GgaINT0124511 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6849698-6850210:+
Coord C1 exon
chr17:6849698-6849841
Coord A exon
chr17:6849842-6850103
Coord C2 exon
chr17:6850104-6850210
Length
262 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CTGTGTCTCTTGTGTTTCAGTTT
3' ss Score
11.1
Exon sequences
Seq C1 exon
GCTTGGACAGACCTTTGACAGGATGTTGGGATTTCTGAAGAACCCAGTTGTGGTTACTGCAGAGATAAATCTCAACCTTGTGGTGCTGACTGTCATGGGATTAATAAGCCGTCTATGGGGGCTTTCCTATCCACGTGCTGTTGT
Seq A exon
GTGAGTAGAATAGTTTCGTTCCTACTAGAGCAACACAAACTTTTATTTTTTAAGCATTTGTGGGTAAGAATAAGGGGATGAGAGAGCAGAGGATGTCTCTGTAATAAAACCCCGAAGGGGAAGATAAAGGGTCCAAAGCTGCCACACTGTGTTGTATCGTTAGCTTTCTGCTAATGTTATCAGTGTTTCCTTCTCTAGTCTTTCTGTAGCCAGCAGGGTCCCTGTAATTAGACTTGATGTGTCTGTGTCTCTTGTGTTTCAG
Seq C2 exon
TTTTGATGAAGTTTATTACGGCCAATTTGTTTCCCTCTACATGAAGAGAATCTTCTTTGTGGATGACAGCGGCCCACCGCTTGGCCATATGCTGCTGGCTTTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0236613=PMT=PU(8.5=51.2)
A:
NA
C2:
PF0236613=PMT=FE(14.5=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:
GCTTGGACAGACCTTTGACAG
R:
CAGCATATGGCCAAGCGGTG
Band lengths:
238-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]