GgaINT0038243 @ galGal3
Intron Retention
Gene
ENSGALG00000002451 | KCNT2
Description
NA
Coordinates
chr8:2810863-2812530:+
Coord C1 exon
chr8:2810863-2810946
Coord A exon
chr8:2810947-2812401
Coord C2 exon
chr8:2812402-2812530
Length
1455 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TCCTATTATTATTTGTTCAGATG
3' ss Score
6.66
Exon sequences
Seq C1 exon
TCATTTGTGAAAGATTATATGATCTCTATCACAAGACTTCTTCTGGGACTTGATACAACACCAGGATCTGGGTTTCTTTGTTCA
Seq A exon
GTAAGTTTTAAAAAAGTATATTTACTATTATTACAAAGCAACAGAGAATGTTCCATATGGTCTGCAAAACACTGCTACTTTCTTAGTAGAAGTTTCATTTGTTGAATACCAAGAAAGGCCATCTGTTTCCTTTTTCAGCGGGGGGAAAAAGAACAACAGGAAATTGGGTAGAAAATATGCATAATTTTAGTTATTTCAAAAAACAAACAAACAAAAAGCAAACAAAAAAACAACCACCAAACAATCCAATCCTCCCCACCCCAAAAAACACAATGCATACTCTGAAGCATAAAGAAGCATGGGAAATACAGAGAAACACAAGAAAAGTGCAAGTTTGTTTGTTGTTACTGTTTTAATAGATGTGTATGGCAGTTCAGTAACCAATTTCACTAACCAAACAAGGGCTTCTCCAAAAGTAATGTCTCCTATTTATTATTTTGCTCATGGTATCAGAGGCAGACATTGGTGGTAGCTAATAGCTGTGATTGTATTGAAAAATGGTGTTTTGTAGCTGAGAATTTGCTCTATCAAATAATGTTATTGTGCTCTTTGTACCTGTTTTAGTTTTAATGGAAATAAATAGAAGGTATTACTTTCAGAACAACCTACGTGTATCAAAAACAAGAAACTCTTCCTGTATAGTACATCCTGACTATTCCTAATGCTATTTTACAACTTTTTGCATCATAGGTAATGGAGGGCAAAATTGAATTTTACATACCCATCAACCACAGTAGCAAAGATACAAGTAGAAGTTGAGCCATTTGCCAGTTGCTTTCTAGTGAAGTATAAAGCATTATAGGTTGTTGCTCTCAAAAATGAAGTTATCTTTGCTCTAATTAATATTGCCTGAGGAAGTTTGTTTTTAAGAAAACCACTTCAGAATTTGTTGATCAATCATTAACTTAGTTTCAGTGAATGTCAGCCTGCTGTATCTCTGAAAAGAGGCTTGCATATCTTGAAATAAAGCTCATGTAAACCATTAGTTATTTGAAATTCATTTAAGAAATCATTCTTACACATTTATGTTTAGCATGTTGCCTTCATCCCTTCTCCCAAATACTCCGCCTGCAGCATAAAGTACAGTTATCTGGACGCATTCAAAATATGTGCTGGTTCTTCAGTCTATCACCAAGTTCTTAGTACCGCTAATACTTAGTTCATCCTTTTACATTTTACTTAGATATGTATGAAGTTTTTGAGTAACTTTAAAACTAAGACAGGTCATTCCATCAGAGCGAACCATTTGCACTGCAGTGTCTCCCAAACAGAGAACAAGGGAACAGTGTTTAGAAACTCTAGAAATTTCAGGTTTATTGTGGATGAAAGGTGCAATGCTGCAGTATGATCATTATCAGCTAGCACTTAGTTTCAAAAAAAATTTCAAGAGTAGTATAATGAACAAGAGGTAAGCCCTCATGAGTTTAAGTTTTCTTCCTATTATTATTTGTTCAG
Seq C2 exon
ATGAAAATCACAGAAGAGGATTTATGGATTAGAACATATGCCAGACTATATCAGAAACTTTGTTCTTCTACAGGAGACATTCCAATTGGAGTCTACAGGACAGAATCCCAAAAGCTTACAACGTCCGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002451:ENSGALT00000003864:24
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=0.014
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF149431=MRP-S26=FE(41.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTATCACAAGACTTCTTCTGGGA
R:
TCGGACGTTGTAAGCTTTTGGG
Band lengths:
190-1645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]