BtaINT0079856 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103422225-103422941:+
Coord C1 exon
chr11:103422225-103422463
Coord A exon
chr11:103422464-103422706
Coord C2 exon
chr11:103422707-103422941
Length
243 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
GTCCAGCCACTCTGTTCTAGGGA
3' ss Score
6.16
Exon sequences
Seq C1 exon
GTACGGCGTGTGCCTCATCGGCCTGAAGCGCGAGGACAATAAGAGCATCCTGCTGAACCCGGGCCCACGGCACATCCTGGCGGCCTCCGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCGGCCTTCATCTTCAAGCAGGAGGAAAAGCAGAAGAGGAAGGGCTTCGCGGGGCAGGGGCTGTACGAGGGCTCATCCCGCCTGCCGGTGCACAGCATCATTGCCTCCATGG
Seq A exon
GTGAGGCCGGGCACCCGCTCCCACCTGGGCAAGCGGGCAGGGGCCCCACCGGAGACCCCAGTCCTCAGGCCTGCATGTAACCCTGGGCAAGCCCCCTCTCTCTGGGCCTCAGTTTGCACATCGGTCCGGCGGGGTCATCCCTGCCTTCCTGTGGGGACATCACTGTCAGCACTGGGAGGGAGCCTCCACCCCCAGGACAGTCCCGGGAGGGGCTGCCAGCCAAGTCCAGCCACTCTGTTCTAG
Seq C2 exon
GGACAGTGGCCATGGACCTCCAGAATACGGAGTGCCGACCCACACAGAGTGGCGGGGGCAGTGGGGGCAGCAAGCTGGCGCTCCCCACGGAGAACGGCTCAGGCAGCCGGCGGCCCAGCATCGCGCCGGTGCTGGAGGTGGCTGACAGCTCAGCCCTGCTGCCCTGCGACCTGCTGAGTGACCAGTCAGAGGACGAGATGACGCCGTCGGAGGATGAGGGGCTGTCCGTGGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975:ENSBTAT00000025261:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.646
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(8.5=11.1)
A:
NA
C2:
NO
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:
TCGGCCTTCATCTTCAAGCAG
R:
TCGTCCTCTGACTGGTCACTC
Band lengths:
308-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development