MmuINT0115458 @ mm9
Intron Retention
Gene
ENSMUSG00000054509 | Parp4
Description
poly (ADP-ribose) polymerase family, member 4 [Source:MGI Symbol;Acc:MGI:2685589]
Coordinates
chr14:57239291-57241088:+
Coord C1 exon
chr14:57239291-57239486
Coord A exon
chr14:57239487-57241020
Coord C2 exon
chr14:57241021-57241088
Length
1534 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CACACCTTCTTATTGTACAGGTT
3' ss Score
9.18
Exon sequences
Seq C1 exon
GCCTGCATGCTTGTCTTTCAACCGGAGCTTGCGGACGTCCTCCCTGACCTCCGTGGAAAGAACGAAGTGATTATTTGTCTTGACTGTTCCAGTTCCATGGAGGGTGTGACATTCACACAAGCCAAGCAGGTTGCCCTGTATGCTCTGTCTTTGCTGGGTGAAGAGCAGAAAGTCAACATTATGCAATTTGGCACAG
Seq A exon
GTTAGTGCGCTGTCCCTAGTCCTTGACACAAGTACATGCTGTCCAGACTGGTGGCCGACAGGGCCTGGCCTCATCTGTGCAGTTAGAGACCTTACCCTGAAGCTGAAGCACAGAGCTCTGAAGTCAGTGCCTCTTGGTGAAGATCTGCCTGGACCATTTATAAACTCGGTAGTCTCTTTGGACAAAGTCAGCTTGAACATTTGGCACCTCTGTTAACTGTTTTGGTTTTTGGTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTGTCTCACCTACATGCTAACAGCCCCTACATCATAGTCTTGCAAGGGCAGAGATAATCTGTGCCAAGGATTTTAAGCTTTGCTATACAGTAAGTGAGACACAAATGTGACCAATGTAATAATCAACTGAACAAGATACAACAACCTTGGCTTATTTAATAGGAAAGTCCAAAGAGTCAGGACCGCCATTTGTAATCAGTCCTGTCATAGCAAACATGTCAGAAATGGGCTCTGGCAGCACTAAGCCAGCACTGTTACTAGAAGGTCAATGTCACCTTCCAGAAAGGAGGGCAGAGACAGCTTAAGAACGTGGCAAGGCAGAGCTGGGAGTGGTGGCTCAAATCTATGGCTCAGGTTAATGGCTTAACCTCTAAGTAGAAGTTAGATAAAATGGCTTGAAACAGTTTGGCTATGCCATACTACTTGAATATTGGCTAATGGTATAGGGATTATAAGAATAATCTCAGGGTAACCAATCATATAGCTAATAGTGCCTTTGAGCCAGGCATGATGGCTTACTTCTGTAATCCCAGCATTCCAGAGACTGAGACAGGAGTGCTAATAAGAGAGCCCGGGCTATATTGTGAATTCCAGGCTAGGCTGAACTACAGAACAAGACCCTGTCTCATAAATAAGGCATCTCAGAGTGAAAGAAGGTGCATAGAGTAGAGTCAGGGTGGTCCTTCCCTATAAGAGTCATCTTCTATGTATCTGTTTCCTTTAACAATGAAGCTGGGTGATTTTGCCAGGAACCTGGGTCATATAGTGATGGCAGGCGCTTTGCTGGGGACTCTGCCCTGCCTGGGCTGAGCTGCCAGTACCACTGCTGTGACTTAGACCTTGGTTTGCATGCGCAATGCAGAGATCTCTGCATGGAGCTTGACTCAGAGCATCTTATATAAAACAGCTTATAGAATGTACTTGAAATGTGTTTTTGTGTTCCAAAATGTGTATACATGGTTTTCTGAAAAGGAAGCATACACATTAATATGTAGTACTGCTTATGGTAGAAACAGTTGCCTTGGTGTTCATTAGTGGTCAGTCTGTAGGTGTTTAATGGCAATTTATCACACCTTCTTTTTTTTGTTTGTTTGTTTTTGTTTTTGTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTAGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCCTTTGCTGGGATTAAAGGCAAGCACCACCACCCCTGGCTATAACACACCTTCTTATTGTACAG
Seq C2 exon
GTTACAAGGAACTGTTTTCATATCCTAAGTGCATCACGGACAGTAAAATGGCCACAGAGTTCATTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054509-Parp4:NM_001145978:22
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:
GCCTGCATGCTTGTCTTTCAA
R:
CATAATGAACTCTGTGGCCATTT
Band lengths:
264-1798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: