DreINT0085120 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4744187-4744719:-
Coord C1 exon
chr21:4744536-4744719
Coord A exon
chr21:4744352-4744535
Coord C2 exon
chr21:4744187-4744351
Length
184 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACA
5' ss Score
2.22
3' ss Seq
CTCATCTTCTGTGTCTGTAGTTT
3' ss Score
7.48
Exon sequences
Seq C1 exon
CACGTGTGGGATCCAGCATTTGGAGCGGGCAGGTAAGAAGAGTCTGTCGCTCTTCAACGCTCTGTATTTCTGCATCGTGACCTTCTCAACGGTGGGTTTCGGGGACGTAACGCCCCAGATCTGGCCTTCTCAGCTGCTGGTGGTGGTGATGATCTGCGTGGCCCTCGTCGTGCTGCCGCTTCAG
Seq A exon
GTCACATCACACTCACAGACATGCTTAAATATATGTATTGATATAATATGTACTCAATTTATTGGATAACAAACTGCTGTCAGTCTACACAATACTTACTTGATAATAAATTAGTAATGTTTCCTCATCATAATCTGCATTTTCACCATCATGGTTGTTCTTTCCTCATCTTCTGTGTCTGTAG
Seq C2 exon
TTTGAGGAGTTGATTTATCTGTGGATGGAAAGACAGAAATCTGGAGGAAACTACAGCAGGCATCGCGCTCAGACAGAGAGACACGTGGTTTTATGTGTCAGTACTCTGAAAATCGACCTGCTGATGGACTTTCTCAATGAGTTCTACGCTCACCCCCACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:6
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:
PF0788511=Ion_trans_2=FE(76.2=100)
A:
NA
C2:
PF0788511=Ion_trans_2=PD(10.0=14.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGTGGGATCCAGCATTTG
R:
GCCTGCTGTAGTTTCCTCCAG
Band lengths:
244-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]