GgaINT0038234 @ galGal3
Intron Retention
Gene
ENSGALG00000002451 | KCNT2
Description
NA
Coordinates
chr8:2790913-2792350:+
Coord C1 exon
chr8:2790913-2791062
Coord A exon
chr8:2791063-2792120
Coord C2 exon
chr8:2792121-2792350
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:ENSGALT00000003864:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(47.2=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.5=18.8)
Main Inclusion Isoform:
NA
Other Inclusion 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]