GgaINT0038242 @ galGal4
Intron Retention
Gene
ENSGALG00000002451 | KCNT2
Description
potassium channel, sodium activated subfamily T, member 2 [Source:HGNC Symbol;Acc:HGNC:18866]
Coordinates
chr8:2781761-2783222:+
Coord C1 exon
chr8:2781761-2781862
Coord A exon
chr8:2781863-2783138
Coord C2 exon
chr8:2783139-2783222
Length
1276 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TTCTGTTAAAAACCTCGCAGTCA
3' ss Score
3.99
Exon sequences
Seq C1 exon
AAAGAACGGGAGAAGGGATCTAATTTAGCATTTATGTTTCGACTGCCCTTTGCTGCTGGCAGGGTTTTCAGCATCAGTATGTTGGACACACTGCTGTACCAG
Seq A exon
GTACTGTGAATAACCATGTGCCTTCATTTAACGTAGGCATGCCACATTACCACCCATTTTTTTGTACTTAGTTGTTGGATTACCCTATCTTCCTACATAAACCCATTAACATAGGTGCTATGTCAGGAGCAATCAAAGGTAAAAGGCCATGGAGCACATTCCATCTGACAGCACTACTTGCATTCACCAACCCAAAACTGACTGTCCTTGAATAAATTCTGTTTTAAATATTATAACACTGTGAAGCTCTCCACAGAAGCAATGGATAGTTTTGATACAAACCGTATAAAATACAGATTATAGAGACTGTTAACGCTGGAACAAAGCATTAAATACTCATTGCCCATTCCAACAAAACAGTGCCTCTAATCACAAAAAACAATAGAAATATTTGTATGAATAATTTATCAGCAACCTTCACTTGCTGATAGAAGATTTTATTACATCATCCTGTCTTGTCCTCTTACTCTTGTCAACTAGACCTCCAGATGAGCAGCCATCACACTTTAAAGCCAAACAGCTAGTTGTGTTCTAAGGAAGGACAGTCTGCTTTGAATGTTGCCATTCTACACCCAAAAGGTGGCAATGAACAGATCTCCCATAGTTAGTAGAGCACTCATGGCTTTCTGATTCCAGCAGTCCAATTGATAAGGAGATGAAACATTTGCCATTTTAGCTTATCTAGTGCCCATTCCTGGCCTCCTTAGCACGCATTCTTACATTTAGTTTAGTTAGTCCTCTCTAAATTCTATCATTCTACCAGAACGCTTTTGTTAAAGCAACAAGCCTGATCTGAGATAAGGCAGATTTTACCTTAATCATTAGCTGGACCAGCAAAGACAAATGACTCTAGTTTGAAATAAAATAATAGCAGCCTCACCTTAGTATTACTCACTACTTTATACTGCATCTCCACCTAATGTAGGACAGCATTTCATATGCACAGAAGATAATAATTAAAGTTTCACAACTAATAAATGCTAACAAGTTACTTCGATTGATAAGCATCTTAGTATTCAAGCTACCTCATCATGCCTTTGACTCCTCTACAGAAATACATATGCAGAAACAATTTTTATCTTTATTTTTTTTAATCAATAGAGTCAACATGCATAAATAACTATTTCTACAATGATAAAGATACTTAAGAGATATTGACTTTAAACACAGATGTACAGTTTCTGTGGAATAAACATATGGTGCATATGGCTATCTGCTCATCTATTCATTGAAGCTTTTTTCTGTCTTTCTGTATCTTCTGTTAAAAACCTCGCAG
Seq C2 exon
TCATTTGTGAAAGATTATATGATCTCTATCACAAGACTTCTTCTGGGACTTGATACAACACCAGGATCTGGGTTTCTTTGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002451:ENSGALT00000003864:25
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAACGGGAGAAGGGATCT
R:
TGAACAAAGAAACCCAGATCCTG
Band lengths:
186-1462
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]