DreINT0085106 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4726687-4727017:-
Coord C1 exon
chr21:4726845-4727017
Coord A exon
chr21:4726759-4726844
Coord C2 exon
chr21:4726687-4726758
Length
86 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
ATGTGCTCTACCTTCTGCAGACC
3' ss Score
9.57
Exon sequences
Seq C1 exon
AGCTGTGAGCATGTTTCCTTTGAAGACGCAAAAGCATACGGCTTCAAAAATAAATTAATTATCGTTTCTGCGGAGACGGCTGGAAACGGCCTTTACAACTTCATAGTGCCTTTAAGAGCCTATTACAGGCCCAGAAGAGAACTCAACCCTATAGTCCTGCTGTTAGACAACCT
Seq A exon
GTAAGTGCACACTCACACAGAGACCTATAGACATTTATCTCATGTGTGTTTTAATAAGTGTTCTGAATGTGCTCTACCTTCTGCAG
Seq C2 exon
ACCCGATGACCACTTCCTTGAGGCCATATCCTGCTTCCCAATGGTGTATTATATGGGTGGCACCATTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:16
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:
GAAGACGCAAAAGCATACGGC
R:
GCCTCAAGGAAGTGGTCATCG
Band lengths:
176-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]