GgaINT1020336 @ galGal4
Intron Retention
Gene
ENSGALG00000004767 | ODF2
Description
outer dense fiber protein 2 [Source:RefSeq peptide;Acc:NP_001012817]
Coordinates
chr17:5124446-5125597:+
Coord C1 exon
chr17:5124446-5124604
Coord A exon
chr17:5124605-5125496
Coord C2 exon
chr17:5125497-5125597
Length
892 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CTAATGGCTGTAATTTTTAGATT
3' ss Score
6.68
Exon sequences
Seq C1 exon
GCCCGCAAGCAGTTCCAGAGCCAGCTTGCCGAGTTGGAAAAGCTGCCTGAGATCCTGAGGATCACAGAGACACAGTTGGCAGAATGTCAGGACCAGCTTCAGAGCTATGAGAAGAAGAACATGGACCTGTCTGTCATGATTGCAGATCTTCGTCAGCGG
Seq A exon
GTAAGGGACTGGCAGAGGGCTCCTGCAACGCAGCATCTCTGAGTCTGAGACCAAGATGAATTTCTAATCACAGGAAGGTTCAAACTGCTCCGTCTCTGTTCTTGTCTCTTGTTGAAAAGATTAAACGTGCACTGCAAAATAAAGGTGTGTGCCATGTCTTTGTGCAAGAAGCTAGCAGCATAGCTACCAGCGTTCCTTACTGTTCAAAAGGTTTCTGATCCCTTGGTGCAGAACCATAATGGGACCTGAACAGCAGCAGTGACAACACTTGCAGATGTCAACGCTCCCTTCTGTTACTTCCATCATCTTGTTGGCTTTCCCTCCTGTGGTCTTCTGCTTATAATGCTGTCCCAACCTTGTTTTCTCACCTTCATCTCAGGTTGTTTTCCCAGTGCCTGTTTTATGTTCCCAGGAGCACTGTGTAGGTGTTTGAGGACAATTGTAGACAGGCAGGACGTCTCCAGTCGTGCCTCAGGACGCAGCAAATAATCTTATAGTCTTGACAGCTTTACTCTGCTTGGCTTGGAATGGTAAACCTTCCTCGTGTTTAAGTCTGTGGTGTCTCTGTGGGCTCCTGTCAGGTATGTGGCTGTTCTTACTGTGTGTGCTTTGCTGTACTTAGAGGTGTCTGCTCTGCATGCAAGCTTTTACCAACCTGGCTTTCCCTTTGAAGTATTGAAGAACGGTCTCACACCTATCTAAGCATTATCTGGAAGCTCCAACAAAATGGATGCTTTGTGTGCTCAGAGCTTTGCCTTTTATCCACTGTTCCTTTTCCAGGACTCTCCAGAAATAGGAATTGAACATTTCCTTCTGGAGAGCGTTTTAGGTGGTTGGTCGTGTGTGTGTGTAGTGACTGTTCTGTAAAGTAACTAATGGCTGTAATTTTTAG
Seq C2 exon
ATTGAGCTCCAGGGGGACAAAATGGAGATGACAAGAGAGAGGTATCAGTCTGCCCAGGAGGAGAAAAAGCAGCTCACCTTGAAGGCGGAGGAGCTAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004767:ENSGALT00000007603:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.765
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCAGTTCCAGAGCCAGC
R:
TTTCTAGCTCCTCCGCCTTCA
Band lengths:
254-1146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]