GgaINT0140182 @ galGal3
Intron Retention
Description
NA
Coordinates
chr25:1821676-1822430:+
Coord C1 exon
chr25:1821676-1821899
Coord A exon
chr25:1821900-1822242
Coord C2 exon
chr25:1822243-1822430
Length
343 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TTTCTTTCTTCCCACCCCAGAGA
3' ss Score
9.25
Exon sequences
Seq C1 exon
GGTGCAGCAGAAATGGATTCCCAGGACATCAAAGAGCTGCAACAAGAAGTGATGGAGGAGATGGGAATCTCCATGGAGGAGCTGCAGGACATCATCAACGAGGAGCTGGAGAAGTCTGAGTACGTGAAGCAGAAGAAGCAGCAGCTGGAGGAGCTGGAGAAGTACGTGAAACAGAAGGAGGAAGAGGTGGCTCACGTTGACCGTCTCTTTGATGATGCTTGGAG
Seq A exon
GTGGGTGCACTTGGAATTGTGGTTACGCGTCTGCGTTGGGTCTCAGAGAGCAGAGATGGGGCAGATTGGGTGGCAAAGTCTGATGTTCAAAGCCTATTTCCCTTCCGTGTAGATTGACGCCGTGCTGATTGACTTGTATGTGGTTACTGAGGTATAATTAAAATGGCCGCCCTGTGGCTTTGAATCCCTCTTGTGAATACTTCTCCCTCACCTCACGATGGCTGTGTTTAATTGCCATCTCCCCAATGGTTCCTGTTTCTTTCAGCCACGCCGTGGGATATACGTCCGGACTCACTTCGTCTTTTCATGTCTCTCCCTCTCTCTTTCTTTCTTCCCACCCCAG
Seq C2 exon
AGACTTTGATAAATGTGAGATGTTGGTAAAGGATCTGTACTCCAAGCTGGGCCTCGAGTACCGTGAGAGCAGCTCTGAGGAGGAGGACTTGGCTGCCAAACCCACAGAAGTGATTGAGATCCCGGATGACGACGACGACGACGTCATGAGTATCGATTTGGGATGGAAGAACAGTTCAGTATCTGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024051:ENSGALT00000040574:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.359
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:
GTGCAGCAGAAATGGATTCCC
R:
CGTCGTCATCCGGGATCTCAA
Band lengths:
357-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]