GgaINT1020513 @ galGal4
Intron Retention
Gene
ENSGALG00000005318 | OVCH2
Description
ovochymase 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:29970]
Coordinates
chr5:6858172-6859368:-
Coord C1 exon
chr5:6859200-6859368
Coord A exon
chr5:6858750-6859199
Coord C2 exon
chr5:6858172-6858749
Length
450 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGT
5' ss Score
9.45
3' ss Seq
TTGCTTTTTTCTCTTTGTAGATC
3' ss Score
11.55
Exon sequences
Seq C1 exon
GGTGATTCTGGTGGCCCATTAGTTTGTCCTTCAGAAGATGGCTCAGGATTTTACACCCTTCATGGCATCACTAGCTGGGGCTTGGGCTGCGGAAGAAAGAGCTACCCGGGAGTATACACAAATGTTGGTGTTTTTGTGGACTGGATCAAGCAGAGCATTAACAGTAGCG
Seq A exon
GTATGTATGGAAGCAAGCCAAAACAATTAAGCAAATCTTTTGGCTATTGCTAAATACTTTGAGGGTATCATTATTATTTATTCAAGGATACCGTTTTTATAGTTGGTGTGTCTAACACTCCCTGAAATTTAAGCTGTTTAAAGTATGTCTGGTGAGTGCTCGGAAGCAGGTGAATCTAAATCAGCAGTCACTTCTGAACACTTCATTGGTGTGTTGTTATTCATGTCTTTGTGTTTCTCCTTCTGAAGAATAGGGCTTTTCTATGGAAATCATTCTATGATTTTTCATTACTCCTGCTTTGCTGCCACGTTTCTTAAGGCTAGCAAAGGTGAGGAGGTGTGAAATGACACGTGACAACAGTGAGTCCGCTTTGGTAAGATTACTGACAGCCTTTGATGATCTTTGCAACATTTATCTCGGCTTTTTTTGTTTGCTTTTTTCTCTTTGTAG
Seq C2 exon
ATCTGCCCATTTTCTTGGTGTAACTGTCAGAAGAGCACTTCTGATGGACTACATTGTAGAACACTTCCGAAGTACAAATGTCACTAAAAGCAAAATGTGGTGAGAGCGTATTAGTTTGTGACTGCTGAAGAGATCATAGAGTAGCTGATGCTTACCTTGATTAATTTACTGCTTGTTTTCCTGAATTGAGACTTCAACCTTACGTGTGTGTCCTTGGGATATACATAAGTTACTTACAGGTTTCTGACACTGTTAATTTATACTAGAAGGAAGGATAGGTCACCACATACTGTATGTCAAGCATGCACTCAAATGCAGCACTGGAGAAAACAAAAAATTCCATGCAAAATAAGCATGTATGTTAAACAACTGAAGTCAGTTATCTTTCCATAAGGTCAATGAGAGTGTTGGCTCTGGCTCTGAGGGGACCTCAGCAGTGGCAGTACATCTGTAAGGATCGAAAGAACACCATCTAGTGATTCATCATGTAAATCAATCTAACTGCTTGGAAAATAGTATTTTAATATGTACAAATGATGGTCCTTGTAAGCCTGATTTGTGTGCCTATTATTAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.5=84.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTGGATCAAGCAGAGCA
R:
TCCAGTGCTGCATTTGAGTGC
Band lengths:
358-808
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]