MmuINT0136454 @ mm9
Intron Retention
Gene
ENSMUSG00000022466 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:MGI Symbol;Acc:MGI:1277218]
Coordinates
chr15:97533633-97536253:-
Coord C1 exon
chr15:97536181-97536253
Coord A exon
chr15:97533801-97536180
Coord C2 exon
chr15:97533633-97533800
Length
2380 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CAAAACTTTGTGTGCTCCAGACT
3' ss Score
5.56
Exon sequences
Seq C1 exon
GCAGACCTCCGGCGGTGGTGTAGGACGCCGTGCGTCTCCCTGGAGCCGGTGAGGTTGGTGGCCGCCGTGGCGG
Seq A exon
GTGAGTAGGCTTTACCGTTCCCGCTGGCTGCAGGGGCGTGGGGTGGAAGAGCGGGGCTGGGCCCGGGCCGGGAGCAGCGGCGGGGCGCCGGGGCTGGTTCCCGAGTGCGCTCTCCGCGCGCTGCCCAGGGTTCGGCCTGAGCTGGCTCCGCGTCCGGGCTCGGGCGGTCTGCGGTGGCGGGACCTCCGGAGCCACGGTCCCGCGAGGGCGGCGGACCTGCGGGCTCCGTCAGGCCAGGGTATGCAGGCTTGGCTTGATACGGGACGTGAACGTGGTTCCCCAGGCTCTGGAAGTTTCTGGTTGCCTGCGGAACGAACCCCGTCCTGGCAGCATGGGCTGCCCTAGGACCCGGGGGTGGGTGGAAGGAGAGCTGCCGCCCTTACAGCATCTCATGGTCTGCTTGTTTGTTTAGAGACAGGGTTTCTCTGTAGCCCAGGCTGCCCTGCAATTCGCTGTGTAGTAGACCATGCTGGCCTCGAACCGCGGGCCTCTGCCTCCCTCCTGAGTGCTGGGATTGAAGACGTGCAGCGTTTAAGGGTCTCGTTTTGCAGGTGTACTGGTTTGTGTTCAGCAAAGCGTTATGCGGGATTTGTTTATGAATGAAATGCATGCGCATAACCAAAAGTGGACACTGCTTGACGCTTAAACTGCCTCGTTGAGGCTGAGTCAGAAGATCCGTTTTACACTTTTTGTTTGTTTGTTTTGTTTTGTTTTTCGAGACAATGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCGCCTGCCTCTGCCTACCGAGAGCTGGGATTAAAGGCGTGCATCACCACTGTCGGGCCGAGCCGTTTTAAACAGCCTCTTTTTACTGGGGGTGGGGGGTGGGGGGGGGGAAAGCTCTTATAACCTCCCTCCAAGTATTCCTATCTTAAGGTACCTAGTCCAGTCACTTTACCCATTGTATCTATCTGCCTGTCTGTCTTCTGTCTCTCTTACAGTCTTCAGCATCTTTCACATGTTGGCAAATGCTATGTCCTAGCCCTTTAAAACTTACTCTTAAGGTGTGCTAAGGCGTCATGTTGAGTTTAATTTGTGAGGCCCCCTCTGCCTCCTGGATAGCTGGAACCAGAAGCAGTGGTCGACTGTGCACCGCTGTGAGCTTCATGTGCTTCCAATGGAGTTACATTAGGAAAGACAACGTTAACCCCTGTCCCATGTAACGTGATTCATTTAACTCATTTCTATCCGTAAAAATCCTGCGACTATTCTCAGTCTTTTTATGACCTAACGCCATGAACATACGAGCACGTGTGTGCGCTGCTAAACTTTCCTACTTAACATGTTAATTTTCTCAGGCGGTGGGTGGGTGGCAGCTCTCATATGGGCCCAGCTCCCTATAGGTACTGCCACCTCCTTTTTCTGATCTTCCTGTTCCCTAAGGCTGCCACTCTTCAGGCCCTGCCGAGCTTCCGTCAGTACAGTCTCTGAGCACGTTCAAATGCAAGAGTTTCTACCTTATTAATGGTGTCACCCACATTTCTCTCTAGTCCTTTCTATCTACTCAATACCTTCTGATGGCCCCTAAGTGCTCACATTCAACATATTCCAGACTGAAACAATCCTCTTACTCATCTGCCCCCTCCCCCAACGTGCGCGTTTTCCTTTTACAATTGCATTGCTTTGCCAAAGTTTTATTTTCACGCTATGCATATGTGGCGTGCGACGGTGCATGCATGTGCCATGGCACACACATCAGACGACAACTTTGTGGAGTCAGTTTTCCCTTTGCACCTGTGTGTGGGTGGGGTACCAGGGATCGTGTGGGTACCACTAGGTATCACCAAGCCTTAACGTTGTTAGGCTTGCGTCGTGTTGAGTGCTCTAGTCAGGAGCCTCCTTTCCAGTCCCTCAGAGCTGGATTTCTTGACTTAAAAAGATATTACCAGTTTCTACCAAGCAGAAATCTAGAACATCGTTTAAATCTTTCTCTTCTTCCCAACGTCTCGATCTAATCAGGCATCGGGTTATTTTTATATTACCAGTCAATTACTTTTATGTGACTTTTAGAATGTCGGCTATCACCCCCAGGCCTGGTGTGTTACTGTCTGCCCCGAGTCAACTTTTCACCTCTTCTTTGTCCCTCAGCTTTTCTCTGCTGCCTGGTCCTCCCTGCTCCTCACTTGATTGGCCTACTCTGACCTTGAGTCTTTTGTTACTACTGGGCTCTCAGGCATGCACCATCTCACCAGGTGTAAATGCGGTTTTCTACTTAACAGTACGCTGAAGTGATGATGGTTTTACGGGGACGCACCCCCTCATCGTAAATAGATGCATCTGCCGTTCTGATTCTCAAAACTTTGTGTGCTCCAG
Seq C2 exon
ACTTGGCAGGACACGATGACTTCGGCGAGTAAGGCAGTTGAGTTGCAGCTCCAGGTGAAACACAACGCAGAGGAGCTGCAGGACTTCATGAGGGACTTGGAGCACTGGGAGAAGGACATGAAGGAGAAGGACCTGGAGCTGAGAAGACAGGGTGGCGTTGCCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022466-Rpap3:NM_028003:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.725
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: