DreINT0013238 @ danRer10
Intron Retention
Gene
ENSDARG00000104868 | KCNT1 (2 of 2)
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr5:64833210-64837932:+
Coord C1 exon
chr5:64833210-64833304
Coord A exon
chr5:64833305-64837751
Coord C2 exon
chr5:64837752-64837932
Length
4447 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAG
5' ss Score
6.23
3' ss Seq
TTCTGTATTGCTCATCATAGGGC
3' ss Score
6.34
Exon sequences
Seq C1 exon
AATGATCTCCATCGTGCCATCCAGCGCACACACTCTGCCATGTTCAACCAGGTCCTCATCCTGATCTGTACACTGCTCTGTCTGGTCTTCACCGG
Seq A exon
GTAAAGCTCTGATCTCTCATAACCCTGATGGGGTTTCAGTCTTTTAAAAGCTTGTGTCTAATGCAGCAAATCTGAAACAGACACAATATTAACCAAAGCTACTGTGCAATATTGTATTTTTTTTTATCTCACAAAAATAATGCTGTTTCTGTTTCAATGTTTGCTGATTTAATGTTTTTATGCTGTTATGTTAAATCAAAGTCTAGTGTTTGATAGAGCAAAAGTTGCCTGGATTTGTTTTATCAGTTTGGTTTCTGGAGGTATTTGTAGTAATTTTCTTTTCTTAGAAGTTTTAAAATAGCCTTAGTAAAGAGTTGTAAGCCTAAAACTAAACCACCCAGCGTTCAGATGAATCTTATTACAAAGTGGAGTGACCGGCGTAACCCACTGCGCATGCAACGCGCATAGCTGTGCATTTATACTTCTGCGCGCTGTCTCTATTATTCTGCATTAACACTTCCGAAACGCTAGTTGGCAGTGAGGGGTTAATGCTCTTCTGTGTCGAGTTTCTTTGCTGGTGTTTTGCTTTTCCTGAACACTTCCTGAATGTACAAGTGGCTCAAACTCGCTCATTTTGAGGCAGGAACCAGTGGACGTTTCCTAGTGATGGGGTGCGGCTGGAAGGGCATCCGCTGCGTTAAACATACGCTGGATAAGTTGGCGGTTCATTCCGCTGTGGCGACCCCAGATTAATAAATGCACTAGGCCGAAAAGAAAAATGAATGAATGAATGTTTTAATATTGATAGTATGATGTGGGTATTTTTTTGGGGGGTGTGGGGGGTGGGGGGGGGTGGGGGGGTAATTGTTTCATTTTTAAGCAGCAACCTTGTATAAAGCAGTAATTTAAAAAATGACATCTAAAAAATTTATGTGTACATTTTGGCTAAGAAATATTTAGCATCTTCCTTTGCCAAAATGTAGACATGAATTTCAGCTGTGTTACTTTACATTGTTTTTCCATGTAAGCATGCTGAACAGCTTCTTTTTAGTTGTGTTTACACATTGTGTCTTTTGCTGTGAACGCCACAGTGTTCAATAATTACAAGAATACATTTAATAACGGATGCTTTTTAAGATATTGACTTACAAAATGACGACAATAGATCCACAAACCAACAAAAGCTTAAAAGAAGTTCCAACAGCAATGAACAGAAGATTCCAGAAAGTGATTTGGTGCTTCGTTGCGAAGTTTGAGAAGTGAACATTGCCTTGTGTGACTATTAACTATTAACGTTTAATGTTAATGTAGGCCTTGACAAAACTATAGACACCTTTGAATTTAAATTCCTTCATTTGTTTATTCATTTTCCTTCAACTTAGTCTCCATTTCAGAGGTTGCCACAGCTGAATGAATATTTCCGGCTTATGTTTTACGCAGCGGATGCCTTTCCAGCTGCGACCCAGAAGTGGGAAAACTTATATTGAAATATTTAAAGTTTAAGGGTTTCAGGGGTCATACATTTGTGGTCGTAAAAAGGTCTTGTACCTAGTGTACAGCGGATTTATGAAGAAAAAATGAGTGAGAAATATTAAAAGTTTTCATTATACATTAACAAATGTATCAAATCAAATGTGCCAAAAGGATCACAAAAACAAAAAAGTCCATAGAGATGAACAAGTGTTGACCTCCATAACCCTCCATCGCACTATATTTGGAAGCATAATTAATAAAATAAAAAGTTGAAACAATTCCAATTTTTTTTTTTATATTTGTATTTATATTTTTAACAAAGTGTCTGTAGCAGAAGGAATAGCTAAATATTAGACCATATAATATATTCAATATTAGCATATATTTTCATTGACAGTAAAATATGTACAATTTAAAGTGATATCAAGTGTAAAGTGATTTTACTAATATAAAGAGACATATAACTGAATAAAGTCTCCCACAGCTAAAACAGAATTTGCATGATGAATCAGACTACAGCTGCATTTCCTATTTATATCACATTCTCAGAAATAATGGTATCCAAGCTGTCATATCATTTCAAAAGATACACATTTGTACCTAAAGGGTGCTTTTGAACAGGTACCGCCCCAGTGACAGCTTGTGTACGGTTATTTATGAGAGTGTGCAGTATAAATTTCCATAACATAACACACACACTGAGGTTTTAAAATTCAACTAGAACAAAATGGGGAAAGTCTTGAACCACGAATCTCATTTTACTCAAATCTAAAGCGTCTATTAAAAAAAAAAAAAAAAAACATTCAATATTCCTGAGGGATCCTGTGGTGAAATGGCTTTCTGGGCAAACCCACAAATCGACACCATGACTGAGCAGCTTTACTGAACCCTATTCATTGAAATAGCCTTGAAATGTCTTTCCAGTGAAGCTGTAAAAATGCAATGATGCAGATGTTTTATATATACAGTTCTGTGCAATAGTCTTAGGCCACCACCAGCTTTGGGAGGCCAAGACTTTTGCACAAATCTATTTATCTAAGATGTATGGGGCAAGTGCATGGTTATTACACTATACCTTTAATATGCGAACAATAGATATGGTAAATATGACCACAATATTCAGAACACAATTACTTTTGGAGTAAAAAAAAAACGTTTGTGTTTAACGTGATCTCTTTAGCACCAAGTAATAGCTTGAACTGAAATGATGTGCTATTTATTATAAAGCATCTTTCAGCTTTTCTAAGAGTTCTTGCTTGTATTTAGCATGATCCGGCTTTCTTTTTCTCTCCAGGTGAATCTCATACTGCCTACAATAATATTGCCTATACATACTGTCTATAATATTCAGGTCTGGACTCTGTGGAGGTCATGGCTGTCTTTGTATCATCAGCTGTTTTTCTCTCCAAATTATGAATTCATTGCATCAGCAGTGTGTTTGGGATCATTGTCATGCTAAAAAATAGAACTATTACAAATTAGGGGCTTTCTAGGAGGAATTCAAATCCTGTTCGGCATTCACAATCCCATCAATTCAGGCAATATTGACAACAACTCGGGCAGAAATGCAGATCAAAGACAGAAACTATAGTATTTTTCATTCATTCTTGCATCTTTCTCAAACTCTTCCTTTCAGATGTGCTAAACAATTAGATCCATAAAACTCAACAAGAACCTATATTTTCTGGTTGAACAGAAGTTTACTTACACTGTATAAAAAGGCGCATAACCATTTAAAAAATAGTCAGATGTTAATGTGACTAAACATTTTCTCTTATAGGTAAGTTAGGATTATCACATTTTGTTTCTGTTATGCTTAATAGCAGAATAATGAGAGATTTTTTTGAGAAATTGTTATAACTTTTCTTGAAAGTCAAGTTTACACACAATAAGATTATTCTGCCTCTGAAAAAGCTCAGATGATGGTGTCAAGGTTTTGGAAGTTTCTGACTGGCTAATTGACAACATTTGAGTAAATTGGAGGCACAACTGTAGAATAGTATTTAAGGAAAACCTCAAACACACTGCTTCCTTTTGTGACAACATGGGGAAATCAACAAGCCAGAATCAACAAAAAATAAATAAAAATAAGCCAGATTACAATTTGCTAAATTACACGGGGGAAAAAAAAGACTCATTTTCGGAGACATGTCCTGTGGTCTGATGGAACTAAGATTGAACTGTTTGGCCATAATGACCAGTGTTACATTTGGAGGACAAGGGGGAAAGCTTACAAGCCTAGGAACACCATCCCAACTGTGAAGTATGAGGGCGGCAGCATCATGTTGTGGGGCTGTTTTGCTGCAGGAGGGCCTGGTCCAGTTCACAGTATAGATGGCATCATGAAGAAAGAATAGAAATATCTGAAGCAACATCTCAAGACATTAGCCAGAAAATTAAAACTTGGCTACAAATGGGTCTTCCAAACAGACCATGACCCTAAGCATACTGCCAAATTAGTTAAAATGTGCTTTAAGGACAACAGATTGAATGTTTTGACAACAGATTGAATGTGTGGCCATCACAAAGCCCTGATCTTAATCCTATAGAAAATTTGTGGGCGGAGTTGAAAATGCTTGTGCGAGCAAGACAGCTTAAAAATCTGACTCCGTTACAGCAATTCTGTCAGGAGGAATGGGCCAAAATTCCTTCAAACTATTGTGAGAAGCTTGTGAAATGGCTACCCAAACCATTTGACCAAAGTTATACCATTTTAAAGCAAAGCTAAAAAAAATATCTATGAAATGTGTTTAAACTTTTGACTGTCTAGAAATAAATAAAAAAATCTCAAAAAAAAAAATCTCTTTATTCTGCCATTATAGCAAATGTAAATCATTTTTGGTAACCCTAACGGACCTAAAATAGTAAACGTTTAGTATGATTTACCATCAGACATTTTTTTTAAATGGTTATGTTCCTTTTTTTAGAGTGTACGTAAACTTCTGGTTTCAACTGTATATATATGATTTTGCACAGTACTGTATAATCTATATTTTCAAAAGAACCTGCACTTCTTCTGTATTGCTCATCATAG
Seq C2 exon
GGCTTGTGGGATTCAGCACCTGGAGCGAGCAGGGAAGAATCTGACACTCTTTGACGCTTTATATTTCTGCATCGTCACCTTCTCCACTGTTGGATATGGAGATGTGACGCCCAGAATCTGGCCCTCTCAGCTGCTGGTGGTCATCATGATCTGTGTGGCGCTGGTGGTGCTGCCATTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104868:ENSDART00000161567:7
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(11.4=25.0)
A:
NA
C2:
PF0788511=Ion_trans_2=FE(85.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]