GgaINT0111792 @ galGal4
Intron Retention
Gene
ENSGALG00000009743 | RPAP3
Description
RNA polymerase II-associated protein 3 [Source:RefSeq peptide;Acc:NP_001006231]
Coordinates
chr1:31376487-31377100:-
Coord C1 exon
chr1:31376979-31377100
Coord A exon
chr1:31376558-31376978
Coord C2 exon
chr1:31376487-31376557
Length
421 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGA
5' ss Score
9.78
3' ss Seq
ATGTGTTATTTTTCACTCAGATT
3' ss Score
7.53
Exon sequences
Seq C1 exon
ATATGAAGAGGCAGAAAATGACTGTACTCAAGCTCTTCTGTTAGATGCATCTTATTCTAAAGCTTTTGCTAGAAGAGGGGCTGCAAGAGTTGCTCTTGGAAAGCTAAAAGAAGCTATGCAAG
Seq A exon
GTACGACTTACAAGTAGTCTAAGTGTGATAGATAGATGGAGATAAGTAGGAGATCCTGATTTTTTTTTTTAATCTTTTGATAGCAATTACATTCATTTCTGACTAATTGAGGTTATCAGTGCAAAAGATAAGATGGATGGGTTTTGGTTTTTTTTTTTTTTATTGAATATGTATAAACTTTATTGTTTTGGTATTCACGTGATAGGAAAACAGGTTTGTGGGAAATTACAACTATTGCTATTTATAAATAGTAAGAAATAGCTTGAAAAATGTGTTTGAAGCTAAATTATGATACAAACATTGGGATGATTTACCTGTCTTTAATTTATGGTTATTAAAAGAAACAGAAGGCTTAATAATTTGCCAGGAGTACTTTCTAACTTGAAATGCCTGGAGTTTTCATGTGTTATTTTTCACTCAG
Seq C2 exon
ATTTTGAAGCTGTTTTGAAGCTGGAACCTGGAAATAAACAAGCAATAAATGAGCTCACTAAAATAAGGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009743:ENSGALT00000015853:10
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=0.125
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(23.5=38.1),PF0051523=TPR_1=PU(64.7=52.4)
A:
NA
C2:
PF0051523=TPR_1=PD(32.4=45.8)
Main Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]