GgaINT0055923 @ galGal4
Intron Retention
Gene
ENSGALG00000005318 | OVCH2
Description
ovochymase 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:29970]
Coordinates
chr5:6871989-6872958:-
Coord C1 exon
chr5:6872849-6872958
Coord A exon
chr5:6872081-6872848
Coord C2 exon
chr5:6871989-6872080
Length
768 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
CATCTTCTTATGTGAAACAGGTT
3' ss Score
6.36
Exon sequences
Seq C1 exon
ATCCTAAGTGCGGGCAGAAAGTTCATGAGACAAAACCATGGAGTTACTTCAACCTTTTCACTCGGATTGTTGGAGGGAACCAGGTGAAACAAGGCTCACATCCATGGCAG
Seq A exon
GTTTGCACAAGCAAATGTGGTTTTATCTTCAGAACAAAGTCCTTCTTTTTTTTTGTTTTTACAGAAATGAGAAAAGAAGAAAACCGTTATACTTTGTACATATTTCCACTTAGAATGTATCATTGAGCTGCGCTCTGTTTTTATAGAACTTGGGAGCAGACAGAGAGCATATAGATCTGTTATGCTCTATGACAAGCCTTTGCTTATCATTTATTATTTTATCATTAGTTCTGAAAAGAGTGTGTTTAGATTAGTCAGTGTAAAGAGGCATGAGCTGAAGAACGCTGAAGAACACTTCAGCACCCCAACCATTGTCTAGGATCACAGACTTGCAGTTTGGAAGATGAGATACCTCGTGGTGCTTGGTGTTTTAAGCTTAAAAACAAACCGGATAAAGACTGTGGTATAGATGTCAAAGACTCTCTCATGCTCTGTTTTGCCCAGTGACCTACAAAGGAAAAATTCTATACTTACCAGTAACCTTCACACAATCTTGAGTAGTTCAGTGAATTGGTATTTATTATATGTATGTTGCTTTTATCCAGGTATGAAGTCACAACCAAGGGGAACAGCAAGGTTTAGGATCACTTATGCTCAAGGAACATAATGCCATGAAAATCTGTTTGACTGAAGTGCTGCATGAACCTTAGCTATGTGAATCTTTAAAGAATACCTGTGTACATAACTCTGCCCTTTCTTCCTCAAGTACAGTCAGAGCAGATATAAAGATCTTATGCATTTAACATGTCATCTTCTTATGTGAAACAG
Seq C2 exon
GTTTCCTTAAAACGAAGAGAAAAGCATTTCTGTGGAGGCACCATTGTTTCTGCTCAGTGGGTGGTCACGGCAGCTCACTGTGTCTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(5.7=37.8)
A:
NA
C2:
PF0008921=Trypsin=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTAAGTGCGGGCAGAAAGTT
R:
GTCTGAGACACAGTGAGCTGC
Band lengths:
198-966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]