GgaINT0124519 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6855096-6855555:+
Coord C1 exon
chr17:6855096-6855226
Coord A exon
chr17:6855227-6855459
Coord C2 exon
chr17:6855460-6855555
Length
233 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTTTAATACTTCTGTAAAGGTA
3' ss Score
5.76
Exon sequences
Seq C1 exon
GGTGGGCTGGCTCGAATCACTCAGGGCCAGCCCTTAGAGGTGGCCTATGGCTCTCAGATTACTCTGCGGAACGTGCTGGGCAAGCCCATGCAGTGTTGGCTCCATTCTCACACGAATACTTACCCCATCAG
Seq A exon
GTGAGAAATCTGGTTGGTTCTGTATTGTTAGGGTAAAAGTATGCTCTGGTTCTATCTCAGTTTGGGTCCTGGCAGTCTCTTCATTAAGTCTTTAGAGAACACTACGAATGCATGGCTTCTCTGTGCTCTATAGGGGTGGAGCCAGTGGTCTGGTGCTGGTTTGTATTGCATTGACTGTGGAGCACAGAAATGTGCTGTTACATACCTGTTTTTTTTTTAATACTTCTGTAAAG
Seq C2 exon
GTATGAGAATGGCCGAGGGAGTTCCCATCAGCAACAGGTGACCTGTTATCCCTTTAAGGATGTGAACAACTGGTGGATTGTCAAAGATCCTGGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:11
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=0.121
Domain overlap (PFAM):
C1:
PF0281514=MIR=PU(6.2=25.0)
A:
NA
C2:
PF0281514=MIR=FE(18.2=100)
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:
GGCTGGCTCGAATCACTCAG
R:
CCAGGATCTTTGACAATCCACCA
Band lengths:
220-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]