BtaINT0079886 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016729 | KCNT2
Description
potassium channel, sodium activated subfamily T, member 2 [Source:HGNC Symbol;Acc:HGNC:18866]
Coordinates
chr16:6542436-6543765:+
Coord C1 exon
chr16:6542436-6542585
Coord A exon
chr16:6542586-6543535
Coord C2 exon
chr16:6543536-6543765
Length
950 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
ATTTTCTTTTTTAAATTAAGGTT
3' ss Score
7.7
Exon sequences
Seq C1 exon
AGAAGGCCAGCAGTCGCCAGAACAGTGGCAGAAGATGTACGGCAGATGCTCTGGGAATGAAGTGTACCACATTGTTCTGGAAGAAAGCACATTTTTTGCTGAATATGAAGGAAAGAGCTTCACATATGCTTCTTTCCATGCACACAAAAA
Seq A exon
GTATGTTTCCTTCTCAGAATGGAATTAAAATATTAATTTACATCCAGTTTTCCATAATGTAACCCATATTGGTGCTCATATTGAAGTATTTTTGAATTATTATCATAATTATTGAGACATTTGAATTCTCACCTTTTGTATGGTCTCTACAAGTTAAGATTCTTGGGCATAAAGTATAATTTAGTAGGAATATTGACTGAAAATGAAAGCATTTTTCACTCAGTCATGTCCAACTCTTTGCAACCCCATGGACTATAGCCCAGTAGGCTCCTCCTCTCCATGGAATTCTCCAAGCAAGAACTCTGGAGCGGGTTGCCATTCCCTTCTCCAGGGGATCTTCTTGATCCAGGGATCAAACCCAGGTCTCCTGTATTGCAGGCAGATTCTTTACTGTCTGAGGCACCAGGGAAGCCCAGTATTGACTTTAGCATCTTTTCAATTATCTTTAAAAACATTTTAGTGCTGTAGAAATTCACAAGAAAATGAATCTTTTATATAGATCTAAATTTTAAAGTGTTAATTAAAATACTGTTTTATTTTTTGGCCAAATTAAGATATACATTTGATGGTAAGACCCAGTATAAACACAAAATTTACCTCCCCCCCAAAAAAATGCCCTTAAATGATATTTACTTTGATGTTTTCTTTTATCTTTTATTCCATTCTTTTTTATTAAAAAATGTATATATAGTCTTAAGTATCCAAATTGATTTCACAAAACACTAAAGATACTGGATTTTTTTTTTTTTTTTGGTTTGTTTTCTTCTATAGAGATAAGAACTTTGAACTTATAGGATCTTTTCAAGCTTTAAAGTCTTCCTATTTGAGGTTTACTTTTCCTTTTCCTTTTAATAGTTTACTTATTTTCTTAATATGCAAGCTTAAGAAAAAAACTAAGACCTTTGCTGAACTTTAAACTTAAACTCCTTTATTTTCTTTTTTAAATTAAG
Seq C2 exon
GTTTGGTGTCTGCTTGATTGGTATTAGGAGGGAGGATAATAAAAACATTTTGCTGAATCCAGGTCCTCGATATATTATGAATGCCACAGATACATGTTTTTATATTAATATTACCAAAGAAGAGAATTCAGCATTTAAAAACCACGACCATCAGAAAAAAAGCAATGTACCAAGGTCATTTTATCATGGACCGTCTAGATTGCCTGTACATAGCATAATTGCCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016729:ENSBTAT00000048534:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.141
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(47.2=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.5=11.5)
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:
CAGCAGTCGCCAGAACAGTG
R:
ACAGGCAATCTAGACGGTCCA
Band lengths:
350-1300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development