GgaINT0055932 @ galGal4
Intron Retention
Gene
ENSGALG00000005318 | OVCH2
Description
ovochymase 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:29970]
Coordinates
chr5:6865734-6866415:-
Coord C1 exon
chr5:6866282-6866415
Coord A exon
chr5:6865875-6866281
Coord C2 exon
chr5:6865734-6865874
Length
407 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCTCTGAAATGTTGTTTCAGGGA
3' ss Score
8.37
Exon sequences
Seq C1 exon
ATTGTGCATATGGACTCTGTTTGTACCAGAAGGGAATTATATATTGCTTCATTTTTCCCACTTTGATATAGAGCCAGAAACATTTTGTGACTATGATTCTTTATCAGTCTATTCAAAAGACAACAGACTTGTTG
Seq A exon
GTGAGTTGCTGTCCTTTTGTTCTATAAAATAATGTCAGTGTATCCTTTCAGTCTATCAGCAGTTGAACACAGAGAGAACATTTCAGTTGATGACGTTTTACTCATGTTTTCACGATAGGATTCACTGAGACGTGGTCTAAGCTGAAAGATGAGAGATTGGAAGGGGGAAAAGAATGGTCAAATGCCTGTTGGGGAACTGTGTCAGCAAATGAATTGCTGATGTCAAGGATTTCTAAATGTGCACCTTTTATTTGAGCTATCAGATTAATAGATTATAGGGAGGAATAGAAAGGCGATTTCTTTTTCAGCTATAAATTTTATAAGCGAGTGCTAGGAATTGTAGAGCAGAGTTTCCTCAAATGATGGAGGACTTTAAACAGTGATTATTCTCTGAAATGTTGTTTCAG
Seq C2 exon
GGAAATTCTGTGGAGGAGATCTTCCATTACCTATTTTGATTGGGTCCAATAATATAAGGCTGAAATTTGTTTCTGACAACAAGGATTATGGAACTGGTTTTTCTATGACTTATAAAGCTCTTACAACAGGTATTCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:11
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:
PF0043115=CUB=FE(40.5=100)
A:
NA
C2:
PF0043115=CUB=PD(33.3=77.1)
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:
TGCATATGGACTCTGTTTGTACCA
R:
CAGGAAGAATACCTGTTGTAAGAGCT
Band lengths:
271-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]