DreINT0013224 @ 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
chr5:64888639-64888917:+
Coord C1 exon
chr5:64888639-64888710
Coord A exon
chr5:64888711-64888782
Coord C2 exon
chr5:64888783-64888917
Length
72 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
AATGCTAATTTCTGTCATAGTTT
3' ss Score
5.95
Exon sequences
Seq C1 exon
GCCTGATAATCATTTCCTTGAGGCCATCTGCTGTTTCCCTATGGTGTACTACATGGCGGGAACCATAGACAA
Seq A exon
GTAGGTTTTCAGTCGTTTTCCATACACGCACACAACCTGAAATGGGATTTAAAATGCTAATTTCTGTCATAG
Seq C2 exon
TTTGGATAACCTGCTGCAGTGTGGCATCATCTACGCTGATAACCTGGTGGTGGTGGATAAGGAGAGCACTATGAGCGCAGAGGAAGACTACATGGCAGACGCTAAAACCATAGTCAATGTGCAGACCATGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104868:ENSDART00000161567:19
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:
CCTTGAGGCCATCTGCTGTTT
R:
TGGTTTTAGCGTCTGCCATGT
Band lengths:
167-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]