GgaINT0048320 @ galGal3
Intron Retention
Gene
ENSGALG00000009824 | C2orf77
Description
NA
Coordinates
chr7:20059255-20059706:+
Coord C1 exon
chr7:20059255-20059371
Coord A exon
chr7:20059372-20059512
Coord C2 exon
chr7:20059513-20059706
Length
141 bp
Sequences
Splice sites
5' ss Seq
AAAGCAAAA
5' ss Score
-6.58
3' ss Seq
CTAAAATTGTTCTCTTGCAGAGC
3' ss Score
9.25
Exon sequences
Seq C1 exon
CAAAGGAAACTGAAAGCCAAAAAACTCCGTGAAGAAAAGCAAGAGGAAGAAAGAAAGTTACTTGATTTGGAAGAAGCAAAATTCCAAGCAGCAAAATGGAAGGAGGCCATCGATAAA
Seq A exon
GCAAAAACTTATCTGTACCACCAGAACGAAAGAGTGAAAGGGCTGCATGTTTGTTGACAATTTACAGTTTTTACATTCAAATCATACTGAGTTTCTTTAAACACTTTGGACATGCAAATTACTAAAATTGTTCTCTTGCAG
Seq C2 exon
AGCGCACTTCTACTTGCTGAGGTCCTAAAGGAAAGGGATGCTCAAATTGAATTTAAAAAGTTAAAGTCAGATGTTAACAAAAAGAAGGAAGAAGAAATAGAACGTCGGTGTAAAGAAGCTCTTCTCAGAGAGGAAGAAAAGGTACATCAGCGTTATATGAATCGACTGGCACTAAGCAGAGATCAGCTGGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015986:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.031
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138681=Trichoplein=FE(29.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAAGCAAAATTCCAAGCAGCA
R:
TGTTCCAGCTGATCTCTGCTT
Band lengths:
242-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]