GgaINT0038234 @ galGal4
Intron Retention
Gene
ENSGALG00000002451 | KCNT2
Description
potassium channel, sodium activated subfamily T, member 2 [Source:HGNC Symbol;Acc:HGNC:18866]
Coordinates
chr8:2763109-2764546:+
Coord C1 exon
chr8:2763109-2763258
Coord A exon
chr8:2763259-2764316
Coord C2 exon
chr8:2764317-2764546
Length
1058 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
CCTCTCCTTTTCTAATTAAGGTT
3' ss Score
9.51
Exon sequences
Seq C1 exon
AGAGAGTCAGCAATCATCAGAACAATGGCAGAAAATGTATGGCAGATGCTCTGGTAATGAAGTGTTTCACATTAACCTGGAAGAAAGTACTTTTTTTGCTGAATATGAAGGGAAAAGCTTCACATATGCTTCTTTCCATGCACATAAAAA
Seq A exon
GTATGTTTATTTTCCTATAAAAGATTGACTTTAAAATTTTGCCCCAATTGTAGCTGCATTCAAAAGTGCAATATCAGGCATTACTCTGTTTCTGGATTAAAATATCTGGCCACCAATATATTGCATTGTATATTAGGAAATATATTGCATTCAGTTGTAGCTTCTGTAAGTTACAATTGGTCATGTAAAAGCTTGTATTGGTTCTTTATAGGTAGCTCAATCTGAGAGAACAGAATATAAAGGATATATAGGATAAGCCTGACAACCATAAAGAATTATACCTTAGATGCAGGTTATATCAGAACACAAATCCTTTTCACTTTTTTAGTTTTTGGTTGTTTGATTCAGGAGTCAGCTGGAAATCCTGAATGTTCAGTTTATGCAAAGCATTCAATTTTAAGATGATTCTTGCTATACTCTGGTGATTGTTCAAAATATTTTTTCCCTACTTAGATTGAATTTTAAGAATGTTAATACATCATCTTTATGTTCCAGATCATGCATCTTTTATTCAGTACTACTATGTGAACAGAACTTACAGACTCATCAAACTCTGACCATTTATTTTATTTTCATACTTAATATGTGACCAAATGATTTCTTCAGTTTTAAGTCCTTATCTTTTCTCACTAATTAAATAGATTTTTAGAAGTGAATGGCTAAAAATTCTTAAAGTAGTTTCCATGACATGGAACAATTTAACATGATGAATACATTTTTTCATACAACATATCCATTTCTCTATTAGTAATTTCTCAGAAGGGATTAATCATCTGATAGAAAAATTAACTGAGACATCATTTGAAAAACCTTTGGAGATAAAGAAACACACTAGAATCAGATACCTCTGAATTAATCAGTTAAAAAAAAAAAAAAACTGCTTGATTAGAAGTGGTCCACTTAGGAGATAACATTTTTTCAAACATTTGACATCCAAAATTTTGGAAACATTCAATTTGTAAAGTATAAAACATAGAGAAGGCTCATTTTTGACAGTGGAAATTCTAGTACATACAGAACTATAAAAAATGAACCATGCCTCTCCTTTTCTAATTAAG
Seq C2 exon
GTTTGGAGTCTGTCTGATTGGTGTTAGAAAGGAAGATAACAAAAACATTTTGCTGAATCCAGGTCCTCGGTATATCATGAGTTCTACAGATATATGCTTTTATATAAATATCACCAAAGAAGAGAATTCTGCTTTCAAGAAGCAAGAAAAACACAGAAAAAGACATGAATCAAAGTTGTCTTATCATGGAGCTTCTAGGTTGCCTGTACACAGTATAATAGCCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002451:ENSGALT00000003864:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(40.0=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(7.2=11.5)
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:
CAGCAATCATCAGAACAATGGCA
R:
ACAGGCAACCTAGAAGCTCCA
Band lengths:
350-1408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]