BtaINT0079858 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103424136-103426382:+
Coord C1 exon
chr11:103424136-103424241
Coord A exon
chr11:103424242-103426209
Coord C2 exon
chr11:103426210-103426382
Length
1968 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CCAGCGTTCTCCCCTTCCAGGGC
3' ss Score
10.99
Exon sequences
Seq C1 exon
GTATGTGAAGGGCTACCCTCCTAACTCACCCTACATCGGCAGCTCCCCAACCCTGTGCCATCTCCTGCCCGTGAAAGCCCCCTTCTGCTGCCTGCGGCTGGACAAG
Seq A exon
GTGGGTCACAGCAAAGATGGGGAGGCAGCAGGGACCCTGAGGACATCCTGACTCAAGTCCACCTCCCCGGTGTCTTTTCCTCTGAGGGGGGCAGGTTCCCTCCCTCCTGCATCTGCATGTGTGTCTGAGGCAAGGGTGTGCCTCTCCTGACCACAGTCCACTTACCAGCACCAGGATGTGTGTGTCAGACCCTCAGCCCGCAGTCCAGCTGCCCTTCTTGCCAGAGCCAGTCCTGACCCACTTCTGCGTGCCCGTCATGCCTGCCTCCCTCCGTCTCAAGGCTCCTCGCCCCTACCTTCCCTGGGTTTCTCCCGTATTTGGGGAGTGCAGTCATCGATTCAGTGGAGCGTCCCTGAAGGGGGGCAACTCAGCCTTTGCACGGGGCAGGGGCTGGTCCCCCCAGAGGTGCCACATCCTCTGGGAGGCCTCCCTGCGATGCTGCCTTAGAGCGTGTGGTTCGGGTTCACACCTGGTCTCCCTGGAGGAAATATAGCTTCACCTTTGCAGTCAGGACGTCACTGTGGGGAGACACGTGGGGACCGGGTACAAAAGCTGCTCATCACCGACCCCCTGATGCGTTTCCTCTGTAGTTGATGGATGCAGGTTCCAGTTCCTTCCATGTTTGAGTCCACTTTTCCCCGTGAGGAGGTTCTTCCCCTTTCTTAGCCATTTGTGCACATCAGTGTGGACTCAGCGTTTCACTCAGTAAACCCGCTGTGCATTACTGCCACGTCGGCTTTCTGTGCGGATCCTGCTGGTTTTGACATTCAGACTTTCCTGGTTTTGCTGATGGGGCCTCCAGGTCTTTCCGACGCGTCTCCTAATCTGTGAAGATGTCTGTGCTTCCGAACTAATGGTGCCTGCCCCCCCTTTTTGTTCCTACTCCAGTCCTGGGACTGGCTGCTGCTCCAAGAAACCTGATTCCTGTTAGTGGAAACCACGTTTAGAAACAAGATGGGGATTTGGGGTGCTCACTGCTGCCCTGCATCTGAGCCTCTCTGCAAAGAGCTAGAAAGTGGGCACACACACAACAGAATGTGTACACACATGACAAAATGTGCACACACATAAAAAAAGTGTACACACCACTTGAAAGAATGTATACACACATGACAAAACGTGCACACACAAAACATGCACACACAACAGAATGTACACGCGTGACAAAACGTGCACACACAAACATGTATACATACGCACACGCTACAGAGCATTTACACACATGGCAGGACATGTGCACACAAGATGTGTACACACGCGCACACACTATGGGATGTGTATACACATGACAAATGTATGTATACACACAACATGTATACACGTGCACACACTACAGAATGTGTACACACATGACAAAACGTGCACACACAAAATGTGTATACACGCGAGAGAATGTGTATGCACGTAATATGTGTGTACACACGAGAGAATGTTATACACATAAGAAATGTACACACACATACAAAATGTGTACACACATGCACACACTATGGAATGTGTGTATACGTGACAAAATGTGTGTGTGAACACACAAAACATATACAAATGCACACACTACAGAATGTGTACACACATGACAACATGCACACTCAAAAACGTGTATACGCACGAGAGAACGTGTATACACATAAGACGCGTGCACACACGAAAGAATGTTATACACATAAGAAATGTGCAACACATACAAAACGTGTACACACATGCACACACTGCAGGATGTGTACACACAAGACAAAATGTGCACAAATACAAATGTGTCCATGCAGACACATCTGTGTCTGCATCTGCTAAGGCCACAAGCTCACAGACACCTCCCTTCCCCCCCCCGCAGGGCCCCAGCTCGCTCTGTGGGGTATGGTGGATGGCTGGCCTGTAGCCCCAGTGACACCAGGTGCCATTTGGCCTCAGGCTTCCCTGGAGCACCCTCCCTCCCCCTCCATGGTTGATTCCAGCGTTCTCCCCTTCCAG
Seq C2 exon
GGCTGCAAGCACAACAGCTACGAAGATGCCAAGGCCTATGGCTTCAAGAACAAGCTGATCATCGTCTCAGCGGAGACGGCGGGCAACGGGCTGTACAACTTCATCGTGCCGCTGCGCGCCTACTACCGGCCTCGCCGGGAGCTCAACCCCATTGTGCTGCTGCTGGACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975:ENSBTAT00000025261:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GGGCTACCCTCCTAACTCACC
R:
TTGTTGTCCAGCAGCAGCAC
Band lengths:
270-2238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development