DreINT0085109 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4723496-4723792:-
Coord C1 exon
chr21:4723681-4723792
Coord A exon
chr21:4723598-4723680
Coord C2 exon
chr21:4723496-4723597
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AATGTGTGTTCGATCAACAGAAG
3' ss Score
6.57
Exon sequences
Seq C1 exon
GTTGTTTCCGAGTCTCAGTATAATCACAGAACTGACTCACCCGTCCAACATGAGATTCATGCAGTTCAGAGCGAAGGACTGCTACTCGCTCGCCCTGTCCAAACTAGAGAAG
Seq A exon
GTGAGACAAAAATGTTTGCATATGCTGATTGAAAAATGTAGTTTTGTAATTGGAATATTGCCAAATGTGTGTTCGATCAACAG
Seq C2 exon
AAGGAACGTGACAAAGGCTCAAATCTGGCCTTCATGTTTCGCCTTCCCTTTGCTGCTGGCCGAGTCTTCAGTATCAGCATGCTGGACACACTCCTGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:19
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
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAGAACTGACTCACCCGT
R:
GAGTGTGTCCAGCATGCTGAT
Band lengths:
182-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]