MmuINT0136455 @ mm10
Intron Retention
Gene
ENSMUSG00000022466 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:MGI Symbol;Acc:MGI:1277218]
Coordinates
chr15:97684033-97686563:-
Coord C1 exon
chr15:97686442-97686563
Coord A exon
chr15:97684104-97686441
Coord C2 exon
chr15:97684033-97684103
Length
2338 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTAACGTTCTCTCTCGTTAGACT
3' ss Score
8.09
Exon sequences
Seq C1 exon
ATATGAAGAAGCTGAAAGAGACTGCACACAAGCTATCGTACTAGATGGCTCATACTCAAAAGCGTTTGCCAGAAGAGGAACAGCAAGGACATTTTTGGGAAAGATCAATGAGGCCAAGCAAG
Seq A exon
GTAAGACTAGAAAATCTGACACACTCACCTGCTCACACTGCAGAATAACTGACACACTCACCTGAGGAAAAACTTGAATTGTAGGTGAACAGGAAAAACAAGCAATAGGAAGAGAGGGCGTCAGCAGCTGGGCATCGAGGTTAACGTGAGGGCTACAGTGATTCCTTTCTTATTCTTTTTGTTTTGGTTTGGTTTTGGGGACAGGATCGCTTACATAGCCCTGGAACTTAGTGTGCAGACCAGGCTGTCCTCAAACCCTGTCTTGTCTTCTGAGTGCTGGATTAAATGCTTGCTCCAGCGCCCCTGCCTGGCCTTTCTCATTCCTGGTGTGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCGTGTGTGTGTTTGGTTGCTTTCCCTCCTGCCCTTTGACCTTGTGCTGTAGGTTCCTTTTGTCAGTCTTCAGAGAACTGGCCTGGTCCTACCTGTGTTTCCCTCATTGCTTTCATCCCTTCTTCCTTCATCTTTGGTCTCACTTGCTGTTTTTTTCTCTTTTTTTGTTTCCTTTGAAATCTGTGGGGGGGGGGGGGGGGAGAAAGCTCCCCTAACCGTTTGGCCTGTAGGCAATTCTGGGAAGCACTTTCTTGATTGTTAATTGATACATGAGAGCCCAGCTTATTGTGGGCAGTGCCGCCCTGTTGGCCTGGAGGTCCTGGGTGCTCTGTGAAAGCGACTGTGCAATTCGGGAGCAAGCCACTGAGCAGCACCCCTTGTGGCCCTGCACCACTGCCTGCCCAGGGTTTGAGTCCCTTCCCTGACTTGGTCAGTGCTGGAGTGTGACCTGAGAGCCGTGAGCTGAAATGAGCCCTGGCTTTCCTGTGCTGCATTTGGCCATGGCGTTTATCACAGCGACAGAGAAGCTAAGACAGAGTCCTGGGTCTAAATCCAGGCCCTGGGCCAGTTTTCTCCCAACTCCTCGATGTCACTAGGTATAGCAGATCTCAGGCTTCTCTTTTCTGATGTGGACATTTAAATCTGTCAGTTGCTCTCCGAGCCAGGCATAGCTGCAGCCCGTTGCTTTTTGTTTTATCAAGTTCTGGTAAGATTGCACAGCAGTAATTTGATATTTTTTTTACCATCTCAAGTGTATATTTTCAGTGTTGTGCAATCCTGTTGGTCTTTATTCTAAACTGTGTATCAGATACTAATTGTTCATCTTCCTCTTCCCTTAGCCCCTGGCAGCCTCTGTTTCCTACTAACCTGATTATTTTAGTAGTCATTACTTTTTTTTGAGACAGGGTCTTACTGCTTAGCCTGGCTGGACTTGAACTCCTCAGCCCCCTGAGTCACGTCAGCTTTGCCGATTGGTAGGCTCATGGCCGTCTCCTGGCCGTGTTGCTGCGTCTGCTTCTGTTAACTTAGCTGCTTCTAAGCTTTCCGTGTGCTCAGGTGCCATCATCACAGTTTCTTCTTAGAGTCGTTTTTACATTTTCTTTTTTTCATTTACTGAACATGTGCATGCACATGCGTGCATGTCACAGACACACGTGGAAGTCAGAGGCAGGGAGTTAATTCTTTCCTCCTACACTGTGGGTCCTGGAGGTAGAACTTGGAGCAGTCAGGTCTGTGGCAGGGGCCTTTACCAGCTTCAGGGTTTTGAGAGAGAGAGAGAGAAGAGGAGAGAGAGAGAGAAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGAGTGTGTGTGTGTGTGTGTCTGTCTTGCTGTGTTAGCCCTGGCTGTCCTAGCATTTGCTTTGTAGACCAGGCTAGGTTTGACCTCACAGCAGTCCTGCCAGTGCCTCCCAAGTACTAGGATTTCAGGTGTGTGTGACCACACCTGGTTTCATTGCCTTTTAGAAACTGAGTAATATTCCTGGGTATGGTGTTCTCATCTTAGTGGAGTTAGGTGTGAGTGTGCAGTGCTTCCTAAGTCGCTCTGTGTCATCTGTAAGTCAAGGGCGCAGTAAGAGGTCCGAGAAAGTCCGTGTGAAAGCTTAACAAACCTGGTTCTCACTATTGCTCCCCTCCCAGGGTCCCAAGCAGACCTCACTGAGAGATAGGAGTTGTCTGTTGGGTGTGGTGGTTTGCTTCAACCCCAGCACTTGGGTGGTAGAGACAAGATGATTAGGGTTTAGGTTATCATAAATAGCTGGCTCAGGACAACCTGGGCTACACAAGAACCTGTAGCAAACAGCTAAAGCACGTAAATAAACTAAAGGAATTATTAACTGACGGCGATGTCGTGTTTTGATCATTTCACTGTTATTTGTTAACGTTCTCTCTCGTTAG
Seq C2 exon
ACTTTGAGACTGTTTTACTTCTGGAACCTGGAAATAAGCAAGCGGCGACCGAGCTTTCCAGAATCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022466:ENSMUST00000023104:10
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=0.125
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(23.5=38.1),PF0051523=TPR_1=PU(64.7=52.4)
A:
NA
C2:
PF0051523=TPR_1=PD(32.4=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types