GgaINT0044674 @ galGal3
Intron Retention
Gene
ENSGALG00000004345 | OIT3
Description
NA
Coordinates
chr6:12313707-12315910:-
Coord C1 exon
chr6:12315811-12315910
Coord A exon
chr6:12314432-12315810
Coord C2 exon
chr6:12313707-12314431
Length
1379 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
AATGCCTGCTGTCTCTCCAGGAA
3' ss Score
10.75
Exon sequences
Seq C1 exon
CTGCGTTTCTGATGATTCAGTGAAACAGTACACGTCAAAAGACCATCTTGCCAAGCATTTCCAGGTTCCTGTGTTCAAGTTTGTGGGCAAAGACAACAAG
Seq A exon
GTAAGCTTAAAACCCGCCTCTCTGATATTGCATCATCCCTGATCTGACTGAGTAGTCTCAGCACAGAACCAGCTGTGTGAGAGCACCAGCAGGAGGCCCACGGCAGGTTCTGCTGTGCCTGTTCCAGCTGCTGTTTCTTTCAGGAGCCTGGAACGGGTTCTTTAAAAGAGAGTAATGAAAACGAGTGAAATTAAACTAAATACAAAGGACAGTCATGGAGCATCAGTAGTATAGCTGGCTAAAATAGTGTTTTTCCAGTACAGTGTTTGGTGTCCCTCAGATGTTGGAAAACAGTTTGTGTTTCCAGTCACCAAGCAGAAATCTGGGAAGTTAGCTACCTTGCACAGTGTCCTGTCTTTAAAACAAAATGATTTATGGTTTTCAATGTCATCAACTTCCTCTAGCGTGTTTGAACAGATGCCCTTCAGTTTTCTAGATAGGAGGTTTCCAGATACCACTGAACTCAGTGTGAAACCAGGCTGTCCAGGCTGGTGGCAGTTTGGAGCAGAAGCTCTCTAGTAGCAGGACAGCTGAAAGGATAATGCCATCTTCCTAATGCAAATAGCTTTCCTTTTCTGTGCCAGAAGAAACCAGATCTTTCAATACCTGCTATGCTTGGCCAACGCTGCTTGGTCCTAAAGGCATGAAGTTGCCTCTCCAGCCCCTGCAGAACCTCACTGTGGTTACAAAGAATGAGATCTTCCAAAATTCACAGATTTTGCTCAGACATCTGTTTGACACTGCTGCCTCCATGTGCATCCTCCTGTAAAATTGATTTTGCTTTAAACCTCACCGTTGATTAAACATTCACAATTGTTTGCTTTCCTAATCGTGGCTTGCAGGGATCTTACAGCCTTTGTCATTTGGATGGCAAGGAGCGGCAATCCTGTCACTGTCTGTCTTACTTGTGCAGAAAGAAAGGGCAGCTGTCTCCCTGCCCCTTGTGCTCTCCTTCTTCCATCAGCTACCAGCCTGAGCCCCTCAGCAACTTGCATTCCCCTTGCCTCTCAGGCACCCATCCTTATGTTTTCCCAGCTCTTGTCAAGTTCTCTTGCATGTTTCTATCAGTCCATCTCCTTGTGAAGCTTCACGTGTTCTTGGCCTGCTTCCTACCACACAGCTGCTACTAGATCGTGCAAGCTATTCCAAGCTTATGCCTGACATTTTCATCCCTTCATTTCATGCCTTCCTGTTCCCCGGTTCACCCTTGGCTGAGAGGAGACACCGTGCTCTGAGGAGACCTCAGCCCTCTCCTGGGCACAGGAGAAACTGGTGGCGCATCCAGCTCGCTGTGGATGGCCGTGGTGGCTAAGGACCTTGTTGCTGTGAGACCAGAACTGGCTGCACGGTGTAACTTTCAATGCCTGCTGTCTCTCCAG
Seq C2 exon
GAAGTGTTCTTGCACTGCCGCATCCTTGTGTGCGGGGCGCTGGATGAGAGCTCCCGTTGCGCCCAGGGCTGCCGGCGGAGGGTGCGCAGGTCATCTGGGACGGAGGAGCAGGACGAGTCCGGGAACTTGGCAAACCACCTCCTGACAGGTGGCCCCATCAGAATTGACTTCGATGACTGACATCCAACCCCTGGAACAGCATCTCTGCCTGAGACCGTTCTTAGCGGTGCCTTCTTTCTTGGTTGTTTGAGAAATGAGAGGTGTTTGACAAAGCCCCACTTGAATCTCAGGACTTGTTCCTTAGCCGTGTGATGGTTGGTTGTGATGTAGGCTTGGCACTTGAGGCAGCCAGCTGAGTGCAAGCCAGATGGCAGAGCAGTTTGGTTTTAGCTCCATTCTGTTGGTTGAAAGAATCCTGCTGCTTTGCGGGCTTGAACCGTTACCCAACTTTGTCTTTCCCTACACCCACCCACAGGTTCCACAGGACTGTACATGTTAGGCTCCACATACTATTCAAGCCCTTCTTTCATCCGATAATAAAAACAGTATTGTAGCTGAACGTGTTTGCTATGCAGTTCTGCGGATGATGCTGAAGCTTTTGGATGTGCTGTGATTTTGGATGACCTTTAATAAAAATGTATAGAAATATATGTCCCATAATGCGCAAGTTCCTTAGCGCTACTGAAGAGTTGTCATTGCAGGCAGCTGAAACTAGGTCTATCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004345:ENSGALT00000006932:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(13.2=100)
A:
NA
C2:
PF0010018=Zona_pellucida=PD(10.4=43.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAGCATTTCCAGGTTCCT
R:
TCCTGAGATTCAAGTGGGGCT
Band lengths:
343-1722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]