GgaINT0107993 @ galGal3
Intron Retention
Gene
ENSGALG00000017146 | PARP4
Description
NA
Coordinates
chr1:183570363-183571084:-
Coord C1 exon
chr1:183570998-183571084
Coord A exon
chr1:183570528-183570997
Coord C2 exon
chr1:183570363-183570527
Length
470 bp
Sequences
Splice sites
5' ss Seq
CCGGTATGT
5' ss Score
9.2
3' ss Seq
ATAGTCTTTTTTTTTTTTAGGAT
3' ss Score
10.99
Exon sequences
Seq C1 exon
GTTAAAGAAAAGAAACAAGCACATAGAGAATATCGCAAAGCTATTAGTGAAGGTGATGGAGCTTATCTCATGGACCAGGATGCACCG
Seq A exon
GTATGTTAGAAATCATGGTTTCTTACCCATTTGAAGATTTTGCATTTGTCACATTAGAGATAAATCTTTTCTGATTCTGACTCATGTTTTAGTTGGGAAGCTGCAACTTATTTGGACTATACATTTGATCTTTTTAAAAAACTACTACTGTTTCTTTAAATATGCACCACACCTTGTATAAAACAGATATTTCTCTCCTAGGAGCTTACCTCTGTAAAGAAATAATAACTTTTTTTTTATTTTGATAACAGACTTTTAAATTCAGTTATTTTTGATCAGCTTTGCCCCAAAATCTTAAAGAGCTGTTGAAAGCTTAACATTTCTATCATTTTTCATTACACTTCTGCAAAACCAAGTGGTATTTTCTTTCTTAGCATTTGGTTTAAGTGTGCTTAACCATCAATTAAATTATTGTTTTGGACAACCTGGGCTTTAATAATGTCATTAAAGATAGTCTTTTTTTTTTTTAG
Seq C2 exon
GATATTTTTGTAATAACTGTTGGAAATATATGTCCAAACTCTACAGTACTGATCAAGGTCACCTATATCACTGAACTGAGTTGCCTGAACGGTTGTATCACCTTTCATATGCCTGCTTCTGTGTCACCATGGCAACAGGACAAAGCACTGAATGAAAACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017146:ENSGALT00000027691:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF084875=VIT=FE(23.7=100)
A:
NA
C2:
PF084875=VIT=PD(20.3=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAAGAAACAAGCACATAGAGAA
R:
CTGTGTGTTTTCATTCAGTGCT
Band lengths:
247-717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]