GgaINT0107997 @ galGal3
Intron Retention
Gene
ENSGALG00000017146 | PARP4
Description
NA
Coordinates
chr1:183565115-183566026:-
Coord C1 exon
chr1:183565889-183566026
Coord A exon
chr1:183565311-183565888
Coord C2 exon
chr1:183565115-183565310
Length
578 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
TTTTGTTTCTCTCTCTGTAGGCT
3' ss Score
12.24
Exon sequences
Seq C1 exon
AAAACAGAATGCAAGGCTGTAATTAAGACCGTAGAAAACAGTTCTTTGGACAGTAGTGGCTTTGGTCTAGATATATGGATTTCTCATGCCTATCTACCCCGAATGTGGGTAGAGAAGCATCCCAACAAAAATAGTGAG
Seq A exon
GTATGGCATACCTGTAATATAGTTTATGAGGTAATAAACATAAAGCATAATAAACAGATGGACACCATAGGCAGCGTTCAATAGAATCTCAGTGATTTTGTTTTATCCTTTGCCTTGTACCAGAGTGAAGGTTGAGATGCATTTTCAACAGTATCCCATCACATTTTAGTTGAAACACTTTCTTCTAACTAACTGTTGTGCTGCTGCTTGTATTTCACAGAAATGTGACTGTACTGCTTAAGTGGATGGTGGCAGTTATGACTACCAAAGATAATACCTGTAATTTTTTTTTTAAGCTGGAGAAAAGATTGGAATGCTGTTTGCCAAAGAGTGAATTGAATTGTAAAATTAAACAACAAAATTCCGTTTTCAGTTTTCATGTGGAACTTGAGATATAGGTAAAGCGTAGGAAAATTGCACTTTTCAAGAATTTAAAGTAAATGAAATGTATTTGCTAAAATTTTCAAATATTACTTTATTCTGTTCTCATTCCATAATGAGGAAAATGAAGATGCATGGGTACATTCCTAGTGAAAAAGTATTTGTTCACTGCACTGATTTTGTTTCTCTCTCTGTAG
Seq C2 exon
GCTTGCATGCTTGTATTCCAACCAGAATTTGAAGCAGCATTTGATGAAGAGCAGCTGTCCAGTGAAATTATTATTTTACTAGATTGCTCAAATTCCATGGCAGGTTCAGCTCTATTGCAAGCAAAACAGATTGCTTTACATGCCTTAAAACAGTTTAGTTCCAGACAAAATGTAAATTTAATCAAATTTGGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017146:ENSGALT00000027691:22
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:
NO
A:
NA
C2:
PF137681=VWA_3=PU(29.4=68.2)
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:
AAAACAGAATGCAAGGCTGTAA
R:
ACATTTTGTCTGGAACTAAACTGTT
Band lengths:
311-889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]