DreINT0084866 @ danRer10
Intron Retention
Gene
ENSDARG00000001803 | kcnh6a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6a [Source:ZFIN;Acc:ZDB-GENE-040702-5]
Coordinates
chr3:31608757-31609873:-
Coord C1 exon
chr3:31609456-31609873
Coord A exon
chr3:31608957-31609455
Coord C2 exon
chr3:31608757-31608956
Length
499 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TCTTTGTTGTTCATTTTCAGCTC
3' ss Score
10.45
Exon sequences
Seq C1 exon
CCTCAAACCACCACTCTGATTGGTCTGCTGAAGACTGCACGGCTGCTGCGACTGGTGCGAGTAGCGAGAAAACTGGACCGTTACTCTGAGTATGGAGCGGCGGTGCTCTTCCTCCTCATGTGCACCTTTGCTCTCATCGCCCACTGGCTGGCATGCATCTGGTACGCCATTGGCAATATGGAGCGCACCAGCTCTGCCCGCATAGGAGGCATGAAGATCGGCTGGCTGGACAACTTAGCTGACCAAATTGGCAAGCAGTACAATGACAGCAACAGTTTCTCTGGCCCCTCCATCAAGGACAAATATGTTACTGCATTGTACTTCACCTTCAGTAGCTTGACCAGTGTGGGCTTCGGAAATGTCTCTCCAAACACCAACCCTGAGAAGATTTTCTCCATTTGCGTCATGCTTATTGGCT
Seq A exon
GTAAGTGGGCTGCATTCTTCATCTATTTAAGGGACAGCAACAACTTAAAAAGAGTGTACACTACCATTCAAAACACTGGGGTTAGCAATATATATTTTTTTAAATCTAATAAAAAAAAAAAAATCTAGTTTTAAATGAAAATATTTTAATTTAGAGCATTTTATTTTAGAAAATGAATCAGAATAACAAAGGATTTGATTTGTTGGGATTGACAATTATGGTTATTTCACCAAATATTGATCTCTTTTGACTCTTTTTTTTTCTTTATTGAACTCCTCTGTAGTTAAAACATTGGGATTTTGTGTTTATTCATGCATTTTATTTTACATTTGGGAGGTATGTCACCAGTAATTTGCAAAATAATAAAAAAATTTAATTTTACTCAGAAACACCTAACTATTGATGGTAATCCAGAGAAAGTGACAATCAGAATATAAGGATATACTGTGTACGTGTATCATGATTTTGACTGATGGTAGTCTTTGTTGTTCATTTTCAG
Seq C2 exon
CTCTGATGTATGCCAGTATCTTTGGCAATGTGTCTGCTATCATTCAGAGGTTGTATTCTGGCACAGCACGGTACCACACTCAGATGCTCCGTGTGAAAGAGTTCATCAGATTTCATCAGATCCCAGGTGGCCTTCGGCAAAGACTAGAGGAGTATTTCCAGCATGCCTGGTCCTACACCAACGGCATCGACATGAACGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001803:ENSDART00000134201:8
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(64.4=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.6=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCATCTGGTACGCCATTGG
R:
CATCTGAGTGTGGTACCGTGC
Band lengths:
352-851
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]