DreINT0013214 @ 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
chr5:64814584-64815006:+
Coord C1 exon
chr5:64814584-64814669
Coord A exon
chr5:64814670-64814900
Coord C2 exon
chr5:64814901-64815006
Length
231 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CTTCATGGTTTGTGTTGCAGGTC
3' ss Score
9.87
Exon sequences
Seq C1 exon
CAACAGGGTGCAGGTGGAGTTTTACGTAAACGAAAACACATTTAAGGAGAGGTTGAAGCTCTTCTTCATCAAAAACCAAAGGTCAA
Seq A exon
GTAAGTAAAACCAACAAAACCAAATTCATTCCCGCAGACATAAAAAATACTCAAGACATTTATGGTTTCTGAATATCACACACTGTATACAAGGCCTTAATCCTAACAGCGAATAGATTAGATTTATGATGGTACTTTAAGTGTGATGGTTTGCTGAATTATTTCTAATACATTTTCCAGAAGGACTTTTTGTACGATATGAGCCGCTATACTTCATGGTTTGTGTTGCAG
Seq C2 exon
GTCTCAGAATACGCCTCTTTAACCTCTCCTTAAAGTTGTTAACATGCCTGCTCTACATAATCAGAGTCTCACTTGATGATCCAACTAACCAGGTCACATGTGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104868:ENSDART00000161567:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGTGCAGGTGGAGTTTTAC
R:
CGTGCACATGTGACCTGGTTA
Band lengths:
188-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]