BtaINT0079880 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016729 | KCNT2
Description
potassium channel, sodium activated subfamily T, member 2 [Source:HGNC Symbol;Acc:HGNC:18866]
Coordinates
chr16:6453781-6455492:+
Coord C1 exon
chr16:6453781-6453961
Coord A exon
chr16:6453962-6455327
Coord C2 exon
chr16:6455328-6455492
Length
1366 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATGTGGAAAATGCATTACAGTTT
3' ss Score
1.56
Exon sequences
Seq C1 exon
CATCTGTGGAATCCAACATCTGGAACGGATAGGAAAGAAGCTGAATCTTTTCGACTCCCTTTATTTCTGCATCGTGACATTTTCTACTGTGGGCTTTGGGGATGTCACTCCAGAAACGTGGTCGTCCAAGCTTTTTGTGGTTGCCATGATCTGTGTTGCTCTTGTGGTTCTCCCTATCCAG
Seq A exon
GTAAGCACCACTGTGTTAAATTTTATAGAAACGTGCTAAGTCTTATGAAATCAAATCTTCCACATTTAATAAAAAATACAGGGTGACTTATTAACTATATTAACGCATCTAGTCAATTATTAAAATTGTCTCCAAAATGCCTTTTTAAATTATATTAGAAACATGAGTTTTTTTCCCTTCTAGTCTCCATTGGTAGCTCACATTTCATTTCAGTTTTTTCAAGATGCTTTCTTTTACATATATTTACATTAATTATTGGATTGTAGGATAGTATAGTTTTTAATTATAGCATGTTTGTACAAGACAATAAACTTATGAAACATTGATTTCTTTTGATTCTCAAAACTACAACTAAAAGCCATATGTTGTCATGAATAAAAATTGATTGACTATGTTGGTCAACTAAAATAAAATCTGAAGATGATACATAGCTAACATGTAGCATTTTGGAGAATGGATAAGGAAGCAAAGGCACAGAGATATAAATGAGACTGAAGACACATAGAGACAATCTTCAACTTTTTCCTATAGTGAATTCTGGCTGTCGATGGGTGGGCAGGTCATAAACAGGATGTGGCCAACACAAATCAAAATGTATATTATATTATACAGCCATTTGACAAAGTTATTGAAATATCCTTTCCATAGATGTAAAAATGATCTTTCCACTCCTATCCAATCATGCACGCAATCCTCAATGACACCCCTCCCCCATACCCTCAGCATCCCTTTAATAACAGCTACTTCCTTGGTGGCTCAGTGGTAAAGAATCTGCCTGCCAATGCCCAAGACATTAGTTCAGTCCCTGAGTCTGGAAGATCCCCTGGAGAAGATGATGGGAACTCACTCCAATATTCTTGCTTGGAAAATCCCATGGACAGAGAAGCCTTTGCAGTCCATGGGGTTGCAAAGAGTCAGACATGACTGAGCTTGCATGCATGCACTATAACTGGAACGTGGCCTTGTGTATGTGGTAAGGTTATCTCCCCTTGCAGGTGATGTGGGCTGAAGGTGACAGAAGAATGTGAGAGAAAAACGTGAGACCTTTGTCTTTAACCAGGTGCATGACATATATGGCTGCATACTCTACTGGACAGAAAGCAGAAGTGCAGACCTATTAGTGCCCTGTTATGATACAATAGGAAAATCTCATTATTGTTTCCTGAGAGACGTGAAGGCCCTGGGAGGGATTAGCAAGTCTGCAATTATCCTATGAAGAGTCTTGTTGAAGGGAACACTGATCATTTCAATCTCAAAGAGTTTCATCTAAGAAATTGAATTATACCCAGTAGACAATAGATGGATTGCACTGCTTTTTATTTTCACGTCCAGTTCTTTTCATTCACATGTGGAAAATGCATTACAG
Seq C2 exon
TTTGAACAGCTGGCCTATTTGTGGATGGAGAGACAAAAGTCAGGTGGAAACTATAGTCGACACAGAGCTCAAACCGAAAAGCACGTTGTTCTGTGTGTCAGCTCGCTGAAGATTGATTTACTCATGGACTTTTTAAATGAATTCTATGCACATCCAAGACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016729:ENSBTAT00000048534:11
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(71.4=100)
A:
NA
C2:
PF0788511=Ion_trans_2=PD(9.5=14.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGTGGAATCCAACATCTG
R:
TGGAGTCTTGGATGTGCATAGA
Band lengths:
345-1711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development