HsaINT0120508 @ hg19
Intron Retention
Gene
ENSG00000102699 | PARP4
Description
poly (ADP-ribose) polymerase family, member 4 [Source:HGNC Symbol;Acc:271]
Coordinates
chr13:25029155-25030616:-
Coord C1 exon
chr13:25030479-25030616
Coord A exon
chr13:25029351-25030478
Coord C2 exon
chr13:25029155-25029350
Length
1128 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAC
5' ss Score
6.64
3' ss Seq
CACCTTCTTTCTCCTTTCAGGCT
3' ss Score
12.25
Exon sequences
Seq C1 exon
CGCACAGACTGCAAAGCTGTCATTAGCACCATGGAAGGCAGCTCCTTAGACAGCAGTGGATTTTCTCTCCACATCGGTTTGTCTGCTGCCTATCTCCCAAGAATGTGGGTTGAAAAACATCCAGAAAAAGAAAGCGAG
Seq A exon
GTATACTCCTTTTTACTTAGACATAGGAGACACTATTGAAAAAATGTTTCAGAATAAGCTGGTTAAACTTGCAAATTATTGATTGTCCTGAAAAACTAGCATTACAAAATGAACTCTCACATCTCAAGATTCTGCAACTAAAAATATTTATGATATCAAGCATGCCAAACTTCTGACGTTTCATCCAAAACCCTTATGTGGATGATTTGCCTGTACAAATTCGCATTTTTACCTTAAGCTCCACCAAAAGAACATGTGCCATCAGACATTACATTGGGTATTCTCTATAACTTGTTATAGTTTTAAAATACTGATACTGGAAAAACAAATAAGCAGTTATTTGTGGTTGGTAATAAGATCATTTTGTGTGGCTGTGACAAAGAGTCTCTTCTTAAGTTAAAATAAAAATAGAAACTTAGGCTGGGTGTGGTGGCTCACACCTGTAATCCCAGCACTTTGAGAGGCCAAGGCAGATGGATTGCTTGAGCTCAGGAGTTTGAAACCAGCCTGGGAAACATAGTGAGACCTCGTCTCTGTAAAAAATTAAGAAAAAAAATTAGCCAGGTGTGGTCATGCACACCTGTGGTTTCAGCTTCTCAGGAGGCTAAGACAGGGCGATCACTTGAGTCCAGGAGGTTGAGGTTGAACTGAGCTGTGATCGTGCCACTGCATACCAGCCTGGACAACAGAGGGAGACCCTGTCTCAAAAAAAAAAAAAAAAAAAAAGGAAACTTACATGATAGTAGTTAAATATTGGTTAATTAATAGAACAAAAGGTATGTGTGTGTATTTTAGTAATCACAATGGCATGTATATTCCTCTTAGAATAGTGTGATATATATATATATATATATATATATTTGTTCCATAATGTTGATGCTATATGATTTTTCAGATACTAATTCTTGACCTCTCAGAAGTTTATGTCAGAAGTTGGAAACTCCCAGTTCTAACATTCTACTTTTGACTGGAACTCCTAGTAGGCCATCTTGTTGTTAATTACATCTTATTCTTTCTGTTTTTATAGCATTAGTTTACCTCACTAGAAAGTTTTGGAGTTTTCTAAGTAGACCTTTTGCAGTTGAAGTGACAAGAAGCTCCAGTCCAGCACCTTCTTTCTCCTTTCAG
Seq C2 exon
GCTTGCATGCTTGTCTTTCAACCCGATCTCGATGTCGACCTCCCTGACCTAGCCAGTGAGAGCGAAGTGATTATTTGTCTTGACTGCTCCAGTTCCATGGAGGGTGTGACATTCTTGCAAGCCAAGCAAATCGCCTTGCATGCGCTGTCCTTGGTGGGTGAGAAGCAGAAAGTAAATATTATCCAGTTCGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102699-PARP4:NM_006437:21
Average complexity
IR-S
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(29.6=68.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAAAGCTGTCATTAGCACC
R:
CTGTGCCGAACTGGATAATATTTACT
Band lengths:
326-1454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)