GgaINT0111783 @ galGal3
Intron Retention
Gene
ENSGALG00000009743 | RPAP3
Description
NA
Coordinates
chr1:33236678-33237743:-
Coord C1 exon
chr1:33237679-33237743
Coord A exon
chr1:33236837-33237678
Coord C2 exon
chr1:33236678-33236836
Length
842 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGTCCCTTGTATTTTGGCAGATT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GCGGAGCCGTCGGAGAGCGCTGCAGCCTGGGCGGAGATCGGGCTGTGCTGCGGCAAGCGGTGCAG
Seq A exon
GTGAGGCTGAGACGGGCAGCGGAGTGATGGCGGGCCGGGATGGGGTGAGCGGGGTCCTTGTTCGAGTATGTAGGCGGTGTGGTGGCTGCTCCAGCCTGCTTTCGGGTGGTGAGGGCCTATAGCTTGCCCGGCCGCGTCTCTTGGGCACCCTCGTGGGGATGGGCAGGTGGAGAGCGTGAGGGGCGGGTGGGCGGCACCCGGTGCTGCTTCCCTGAGGAGGTGTGGGTCTGGCGGCGGGCTGCAGAACCCAGAGCCGCTCTTCTCACGGGGCTCCTTCTGAAGCGTGCTGCTTTGTCCGCTAGGTGCTAGGTAACGGGACGGGAGGCAGGGAGAGCCGCCTCAGGGTGAGGAAAAACGTACTCGTATTTAAGCATACTTATATTGACAGAAAGTGTGTTTCAGAGTTGGCTTGTCAGGTGCGTTGTTTCTACTCAAGTAAAAGGCAGCGTGTGTATCTTAATCTGTAGTTGAGTCTTAGTCTGAGCATATTGATGTTTTCCTCATTCTGTCTAATGGGAAATGCTCCAGAAATTGCTTTAAACTAAGATGACTGCATCATCATTTCCTGGACTTTTCTTGACCTACTAAATCCCATAATTTACTCTTAAATAGGAGAGCATGACTTATTTTTTGGGTTCTATTTTATCAAAATAATATCTTGACTTTTTGTATTCCCAAATACATTTAACTGCATTTCTTAGTCTCCTCATATTTAATGTTTTTACCAGGCCATTTGAGAAGCATGTCTACTGTGTAAGTCAGATTTCTTTATTTTGAGTTGCTAGCTTCCTTCAGTATGTGCTTACAAATTCTCCTTAGGAAGGTCCCTTGTATTTTGGCAG
Seq C2 exon
ATTACAATGACTGCATCAAATAAAGCACTGGAGCTTCAGCTGCAGATGAAGCAAAACGCTGAGGAACTGCAGGATTTTATGAGGGAATTAGAGAGCTGGGAAAAGGATATTAAAGAAGTTGATTCAGAATTAAGGAAACAGAGTGGTGTCTCAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009743:ENSGALT00000015853:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.804
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
GAGATCGGGCTGTGCTGC
R:
CTCTTCTGAGACACCACTCTGT
Band lengths:
191-1033
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]