DreINT0084787 @ danRer10
Intron Retention
Gene
ENSDARG00000029881 | kcnh2a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2a [Source:ZFIN;Acc:ZDB-GENE-070912-699]
Coordinates
chr2:24501789-24504044:+
Coord C1 exon
chr2:24501789-24502194
Coord A exon
chr2:24502195-24503844
Coord C2 exon
chr2:24503845-24504044
Length
1650 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGT
5' ss Score
7.15
3' ss Seq
TGTTGTTGTTTTCTTCACAGCGC
3' ss Score
10.17
Exon sequences
Seq C1 exon
ACCACGACATCCACAACTCTGATTGGCCTGCTGAAAACAGCTCGGTTGCTGCGATTGGTGCGTGTGGCACGCAAACTTGACCGCTACTCTGAGTATGGAGCTGCTGTTCTCTTTCTGCTCATGTGTACCTTTGCTCTGATCGCCCATTGGCTGGCCTGCATCTGGTATGCGATTGGGAACGTGGAGAGAAGCGGCCCATCTCGAATCGGTTGGCTTAATTCTTTGGGTGATCAGCTGGGAAAGCCATATAATTCATCAGTACGTGGATCAGGACCCTCTATTAAAGATAAATATGTCACTGCCCTGTACTTCACCTTCAGCAGCCTCACCAGCGTGGGCTTTGGAAACGTCTCCCCAAACACAAACTCAGAGAAGATCTTCTCCATCTGTGTGATGCTCATCGGAG
Seq A exon
GTTAGTGCTGCTAAGTGCTTATTCATATTCTAGAATGATGTCAGTGAGATTGTACAGTTATCAGTTGAACAATAATATTATAAAATACTTTCAGAACAAAGAATAGCTGTTTCTATATTAATACATTGAAGTTATTCATATACATTATAGTCTGACATTCAGTTTCACAGACACGATCCTTCAAAAATATTCTAATAGGCTGATTTAGAGCTCAACATTTAAATGTTGTGCTGTGTTAACTATTTTTAAGTAAATTGAATGACTAGAATGCTCAGAAGAACAGCATTAATTTTAAATTACATTATTATTATATATAATTTAGTGTATCCTTGTTGAAAAAGTATATGTTTTTGATAGGTAGTTAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATTTAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAACATAATATAATATAATATAATATAATATAATATAATATAATATAATATAAAAGTTAAACTTTGTTTGGCTTTGTTTACTTGCTTGTCAGTAATATTTTGACATAAATAAATACAAATATAAATAAATATAAAGACATTATACATGAAATCTCATAGCTCATGAGCTATGACTCATATTAACTAAAATTCATAAATAATATTAATTTCAGAATGATTCACCATCATGTGTGGATCATGTAAAATCATGTGGAAAAAGTGACTGAACGTCTGTTATTTGTTTTGGTTCTTTTAACTCGCCCAAGGCCAGTTTAGCCAACTTTCACTCATTCAGTCATAAAGGCTCTTAAAGCATGCGTCCGTGACCGAAATGTGACCTCTGGTGGACAGTAGCAGACACCTAATTGAGACGAAGATTCAGAGTTCCACATGAAGCTATTAATTAGCAAATAATATAAATATTATTTGGTTACACTCTAACCCCGTGTCCTAACAACATGCTACGTGACGAGATTTGCAGTGATAAGCAATTTGTCTGTTTGCACCAGAAAAAACACGATGCGGTAAGGTTTATGATCTAATAAATACATATCAAACCTCTTTAACATTATTAAATGTACATGCTGAATTACTGATATGTGTTGTTTGATATGTGTTGTTGAGTCACAGTTCTGAAATTAAAATTTCAAACGGTTTATTTTATTTTCAAGATCTGAGGTGTATGGCAATAAATGTTATGTAAAATGTCATTTAAACTCACATTATTAGGCTTTAACACTGAATAAAGCACGAGGTGTACCTGAGGTGATTGTTGTCATAAGTTCTGTTGTTTTCTAAAATATCAAATTGAGGTGTTGATTAGGAAAAAAACTCCTTTTAATAAGGAAAATATTTAATGTACCACTGCTTTTATTTAGAACACGATTTAAATTAGCCTTTAGGCTTGATTGTCAGGCACACTCCTATTGGTCCTAAATCTGGCAACCTGTGCTTGCTTGTGTTTTGATCCAGGAATGCAATACTTAGTTCAACCACTGGGTGTCAAACTTACACACTGCACCTTTAATTCTAAAAAATGCCCCTGATATCTTCATTTTTAATCAATTTGAGTCAAATGAAACATTTTCTTTGGTGTATTTGTTGTTGTTTTCTTCACAG
Seq C2 exon
CGCTAATGTATGCCAGCATATTTGGAAATGTGTCCGCCATCATCCAGAGACTATACTCTGGCACTGCGCGTTACCACACTCAGATGCTGCGGGTTCGAGAGTTTATCCGTTTCCATCAGATCCCCAACCCACTTCGGCAAAGACTAGAGGAGTATTTCCAGCATGCTTGGTCCTACACCAATGGCATTGACATGAATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029881:ENSDART00000024058:7
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(64.0=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.7=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:
TGGTATGCGATTGGGAACGTG
R:
CGGATAAACTCTCGAACCCGC
Band lengths:
353-2003
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]