GgaINT0124520 @ galGal3
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
NA
Coordinates
chr17:6855460-6856967:+
Coord C1 exon
chr17:6855460-6855555
Coord A exon
chr17:6855556-6856874
Coord C2 exon
chr17:6856875-6856967
Length
1319 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CTCATGTGTTACTGCACCAGGCA
3' ss Score
5.3
Exon sequences
Seq C1 exon
GTATGAGAATGGCCGAGGGAGTTCCCATCAGCAACAGGTGACCTGTTATCCCTTTAAGGATGTGAACAACTGGTGGATTGTCAAAGATCCTGGAAT
Seq A exon
GTGAGTATGCAAAAGATGTAGATACCAAACTGCTTCAAGCGTGGCTTTGATATAGAGGCCATATGTGATCATGAGCAATCAATTTCAGCTGCAGAGCTGGTGAAGGTGGCTGTTTGCACGGTGCTCCTACAGGGTAGAAGCATTACTGAGGACTTAGAAATTCTGTCTGAACTGCATCTGCCCAATTTGTGGGTTGTGCTATGCATAAGGGGAACTTTAAAGAGTTATGAGACTGATGGGAGCTGTTCAGGTGCTTTGCATGAAAGTGGAATTCTGCTTTTTGAAGTGTGTGAGCCGTGGCATTTAGAGTGTTTTGATGAGTTCTATCAAACTTGAATGGGTCTCAGAAGACAGTAGAAATCATTTCTGCGGAATGAGTATTTCTTTGTACTGAAAATGTGGGGTGAGCTTCAGAACCTGCCTTATCAGGAGGGATTGCAAATGGATGTCTGAGCTTGAGAGGGCTTGGTTTGTGCTAAAGCATTTTGCCATTGTCACTGTCAGTGAAGGGCAGGGCTCTTTGTTTTTGCAGCTCTGCCTCTGAAAGCCCTTGTGTCATATCATTGCATACTGCATGATCAAAAAGTTGCTTTTGTAGGTTTCCTATGTTGCTCTGGGAACTGTATAAACAGTTCTACCCAAAGGACTGTGTGCCATTATAAATCGTATCTACAGTGGGGAAGTCTGTCAGTAGTGCAAAGCTTTCAAGTGGGGACTCTAACAGAATCTTTGTGAGAAGCACAGATACCCAGTATCTACCTAAATTTCCTCAAATTGCCTGGGAGGATGTGAAGTTCTGCTGTAGAACAACAAAGTACAGGCAGCAGTTGGGTGAACTGAGGAGTTCCTCCTTGCCAAAACATGTGTTAGCCCTGTCCAGAAGATAAGAGTTTGGTCTCCGTGGTGGAAATGATAGCCATTGATCTCTGTTGTGGTCCTGCCAACAGTGACATCAGTTGTAGTAACAACGCCTGCCAGACTTCTGAAGCACTTACAGTTCAAAGAAGCCACCCAACAGCTGCAGTGTGGGAATAATCTGAACTTGTTTCTGACTGACCTGAATTCGGACCACTGACTTAATGGCTGGGGTGTTGGTATCCCATTGCCAATCCCCTGAGTCATTCTGCCCTTAATTTGCCTCTGCCTCGATGAGCTTTCTTTCCATTCTGGTGTATTCTGTAGATTACTTGGTTTTCCTATCTTAATGCCGACATATCTGTCCCTACTGCAGCATCTTGACCTAACAGTTTGCTCATGACAGGGTTGCATAATTCAGAAAAAAGAATGTGACCACTTCCTCTCATGTGTTACTGCACCAG
Seq C2 exon
GCAGCAGCTGGTGGTGAGTAACCCACCCCGTCCTGTCAGGCATGGGCACATTGTGCAGCTGGTCCACGGCATCACAACTCGGTACCTCAACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005965:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(18.2=100)
A:
NA
C2:
PF0281514=MIR=FE(17.6=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:
ATGAGAATGGCCGAGGGAGTT
R:
GAGGTACCGAGTTGTGATGCC
Band lengths:
182-1501
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]