GgaINT0124518 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6854331-6855226:+
Coord C1 exon
chr17:6854331-6854486
Coord A exon
chr17:6854487-6855095
Coord C2 exon
chr17:6855096-6855226
Length
609 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CCTGTCATTATGCTTCCCAGGGT
3' ss Score
6.51
Exon sequences
Seq C1 exon
GTTTCCTTGGTGTGCCATTTTCTGGCTAGGGGACTGACCCTCCTCGTCATCCCAGTGGCCATGTACCTGTCCTTCTTCTTTGTGCACTTGACTTTGCTGTATCGCTCTGGGCCTCATGACCAGATTATGACAAGTGCTTTCCAAGCCAGCTTAGAG
Seq A exon
GTAAGGGAAATGTCCTCATGAAGCAGATTCCCTAGGGGAGAAGGGGAGGAAATGTTTCTTGTGTTCACTGTTAGAAGAAAGGTCTGCGTTCTTGTTCCTTTGATCCCACATATTTGTTCCCTTTATGTCATTTTATTACTTTGCTGCTGTGGTATGGCTTTAAGTTAAAAAAAAATGAGGACTGAAATCCTAATAGCAGATGAAAGGCTTCACTCTTAGGCTGAAGATCTATCCCTTCCTACAGGAAACTCTGCAGTGGTTGATACAGTGCTGAACTCTTAATTGAGTTCGTGTCTTAAGCGTAAGGTTAAAATGCAGGATGATAGTCTGAGCTTCTATAGAAAAGTACTTTGTCTATTGAAATAGCATGAAGCAGCAAGGAATATTCCATAAGATCCTATTACAGGCTTTCGTGTATTTACTTTCTCCTGAAAATGGTGCAAGATGTGATTTTTGTAGATAACATCAGATGAGAAAGCATTGTGCTAGGATACTGCTGTGTTAAAGTGACAAGTGACTCTAAATAGTGTTTGAACAGCCTCTAAAGGCTGTTCAAAACAAAAGGTTGTTTCTTTTTATTTCCACTTATCCTGTCATTATGCTTCCCAG
Seq C2 exon
GGTGGGCTGGCTCGAATCACTCAGGGCCAGCCCTTAGAGGTGGCCTATGGCTCTCAGATTACTCTGCGGAACGTGCTGGGCAAGCCCATGCAGTGTTGGCTCCATTCTCACACGAATACTTACCCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:10
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=PD(13.3=63.5)
A:
NA
C2:
PF0281514=MIR=PU(6.2=25.0)
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:
GTTTCCTTGGTGTGCCATTTTCT
R:
TGATGGGGTAAGTATTCGTGTGA
Band lengths:
286-895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]