DreINT0085113 @ danRer10
Intron Retention
Gene
ENSDARG00000079484 | kcnt1
Description
potassium channel, subfamily T, member 1 [Source:ZFIN;Acc:ZDB-GENE-091231-1]
Coordinates
chr21:4717478-4719265:-
Coord C1 exon
chr21:4719143-4719265
Coord A exon
chr21:4717770-4719142
Coord C2 exon
chr21:4717478-4717769
Length
1373 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAT
5' ss Score
6.75
3' ss Seq
ATGGTTACCACTGCCTCCAGCTT
3' ss Score
3.3
Exon sequences
Seq C1 exon
ATGCACATATGTGAGGCTGATCTCTGGATCCGCACATACGGGAGACTCTTCCAGAAGTTCTGCTCATCCAGTTCAGAGATTCCCATCGGAATCTACCGCACAGAATCACACGCACCACCTGAG
Seq A exon
GTACATGTCTGTCTGTCTGTCTGTCTGTCTATCTCTCTGTCTGTCTGTCTGTCTGTCTGTCTGCTTGTGTATGTATCTGTGTCTGTCTGCTTGTGTTTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCAATCTATCTATCTGTCTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTGTATCTGTCTATCAGTCTGTCTATCAGTCTGTCTGTCTGTGTATCTGTCTGTCTATCAGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTGTATCTGTCTGTCTATCAGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTATCAGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTGTATCTGTCTATCAGTCTGTCTGTCTGTGTATCTGTCTGTCTATCAGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTGTCTGTCTCTCTGTCTGTCTGTCTGTCTGTCTGTGTCTGTCTGCACATCCGTTTATTTATCTATCTATCAGACTGTCTGTCCATCCTTCTGCTGAATTGGTTTTGCAGTGTTTGTGTGGAATTTTGCAATTAAATAAATAAATAAATAAATAAATAAGTGAATGTATAAATAATGTTTTTTTAAGTAGAGTACATAAGCTAAATGCATGAAACTTTTGTTAAAGTTTTACAATACAAATCAAACTTAAAAAGTTACAGTGGGTCTCATATACATATCTACAAAGAAACCAAGAAAATGTTACTTTACGAACTGCATTGTATCATCTATACATTTGCGTATCGATAATATTACAGAAATAATGTTAAAGCAGAATACATTTAAATATATATACTGTGTAGTGTATAGATGCAGAATTTAATATTTTCAATTGTTTTGTGTGTTTCCATGGTTACCACTGCCTCCAG
Seq C2 exon
CTTCAAAGCTCAGTCAGCATAGACGGTTTAAACGACACTAGAGAGAAAGGCGAGGAGTCAAAGATCCTCACCCGGAGCTCCTCAAGCAGCGACCAATCAGATCACCCACTGCTGAGAAAGAAGAGCATGCATTGGACAAGACGTCTCAGTAGGCGGAGTGTAAAGCGGAGCGACTCCTCCCTCAGCTCCATCCAGCAGCGTCTGGGTGTGTTACGGCGCTCTGAGAGGGAGGAGCTTACTGAACTGGTCAGAAACCGCATGCAGCATTTAGGCCTGCACACTGGCGGATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079484:ENSDART00000150936:22
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=0.612
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:
TGAGGCTGATCTCTGGATCCG
R:
TAAGCTCCTCCCTCTCAGAGC
Band lengths:
350-1723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]