GgaINT0126670 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:9067350-9067925:+
Coord C1 exon
chr17:9067350-9067489
Coord A exon
chr17:9067490-9067747
Coord C2 exon
chr17:9067748-9067925
Length
258 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
ACACATCTTTTTTTCCTTAGGCC
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTAACAAGGATGAAATTGACAACTTACAAGAAGAAATTGCAGCACTCAGAAGTGCACTCTCATACCAGAATGATTACATCACCAATATAGCAGATCCACTGAAAAGAAGAGGATACTGGTATTATATGCCACCATCACAG
Seq A exon
GTCAGAAATTCAAATCCTGTTATGCGGACAGCAATTTGTTATGGGGAAATTCCATATATATGAATTTATGAGTAATATTGTTATATTCTATTATCTCTTTAAAGAAAAAATGCTTTAAAATGAAAGAAGACAGAGTATGTATAACCTGTTCTTGAAAAACATCAGTGCTTTAGAAAGTCTACTATTATTATGTTATTTTACTTTATTTGTTATTTCTATAATAAAGCATCTAATAATAACACATCTTTTTTTCCTTAG
Seq C2 exon
GCCTCAACCCCTGCCTCCCACAGCACAAAAGATTCTGGAGTTGGTTTACAATATCCTGGCACATCCCCACCCAGAAGAGGGTGTAGTCAGGTCAGGAAGGAAGACTTACCCAGGTCAAGAGGGTGCTGGGTTTATTCACCAGTCAGAAATAGGTTACACAAAACAAATCTTGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001513:ENSGALT00000002299:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.717
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGGATGAAATTGACAACTTACA
R:
TGTGTAACCTATTTCTGACTGGTGA
Band lengths:
297-555
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]