HsaINT0120509 @ hg19
Intron Retention
Gene
ENSG00000102699 | PARP4
Description
poly (ADP-ribose) polymerase family, member 4 [Source:HGNC Symbol;Acc:271]
Coordinates
chr13:25027725-25029350:-
Coord C1 exon
chr13:25029155-25029350
Coord A exon
chr13:25027793-25029154
Coord C2 exon
chr13:25027725-25027792
Length
1362 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATGCTGATCTTATTACACAGGTT
3' ss Score
7.74
Exon sequences
Seq C1 exon
GCTTGCATGCTTGTCTTTCAACCCGATCTCGATGTCGACCTCCCTGACCTAGCCAGTGAGAGCGAAGTGATTATTTGTCTTGACTGCTCCAGTTCCATGGAGGGTGTGACATTCTTGCAAGCCAAGCAAATCGCCTTGCATGCGCTGTCCTTGGTGGGTGAGAAGCAGAAAGTAAATATTATCCAGTTCGGCACAG
Seq A exon
GTGAGTGCGCTTTGGCCCTGGTCCTGCGTGTGCTTCCCCTACATGTGAATCACATTCTGTAGAGCTGACAACTGTGGGTACCCGACCCTGCCTGTGTGGTGAGGGGCAGCCTAGTATGAAATTGAAGAACAAGAGCTCTGGAGCTGGACCCCCTAGGTCCCGGTTCCAGCTGTACCACTCACAGGTTCTGTGTGTCACCTTGGGCGCACTACTTGAACTTCTGGTGCCTCCGTTTCCTCATCTGCGATCTGAGGATAATTGTCCCTAACTCACAGTGTTGCTGTGAGGAGGATTGAGCTAATGTATGTAAAGGATTTTTAAACTGTGCCTGTTCACAGTAAGTGAGATATAAATGCTACTGTTGTCATTAGCAACTGAACCAAATACAAAACCCTTGGTCTGTTGAGTAGGAGGTCCCAAGTCTAAGGACAAAACATTTGCCCTCAGCGCAGTCATAGAAAATCTATAAGGAATGGTCTCAGGAAGTATCGGGCCAGCACTGCTAGAAGGGAGGTAGTACCACCCTCCAGATGGGGCCCAGGGACGTCTCAGCCACCAGAAGGCAGCACCTCAGGGATGAGAGGTGCGTGGAGTGGAGTGAGGGGACAGTCTTATCCTATTGATTCTCATCCTCTGTGCAATCCAGCAGAAGACCCAGCCCCTTTTCCCCAGAGGTACAGTCTGCTGTTGCTGGGACAGAGGTCGGATAAGCATGGGGAGTGCAAAGGGCGTGAGCAGAGACTGGCCTTCCAGGGGCCAAGCTGCTCAGGCCATTGCAATGCCCTGCACATTTGCACAAGTGATCTGCATGTGCACATGGAATTTGACTCAACATTTTGCATAGTAAAGCACCACGGTTTGAATGCTCTATGATGTATCATTTAGAAAAATAGTGTGGTGAATTTTTTTTTTTTTTTTTTGAGACAGAGTCTCGCTTTGTTGCCCAGGCTGGAGTGCGGTGGTGCGATCTCAGCTCACTGCAACCTCTGCCTCCCGGCCTTAGCCTCCCCAGTGGCTGAGATTACAGTGCTCACCACCACACCCAGCTAATTTTTGTATTTTTAGCAGAGACAGGGTTTCACCCTGTTGACCAGAGCTGGTCTTGAACTCCTGACCTCAGGTGATACACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCGTGCCTGGCCTGTGGACAATCTTTTGTATGTTAAAATTATCAAACAGTTTTCTAAAAAGAAAGGTACACACATAAATATATAATATCCTTTACAACAGCCGTGATGGTATGAAATAACATTATTGTTTGTTAGTGCTCAAGCAAGTGAACGTGTGGAAGCAGCACCTCATGCTGATCTTATTACACAG
Seq C2 exon
GTTACAAGGAGCTATTTTCGTATCCTAAGCATATCACAAGCAATACCATGGCAGCAGAGTTCATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102699-PARP4:NM_006437:22
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:
PF137681=VWA_3=PU(29.6=68.2)
A:
NA
C2:
PF137681=VWA_3=FE(14.5=100)
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:
GCTTGCATGCTTGTCTTTCAAC
R:
TGATGAACTCTGCTGCCATGG
Band lengths:
262-1624
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)