GgaINT0044672 @ galGal3
Intron Retention
Gene
ENSGALG00000004345 | OIT3
Description
NA
Coordinates
chr6:12319313-12320116:-
Coord C1 exon
chr6:12319956-12320116
Coord A exon
chr6:12319729-12319955
Coord C2 exon
chr6:12319313-12319728
Length
227 bp
Sequences
Splice sites
5' ss Seq
GACGTATGT
5' ss Score
7.83
3' ss Seq
AACCCTTTTCTTTCCTGTAGGTC
3' ss Score
12.28
Exon sequences
Seq C1 exon
TTCCAGTGCTCTGCAAGTCCAGCTCTATTGAGGTGAGCATCCCAAAGGATCTGGTTGGAGGCTTGGACCTTTCTCTCATCAACACTTCCTGCAAAGGAGTATCCAACGGCACTCATGTCAACATCCATTTCTCCTTGAAGTCCTGTGGCACTGTTGTAGAC
Seq A exon
GTATGTATACCCATTGCTGTCCTGCCCCTTGGGACCACTCAGATTTGAAGACTTGGTTGTTATCCTATTTGGGAAATAAAGTTGATTTAGCTGACTGGGGCCACTTCTTTCAATGGCTGGTTTATGTCTAAGTTTCCTGCACAAGGCAAATTCAACTGCTGATCTGAACTCAGAGAAGCCCTTCTCGGTGATCTGCCCTTTCCTTTAAACCCTTTTCTTTCCTGTAG
Seq C2 exon
GTCATAAATGACAAAATCATTGCCACCAATCTGGTGACTGGCTTGCCAAAGCAGACTCCAGGAAGCAATGGGGACATCATTGTCCGCACCAGCAAGCTGCTGATCCCAGTGACCTGTGAGTTCCCGCGCCGGTACACAATCTCTGAAGGCTATGTGCCCAATCTCAAGAACTCACCCTTGGAAATAATGAGTCGTAACCGAGGCATCTTCCCCTTCACCCTTGAGATCTTCAAAGATAAAGACTTTGATGAACCCTACAGGGGTGCTCCTCCCACCCTCAAGCTTCGGGACTCTCTGTACTTTGGGATTGAGCCCTTGGTGCATGTCAATGGACTGGAGACACTAGTTGAGAGCTGCTTCGCCACTCCCACCTCCAAAATCGATGAGATCCTGAAGTACTACCTGATTCAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004345:ENSGALT00000006932:6
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:
PF0010018=Zona_pellucida=PU(20.0=92.6)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(55.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAGGAGTATCCAACGGCA
R:
CAAGGGTGAAGGGGAAGATGC
Band lengths:
294-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]