTCCTTTAAATAGTAATGCAGAAGTTACTTTCCCTGGCAATTAGTTACTTTTATAACTATGTAATTTAATTAATAACGGTTACTATTTGTAGGAAATAACTAGTAACCATAACTAATTATCTAATCTAAGTCTAATTTAAGACGTAGAACATATTGTTCTCTGAGATGATTCAGACTGCCAAGTATTTTGAGACTCTTTCTGCTTCTCTCACAG
Seq C2 exon
CTCTGATGCATGCGGTGGTGTTTGGAAACGTGACCGCCATCATCCAGCGCATGTACTCTCGCCGTTCTCTCTACCACACGCGCATGAAGGACCTGAAGGACTTTATCCGTGTGCATCGCCTGCCGCAGCAGCTCAAGCAGCGCATGCTGGAGTACTTCCAAACCACTTGGTCTGTCAACAATGGCATCAACGCCAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062565:ENSDART00000153763:8
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=FE(31.1=100),PF068148=Lung_7-TM_R=PD(4.0=6.1)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.8=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGACTCCATACACGAATGGT
R:
TGCCATTGTTGACAGACCAAGT
Band lengths:
354-1119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]