GgaINT0140182 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:H9L3I9]
Coordinates
chr25:1732709-1733422:+
Coord C1 exon
chr25:1732709-1732922
Coord A exon
chr25:1732923-1733265
Coord C2 exon
chr25:1733266-1733422
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
AAATGGATTCCCAGGACATCAAAGAGCTGCAACAAGAAGTGATGGAGGAGATGGGAATCTCCATGGAGGAGCTGCAGGACATCATCAACGAGGAGCTGGAGAAGTCTGAGTACGTGAAGCAGAAGAAGCAGCAGCTGGAGGAGCTGGAGAAGTACGTGAAACAGAAGGAGGAAGAGGTGGCTCACGTTGACCGTCTCTTTGATGATGCTTGGAG
Seq A exon
GTGGGTGCACTTGGAATTGTGGTTACGCGTCTGCGTTGGGTCTCAGAGAGCAGAGATGGGGCAGATTGGGTGGCAAAGTCTGATGTTCAAAGCCTATTTCCCTTCCGTGTAGATTGACGCCGTGCTGATTGACTTGTATGTGGTTACTGAGGTATAATTAAAATGGCCGCCCTGTGGCTTTGAATCCCTCTTGTGAATACTTCTCCCTCACCTCACGATGGCTGTGTTTAATTGCCATCTCCCCAATGGTTCCTGTTTCTTTCAGCCACGCCGTGGGATATACGTCCGGACTCACTTCGTCTTTTCATGTCTCTCCCTCTCTCTTTCTTTCTTCCCACCCCAG
Seq C2 exon
AGACTTTGATAAATGTGAGATGTTGGTAAAGGATCTGTACTCCAAGCTGGGCCTCGAGTACCGTGAGAGCAGCTCTGAGGAGGAGGACTTGGCTGCCAAACCCACAGAAGTGATTGAGATCCCGGATGACGACGACGACGACGTCATGAGTATCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024051:ENSGALT00000040574:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.376 A=NA C2=0.547
Domain overlap (PFAM):
C1:
PF098244=ArsR=WD(100=95.8),PF126432=MazG-like=WD(100=63.4)
A:
NA
C2:
NO
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:
CCCAGGACATCAAAGAGCTGC
R:
CGTCGTCGTCGTCGTCATC
Band lengths:
348-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]