GgaINT0124514 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6851211-6851860:+
Coord C1 exon
chr17:6851211-6851357
Coord A exon
chr17:6851358-6851748
Coord C2 exon
chr17:6851749-6851860
Length
391 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GTCTGTCTCTTTTCTGGCAGAGA
3' ss Score
8.81
Exon sequences
Seq C1 exon
AATACAGCATGAACGTTCCTGTGTGGTCCTTGCGGTTCCTGCCAGCACTGGCTGGTGCTCTCTGCATCCCCTTAGCATACCAGATTTTGGTAGAGCTGCAGTTCTCCCACTGTGCTGCGCTTGGAGCTGCTCTTCTGATTCTCTTAG
Seq A exon
GTAAGTTTGTTCCCCCGGGCCCTGTTCTTCATACAGGGAGAGAGTAGTCAGTTTTCCCTTCTGAAATTGTAGAGCGTATAAAAGGAGTGCTGCCTTGACTGTTGTTACCTTTACAGGCACCTGTCTGAGTCTCACAGCACTGATTTCTTTGCCTCTTGTAGGCAAACACAGCAGCTTTCTCTGCCTCTTGGCAGTCTTTGGAGACACTGCCCACATACTTTGCTCATACTGGAAAGTTCTTGTTCCTTTAAACCCAGCACCCCTGTATTGTAGCCAGTAGGACTGCGTGTGAGTTGGCTGTCCTGAAAGGGGCAGGCAGGTCCTTCTGCTGTGTAATGATGTGATTGTTTGAGGTGCTTTTCTAATGTTGTGTCTGTCTCTTTTCTGGCAG
Seq C2 exon
AGAACTCTCTGATCACTCAGTCAAGGTTCATGCTTCTGGAATCCATATTGATTTTTTTTATCCTGCTTGCAGTTTTGTCCTACCTGAAGTTCTACAATTTGCAGAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:6
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(19.8=100)
A:
NA
C2:
PF0236613=PMT=FE(14.9=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:
TACAGCATGAACGTTCCTGTGT
R:
TGCCTCTGCAAATTGTAGAACT
Band lengths:
254-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]