RnoINT0078043 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3346650-3348302:+
Coord C1 exon
chr3:3346650-3346786
Coord A exon
chr3:3346787-3348238
Coord C2 exon
chr3:3348239-3348302
Length
1452 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CAGCAGTTGCTGCTCTGCAGGAT
3' ss Score
4.17
Exon sequences
Seq C1 exon
GACTACTACGTGGTCATCCTGTGTCCCTCGGAAATGGATGTCCAGGTGCGCAGGGTCCTACAGATTCCCCTGTGGTCCCAGCGTGTCATCTACCTCCAGGGCTCTGCCCTCAAGGACCAGGACCTCATGCGAGCTAA
Seq A exon
GTGAGTGACAGCACAGCCAGACCTAGGCCTGAGGCCCCCTGAGTCCCCAGGTAGAGAGAGGTAGGGTGATGACAGTCTTAACTGCCTGAGGCAGGCAGGGGGCCCACATGGAGGCTGGGTCAGAGTGGGTGAGTGGGACCCTAGAGCCTGTCCTCACATCATGGTGTGGCAGCCTGACAAACAGTCCTGGCCAAGCTGTGGTCTCTGCCGCTGTGGAGCTTGCCTACGGGCAATTTTCCCTCTCCTGCTCTAAGTCTGGGGATTTTCTCTGTCAGGTTTTAGGGAGCTTAAAATAGACCAGGGGCGGAAAAAAACGGCTGCCAGGAGTCAGAGACAAAGACACGAGGCTGAGGGTGGCTCTTGATTTAAAGACGAGTTGACAGAGTGACTTGAGGTGACAAGAGTGTGCTGTTAACATGTAACTAGAATGTGCTACGCACCATCTGGGACTCTTCCCCCAATCCGTGCCACGTTTTCATTCCAGAAGGTTCCTGTACTTTGGTGTGTGGCACAGGTGAAATGGGGCCAAGGGTGAACAGGATGATGGCCCAGGTCCTTCATCCCCAGAACCCTGAGCTGGGGCTTTCATGGGTGCAGTCTCTTTTGGGATCCTGCTCTATTCGCATGAGACTGTATCTGCTTGTGTCCAGCTCTGGGCTGGCTGGAGAGAGGAAGTGCCAGCTAGGCAGGGAGGCACCCACAGCTTTTGTGGAGCGGGAGGTGGTGTGAGGCTTCACTGTCCTGGTTGTGAGGTAGTAAGGGTTTCTTAGACTGGTCCTTAGCAGGGCTTAGCTGTTTCTGCAGACAGTTTCCTGGGAACCTGGAAGGAGCTGGAAATGACCACCCAAGTCCAGGCCACTGTGTCTCGGCCAGGCAGAGGAAAGGACAGATTCTAGATTCCAGCACAGGGTTAATGGGAGCCTAGGACAAGGACTCTATATGCTGTGGGCAGTGCCCTAAGTCAGGTCAGCTGGCCTAGGGCTAGGTAATTCTCACCAATGACACAAGTGGACCCGTTCTTTCTGATGCTAAGCCTCTGACAGCGGCAGGCAGAGACCAGAGTGTGGCAGGATGTGGCAGACTGTGGCTCAAAGAGACCCCTCTCAGACACCATTATGCCACAGCTTGGAAACCCTGAGTGGTTTCCACTGGCCAATTGGTGTCTCGAGGATAAGCTTGGCTCACAAGCTTTGTTCAGCATCTGAGCTTGGACTCTGAAGTAGGTGTCCTGGCATCCTGACCTGCTCAGAATATACTGGCAGAATATGGGGAGGTCGGAAGGCCTGGGATACACTGCAGGATTTGATGCTAGGATGTGCTAGGCCAGGCCTGGCTGTCTTGGCATGGCCCCTGCTGGGCCATCCTTCCTCACCCTTTACATGCCCAGCCTCTCCTGACCTCCTGGGGAGGCCTCTGAGTCCTTAGCCACACTCAGCAGTTGCTGCTCTGCAG
Seq C2 exon
GATGGACAACGGAGAGGCCTGCTTTATCCTCAGCAGCAGGAATGAGGTGGACCGCACAGCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:13
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:
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:
ACTACTACGTGGTCATCCTGTGT
R:
CAGCTGTGCGGTCCACCT
Band lengths:
198-1650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]