RnoINT0078060 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3358476-3360115:+
Coord C1 exon
chr3:3358476-3358806
Coord A exon
chr3:3358807-3360052
Coord C2 exon
chr3:3360053-3360115
Length
1246 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CTCTCCTATGTGTTCCATAGAGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
TCTCAGATCTCGGTGAACATGGAGGATTGCGAGGACACTCGGGAGGCCAAGGGGCCCTGGGGCACACGGGCTGCGTCTGGCGGTGGCAGCACCCATGGCCGTCACGGGGGCAGTGCTGACCCGGTGGAGCACCCACTACTGCGCCGCAAGAGCCTGCAGTGGGCCCGCAAGCTGAGCCGCAAGAGCAGCAAGCAGGCGGGGAAGGCACCCATGACCACAGACTGGATCACCCAGCAGCGACTCAGCCTGTACCGGCGCTCAGAGCGCCAGGAGCTCTCGGAGCTGGTCAAGAACCGAATGAAGCACCTGGGGCTGCCCACCACTGGCTACG
Seq A exon
GTAAGGCAGGGCTGGCAGGACCGTGGCAGATCACCTGATGGGCGTCTCATAGCCGCCTGACTCCTATGGCCGGGATGGCTCCAACTCTACAATGGCCTCCCCGGGCCTGCTCCACAAAGGGCAGGGCGGGCGTCTGCACTCATGTGTGAAAGGCTCAGAGTAACCCACAGCCTGACTCATTTCTACCACTCTGGAGCCTCAGTTTCCCCACCATAAAGTAAGGGACCGGAGTAGAGTGGAGAGCCAAGCCAGCTCCCCAAAGCTCCTCATCACCTTCAACTGGGATACAAGTCCCGTCTTCCCATTCCACGAAAGACATGAAAAGGCAAGGAGTTGTCAGGGCCACAGCCCGTCCCTGCCCTGGTCACCCCTGCCATAGTCATCAATGGCAAGAATGGTCTGCACATTTCTTGACCCATCCCATGTTCCCCACAAGGCAGCTGCCACAGCTCTGTTGCTCCAGTCAGTCCTAGGGGACATCTGCACCAACAGATTTTGTAATTCCCCTCTCTATGGGCCATTTTGTGTGGCCTTCCTCTAGAGATGTTACCTCTTGATGAGGTCAGAGGGGCCCAGGATCTCTACTCTGGCCTGTGCCTCTCTCCACTCTTTCAACATCTCAGTACTCAGCCATTGCCAAGGCCCACCCTGCATGCTGAAGTCCATCATCACCCTGGAGGCTCCTCTAAGTAGAAGGAGCTGCCCAGGGGTCACTGGGGCTGGGCCATGCATAGGGCATGGGCAGTGCACATTGGGCATTCTGGGCGTGTTCACAAGGCAGTGGTGGACTTGGAGAAAGGCCTGGGGAAGACAGACCAGGGTTTTGAGGCCACCAGAGCCCTCCCCAGCCATGTCTACAGAGTCCCTACAACGTCCTGGATCTAGTGGGCCCCTCAGTACCTGCCTGGGTAACCTGCTGTTCCAGGGAACTCATCACCAAGGCTAAGGGGATTCCAGCATTCACGAGCCTTTGCAAGTACTAGCAGATGCAAAGTCGAGCCCTGTGTACCTCTTACTCTCTGCAACCTCACCCCTGCCAGAGCTTGCCGGATAAAACCCAGATTCCCTTTGGCAACCGACTCGCTTCTGAGGTGCTGGCCACCACTCTCCCAGTGTGGACGGTGTCTGTGTGCAGCTGGCCACTGCCCCATACCCATTCTGCTGTGCCAGCGTGCCCACCCCACCACTGCTTGCTGACCTGTCTCTCTCTCTGTTTCTGTCTGTGCCTCTCCTATGTGTTCCATAG
Seq C2 exon
AGGACGTAGCAAATTTAACAGCCAGTGATGTGATGAATCGGGTAAACCTGGGATATTTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=0.409
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGAGGATTGCGAGGACAC
R:
CCGATTCATCACATCACTGGCT
Band lengths:
355-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]