RnoINT0078048 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3349750-3351373:+
Coord C1 exon
chr3:3349750-3349988
Coord A exon
chr3:3349989-3351144
Coord C2 exon
chr3:3351145-3351373
Length
1156 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CCCCCTCTGTCCAGGGACAGTGG
3' ss Score
-0.1
Exon sequences
Seq C1 exon
GTATGGGGTGTGCCTCATTGGGCTGAAACGTGAAGAGAACAAGAGTATCCTGCTGAACCCGGGGCCACGGCACATCCTGGCCGCCTCTGACACCTGCTTCTATATCAATATTACCAAGGAGGAGAACTCAGCTTTCATCTTCAAGCAGGAGGAAAAGCAGAAGAGGCGGGGCCTGGCAGGGCAGGCACTTTACGAAGGGCCCTCCCGGCTCCCAGTGCACAGCATCATCGCCTCTATGG
Seq A exon
GTGAGCTGGTATAGCACACAGGTGGAAGACGGGCGGCCTCCAAGGGTGAACTCCACACCCCACCTGCCACTGGGCAGGAGACCCCCAAGACCCAGCTCCTCCTGGACAGTGTGAGCCTTTCCAGGCCTCGGGTTTTGCCCCCTGTCCAATTGTGGTACCCCACCTGTCAGAGTTTTGGGGAGCATCAGTTACCAGGATAACCGAGAGCCTATAGGAGTACTGTGGTAGATGAAGTACTAACCAGAGGTCCCTGGGCTCTCAGCGGGACACCCCTTAACTAGATGAACCACTGCGTTAGCCACGATTTAGTTTCATGGCTCTTCCCTGGAACTGCTGTCTTCCCAAAACTGGTTCAAGGGACTTCCTGAACAGGGTTGGGCCAAGACTCAGAAGGCGCCTGTGGCAGGTGCCATCCTCTGCCAGTCCCCCAGGCAGTGGTGGGGAACAGGAAAGGGTCATTTAGCCTCTCAGGTCCCAGACCCACAGGCTATCCAGGGTTATGCCCTTCTCTCATGTGGTGCTAGGCTCCAGCTGTGACCCACAAGGCAAGTTGACACTAGTAAGCTCCTACTGTATGCCCAGTGTAAGTGGTCTCTAGGGACCTCGTGCTTTGACTCTGGTATACATTCTCAATGGCCTGTGACTGAAGTTGCTGCTCCTGCAGCAGCAGCCCTGTCTAGTGGTCAGGCCTGAGGAAGAGCTGCCCAACCCAGCCCCTGTCTATTACCTGCTATCCGCTCACCCCCATGCGTTCTAGGGAGACAAGAGTAACCCAGGAAGCCTGTCCACCCCACCCCTCAGGTCTGCCCCACAGAGGCTGTGAGCTACATCCTTGAGCCAATCACCAGCCGCAGCCTGGCAGCCTGAGCTGAAGTGGGAACAACTGAGGCCAGCAGGTCAAAGTGGCCTTGTTGCTCCCGTGTGACTGTGTGGCCACCCTCCCTAGCTCCACCCAGTTTCCCATGAGCCCCAAGGGCCCCCACCCTCAGGTCAGCATCAGTTGAACATCACCACCACTGGGGGGTGGGAGAGTCTTCCTCCTGAAGAGGAAACTGAAACTAAGGAATGTGCCGAAATTCCTAGGGCGGTCATGACTGGCCTGGAGTGGGGTGGGAAGGGCTACTGGTCAGGTCCAACCCCCTCTGTCCAGGGACAG
Seq C2 exon
TGGCCATGGACCTGCAGAACACAGATTGCCGGCCCTCCCAGGGTGGCAGTGGTGGGGGCGGCGGCAAGCTGACTCTGCCCACTGAGAACGGCTCTGGCAGTCGGCGTCCCAGCATCGCACCCGTTCTGGAGTTGGCAGACAGCTCAGCCCTGTTGCCCTGCGACCTGCTGAGTGACCAATCAGAGGATGAGGTGACACCCTCAGACGACGAGGGGCTCTCTGTGGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.566
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:
CGCCTCTGACACCTGCTTCTA
R:
GGGTGTCACCTCATCCTCTGA
Band lengths:
358-1514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]