BtaINT0079877 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103407696-103408973:+
Coord C1 exon
chr11:103407696-103407790
Coord A exon
chr11:103407791-103408792
Coord C2 exon
chr11:103408793-103408973
Length
1002 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CCGCCCCTCCCCGGCTCTAGGAC
3' ss Score
9.42
Exon sequences
Seq C1 exon
AACGACTTCCACCGTGCCATCCTGCGCTCGCAGTCGGCCATGTTCAATCAGGTCCTCATCCTCTTCTGCACCTTGCTGTGCCTGGTCTTCACAGG
Seq A exon
GTGAGTCCCTGCCGGCGGCCACCCGCCCATCCCAGGTAGAGCCGGGCCCTCGCATCCAACAGGCCAGGCGGGCCTCAGGGTGGCGGGAGGCAGCCCGACTGGGACAGAGGGCCAGGAGGCAGCTCAGGGCCCACGTTCCAGACCAGAGCTGCCCAAGTCCAGCTCCTCCGGGGTCCAGGACACAGCGTGGGGAGGGGCACTGGCTCTCGGCCGGGTGGGGACCCTGGGCTCAAGGCCCAGCTGAGAATAAGGTCTGGGAGTCACCAGAGTGAGAGGTGGGGGGCCTGAAGGGGAGACCCCGTCCCCCTGCATGCCTGCCCCAGGCCAGGACAGGGGAGGCCCCAAGGCCATGTGCCTCCTACCCTCCCTCCCCCCCACGAAAAAAAAACACACAGACTTGAGTGGAGCAGGCTGGGGTGTCTGCAGGGTGGGAAACTGCAGGGTGATTCAGCCCGCCCCCGCCCCAGCCAGAGCGTCTACTCTGGGGAGGGCCCCTGCATGCTGCCCCGTGTGTGCACTGTGGGCCCCCCAGGCCCTGCCAGCAGCACCTCCCAGCCTGGGGACAGGACGTGGGGCCACAGGAGTAGCAAGGAGGACTCTCCAGCTCTGTGCTGGGCAGGGGGCTGCGTGTGCCCCATGCCGTCTGACCCCTGGGTGAGGATGAGCCTCTGAGGTGGGTGGCAGGTGGGGCTCACAGCCTGGGTGGCCACACCCGCACCCTCGGATCTCAAGCTCACACTGAGCCCACGCAGTGCTATGTCCACGCTCGTGGCCAATTTTCCAAGGGCCTCAAAGGAGCCTCGGGGCCAGAAAGGAAGGTCAGGTAGGAGGGACGTGCTGGGTATGCCAGCTCTGTAGGCCGGGGTCGGGAAGCGCCCGGCTGGACTCAGGCCCAGGCTGGGGGCTGTGTGGGTGACGAATGACAAGGAGCCGCAGGCAGGCAGAGCCTCACTCTGGGAGCCGGGTGGCCGAGGCCCCACCGCCGCCCCTCCCCGGCTCTAG
Seq C2 exon
GACCTGCGGCATCCAGCACCTGGAGCGCGCGGGCGACAACCTGTCCCTCCTGACATCCTTCTACTTCTGCATCGTCACCTTCTCCACCGTGGGCTATGGGGACGTGACGCCCAAGATCTGGCCGTCCCAGCTGCTGGTGGTCATCATGATCTGTGTGGCCCTGGTGGTGCTCCCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975:ENSBTAT00000025261:9
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=PU(13.6=34.4)
A:
NA
C2:
PF0788511=Ion_trans_2=FE(74.1=100)
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:
AACGACTTCCACCGTGCCAT
R:
CCACCAGGGCCACACAGATC
Band lengths:
262-1264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development