GgaINT0124513 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6850810-6851357:+
Coord C1 exon
chr17:6850810-6850860
Coord A exon
chr17:6850861-6851210
Coord C2 exon
chr17:6851211-6851357
Length
350 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAA
5' ss Score
4.78
3' ss Seq
ACTGTTCTCTGTGATTTCAGAAT
3' ss Score
7.97
Exon sequences
Seq C1 exon
GTTACTTAGGAGGATTTGATGGAAACTTCTTATGGAACAGGATTGGAGCTG
Seq A exon
GTAAAAACTGATCTTCACTGTCTCATTCTTTTGGGAAAAAGGTTGTATTTCAGCAGCTGACATTCCTTTTGCCTGACTAGTGGAAAAAATGTTTTATCTGACACCTTCAGTTCTCCTCTGAAGTAAATCGTCTTCAAGTCTCTAACAGGAATTTAAGATATTATGTTGCTATAGCAACAACTTTTAAAATCAGTTAAAACAGTTTAAGCAATACAAGCCTGCCAATAAGGTGCTAAAAGCAGAAGTTAAATTCAACAACTCATTGAGTGTAGTTGTAGTTGTATTGATCTGGCTTATCTGCAATTAACATCTCCCATAGCTGTGTGTGTAACTGTTCTCTGTGATTTCAG
Seq C2 exon
AATACAGCATGAACGTTCCTGTGTGGTCCTTGCGGTTCCTGCCAGCACTGGCTGGTGCTCTCTGCATCCCCTTAGCATACCAGATTTTGGTAGAGCTGCAGTTCTCCCACTGTGCTGCGCTTGGAGCTGCTCTTCTGATTCTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:5
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=0.000
Domain overlap (PFAM):
C1:
PF0236613=PMT=FE(6.9=100)
A:
NA
C2:
PF0236613=PMT=FE(19.8=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:
GTTACTTAGGAGGATTTGATGGAAAC
R:
CTAAGAGAATCAGAAGAGCAGCTCC
Band lengths:
198-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]