GgaINT0107998 @ galGal3
Intron Retention
Gene
ENSGALG00000017146 | PARP4
Description
NA
Coordinates
chr1:183564816-183565310:-
Coord C1 exon
chr1:183565115-183565310
Coord A exon
chr1:183564887-183565114
Coord C2 exon
chr1:183564816-183564886
Length
228 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ATATCTATCTTTGTTTACAGATT
3' ss Score
10.02
Exon sequences
Seq C1 exon
GCTTGCATGCTTGTATTCCAACCAGAATTTGAAGCAGCATTTGATGAAGAGCAGCTGTCCAGTGAAATTATTATTTTACTAGATTGCTCAAATTCCATGGCAGGTTCAGCTCTATTGCAAGCAAAACAGATTGCTTTACATGCCTTAAAACAGTTTAGTTCCAGACAAAATGTAAATTTAATCAAATTTGGCACAA
Seq A exon
GTGAGTTTCTTTGTTTCTTTCTTAACTGTAAGCCACCTTTTACTTGCCATTACTTAATTTTATGTGCATCATTATTATCAAACCAACTTAATACACTGAACTGCAACTTGGAACATGTATGATGCATTTCTACTCTGATATTCTAGTCATGAAACTTAAACTTGTGTTTCTACAGTGTTAATAGGTGCTTAATACTTCAGTACTCTTAATATCTATCTTTGTTTACAG
Seq C2 exon
ATTTCTCAGAATTCTCTTCATTTTCAAAGAACACCTCAAAGGATTTGGCGTCACTAACTGAGTTTATTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017146:ENSGALT00000027691:23
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:
PF137681=VWA_3=PU(29.4=68.2)
A:
NA
C2:
PF137681=VWA_3=FE(15.0=100)
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:
GCTTGCATGCTTGTATTCCAACC
R:
AACTCAGTTAGTGACGCCAAA
Band lengths:
260-488
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]