DreINT0013227 @ danRer10
Intron Retention
Gene
ENSDARG00000104868 | KCNT1 (2 of 2)
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr5:64889022-64891096:+
Coord C1 exon
chr5:64889022-64889133
Coord A exon
chr5:64889134-64890994
Coord C2 exon
chr5:64890995-64891096
Length
1861 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTCA
5' ss Score
-0.88
3' ss Seq
TTTTTCCTCTTTTCCTCCAGATA
3' ss Score
12.7
Exon sequences
Seq C1 exon
GTTGTTTCCTAGTCTCAGCATAATCACTGAGCTAACTCATCCGTCTAATATGAGGTTCATGCAGTTCCGTGCCAAAGACTGCTACTCCCTGGCTCTCTCCAAACTCGAAAAG
Seq A exon
GTCTCACATCCTAACAAAAACTCCTTTCCAACGGACTCCAAATGTCTGAGATGTTGTTTTTTCTCTCCCATTTAAATTTTTATTGTTATTATTGAAAATTATGTAAGCAACGTTTCCAATAGTGATTTTAGATACCACAGATTTCTCTTCCTAAACGACGATACTGAGTAAAAACGGTACCGATACCAATATTTTGTGCAAATACACTTGATGTGTCTAAAAATAAATGTAAAAAAGTAGTGCAGTGTAGAATAGCGATGTCTAATATGGCTAAACCCAACCAATTCGTTGGTTTATAGAGTTTATAGCATTTATTAAATGGCTTTTACACACATACATAATTGTGGACAGGAGATATTGATCTGAGTTGAAACAGTTTGAAAGCCTTGGCTGTTTTTTATCTTAAAATCCATTACCGTGTTACAAAAAAAGCCCTTCCAAGGAAAAGAAGGAACAGCAACATCACAGCACTATTAATAATGAAGTCAACCGATTTCATTTTCAATATAATCCAATACTATTAAAGAGAAATGCAAGATGTCAGCAGCTGAGTTTGTATGAAACCAGTGAGAGCAAGTCAGCGATGACTTAATTAAATAATTGAACACAACATATTGATCAATCATATAATGCCAATATCAATTATTCAATCCGATTCAATCAGTCCAGTGAGCTGTGTAATCAGTGAACAGTGCTTTGAGTGGAGGGTTGACAAAACAATTGCAATGAAAAGTTGACAATATTTCTAAATACTGTAAGTCCGGCTTAATAAAGTCCACAATATTGTGTAAAACTGCAATGATCTAGAAGATTTAGAAATATATATTTAAAATTGTGAACATTTATTTTTATTTTTTGTTTAATAATAGAGTCTAATTTATATAGAAGCACATTCCCACAACTGAATAAAAAATAAAAAAGGTTTTTGTGACTTTTTACCTCAGAATTGCGTGATACAAACTCGCAATTCTGACTTTTTTCTCTGAATTTTGAGATTATAAAAGAATATAAAATCAGAATTGTGAGATAATCCGTTTTAAAGTAATAACCTTTTTAATTTTTCTATTCAGAAATTCATTCATTTTCTTTTTGGCTTAGTCCCTTTATTAATCTGGGGTTGCCACAGCGGAATGAACCGCCAACTCATCCAGCATAAGTTTTTACTGGAAAACATCCATACACGCTCATTCACAAACACCCGGAGGAAACCCAGGTGAATACGGGAAGAGCATGCAAACTCCACACAGAAATGGCAACTGACCTATCTGGGGCTCGAACCAGCAACCTTTTCGCTGAGGCGATTGTGCTACCCACTGCGCTACCGTGCTGGCCCCTACACAGAAATTAAAAAATATTTTTATACTATTATAAATATTATAAATTTAATACAAAATAATAGTAATTTCAAATTATTTCTCATATTATTACTATTTATATTATTATATAACTATTTTTAATTACTTTTTATTAATATATATATGTATTTTTTTTTTTAATTAAAATTCAAGTTTTAAATTGTCTGTATGATCTCTGAATGACTCTGAATAAAAAAGTTGGTAATGTTTCTTCCTTTCCAATAAACAATGAAGCAAATCCATCCAGGTCTATAACTTTAACTATAACTAACTATAACTATACCTTTTCTATGGTATGAAATAACACAGCTTGAATGTTGACACGGCCCATTAGGAATCTTTCATGATGTATTTCTGCTGATTGCATGCTACAAATGCCTAAAACACAACAGAAATTAGGATAATACTCCTTTGTAAATCGCCAGATGGTCTGAAACTCTCAGCTCATCAGGGGTGAAGAGAGCCGTCAGTGTTTTGTTGTGATCTTTTTTCCTCTTTTCCTCCAG
Seq C2 exon
ATAGAGCGAGATAAGGGATCGAATCTGGCGTTCATGTTCCGCCTGCCGTTCGCTGCAGGCAGAGTCTTCAGTATCAGCATGCTGGATACTCTGCTTTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104868:ENSDART00000161567:21
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTTTCCTAGTCTCAGCATAATCA
R:
CTGGTAAAGCAGAGTATCCAGCA
Band lengths:
214-2075
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]