MmuINT0006726 @ mm9
Intron Retention
Gene
ENSMUSG00000059555 | A830007P12Rik
Description
RIKEN cDNA A830007P12 gene [Source:MGI Symbol;Acc:MGI:2442720]
Coordinates
chr2:25048240-25052333:-
Coord C1 exon
chr2:25052112-25052333
Coord A exon
chr2:25051446-25052111
Coord C2 exon
chr2:25048240-25051445
Length
666 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTCCCATTTTTCTATTGCAGGGA
3' ss Score
11.74
Exon sequences
Seq C1 exon
ACTTCCTTTGCATCTAAGCGGAAACCTCCCCAGAGCTTCCCCTGTTCCTGTCCCTGGGGACCTGCAGAAGTTGTTACCCCTTCAAGCCTGAGTTGGGCCAGCCAGACCCTGGCCCACCCACCTCACCGATTGGGTGGAAGACTAGCATTTCCTGCTTCCTGAGTTGCTGGCTCCTGGCCTTGGAAGGGAGTGGCTGAGCTGGAGGAGCCTGCGCAGCTGCAG
Seq A exon
GTAGGTAGCTGCAGATATGGAGAGCTTCAGGCCAGCCTCCTCAGAGGCAAGGCTTTAATCCTTCCTCGGCTCTTGTTCATTTTTCTGCTCTTGTGTTCTCTGGGAGGATGGTGAGGGACCCCAGATTTGGGCTTGGATGGGAGCTAAGGGTGGGAGTGGGTTGGAAGGCCTAGGTTGTGACTAGGGACAGTGCTAGAATCCATTCTCAAAACCATGAAAGTTTGTCTGCATATTCCACCAACTGTCCTAAGTATGGGGAGAGTCTCAACTCTTAGGGGTACTGAGTCCTCTGGAACAAGGTGCCTACTTGGGACCTGTAAAGCCTTTGACAGTCTGATAGGTGCTGGGTGTGTTTGTGCAGGGTCCAATTTGACCATTCTATAACCCTAATCAGTGACAACGAGCCTTCTGTTTATTCCTCTAAGAGGGAGGTCAACAGTATGATAAATTATACACCTCGCCCCACCCCCGCACTTCCTCACAGCCTAGGCCTTTTCGGAGAGGACCCAAGAGATTTGCATGCGTTGGGGCCCTCCTGCTGAGAGCCGGGCTTCCTGGTTAGTGGAACTAGCGAGGCGGGGCCAGTATTTGGCCGGAAAGTACCTTAAGGAACCCCAAGAGGGTAAGATCGGGGACTCACGAAGTCTTCCCATTTTTCTATTGCAG
Seq C2 exon
GGAGGGGAACTACATGCCCAGCATAGGTCCTGAACCATGGACCGCAGCCATCCTAGCCTAGAGCCCCAGGCCAAGGGACCATGTGTGATAGCGCCAGTGCGCGCCGTGCTCCGTCTGCGCCGCCGAGTCTGCGTCCTGCGCAAGAGGCGCCTCTTGCAGCCAGGCACTGAGCCGGACTCTGGGACAGGGACACTTGGGCCCACCGGCAGCTTGGGCACTCTACGTGCCGACCTAGACCAACCTAAATTCTTCACCTTCGACAGCCTGACAGAGCTGACTTCTAGGACACCCCGCAAGAGGCGCAGGCGTAGTCGGGTAGTTCTCTACCCAGAAACCTCACGGAAGTGCCGACCCCGCACAGAGCGGCAGAGTCGTGCACAGCGTTGTCTGCTGCTTCTTGTAGCCATTGTGGGGTTCCAGGTTCTCAACGCCATTGAGAATCTAGACGATAATGCACAACGTTACGACCTCGACGGGCTGGAGAAGGCGCTGCAGCGTTCTGTGTTTGGACAGCCAGCTGCTGTGGGCCGCATCATGGCCCTGCTGCGAGACTACCTGGCTACACATGTGCACAGTCATCCCTTGCTCCTGGCACTGCACGGGCCCAGTGGTGTAGGCAAGAGTCACGTGGGGCGTCTGTTGGCGCGCCACTTTCGCGCAGTGCTGGAAGATGGTGCTTTGGTTCTGCAGTACCATGCACGATATCACTGTCCAGAGCCACGCCCGGTTCAGGACTGCCGGAAGGAGCTGGCACAGCGAGTGGCAGATGTGGTGGCACAGGCTGAGGCCGAGGAGAAGACCCCTCTCTTGGTCCTGGATGAGGCTGAACTCTTGCCACCTGCGCTGCTAGATGAGCTCCACGACCTCCTGCAGCCACAGCGTTCGCACCATTTCCACAATGCTATCTATGTACTCCTAAGTGGCGCTGGTGGTATAGAGATCACACACTTTGTGCTGCAAAATGCGTCACGGATGTTGCCCCCACTCCGCCATAGCGCAGGCAGTACTCAGACTGAGGAATCTCCAGCCCAGGAGTTACTCACCAGTCTTCGAGAGCTCCTGGCCCGAGAACACCCTCTGTGGCACACTGCAGCCATCGTGCCCTTCCTGCTACTGGACAAGCCGGATGTGGTCAACTGCTTCAGAGAGGAGATGGCAGGGGAGGGCTTTTTTCCTGAGCAGGCACTGGCAGAACATCTGGCAGAGCAGCTCAGCTACTACCATGTTGCTGGACATGAATTTGCCATCACCGGCTGCAAGCAGGTAGTAGCTAAGGTCAACCTCTTACAGCACAAGCCTGCACATGCTGGACACTAGCCAGTGGGCCCAGGCAATCGGAACTGTTGAAGAAAACAGGAAGGATGTCAGGTGACTTGTCCCCAAGCTGGTTCACCCCAGGAGCTAGGGAGGCTGATGCAGTGGCTTAGCTCTGAGCTCCACGTCCGTCCTCTTCACCCCTGAGCCTTGAGATTCCCTAAGGTCACCAGGAAAGTAGCTACCTTCCCATATGGAGTCTTCCCCATACCCCCAGCTCCCACTATGTCCATCATATCCCAGAGACATGTGATAGGGCTTCCCATAACCCTAGGAAGTAGCCAGGGTTATGGTAGATTATCTCAGAGGGTGTGAGGCTGCGGTAGGATTCTGGTCCTCTGGAACATGTGGCAGCCTCCATGCCTCTCACAAACTCCCAACCACCCCTTGAATGCCTCCTTAGCTTAGAGGCCACGAGGTGGGGACAGCTTCTCTGTCTGTGCACGTCTCTAGGCCTGCCTCAGAAGGAAGTTAGATGTCTGCAAGCCAGTGAGTAGATCATGGAATTCTTCAGATGCTCTGGGGCATGAACCTAAGAGGAGACCCACCCTCGTGAGACTGGCTGCCTGTTTGCCCCAGAGACAGACATGTAGAATGGCGTTGGAATCAGCTACAAGGTTCAGGGTCCTGCTCACCAGAAGAGACCCGAGAGGAGAGACCTCTACCTCCAGGGAGATGATGTGTCTTCACCACCCTGGGGAGACCTGGGAAACCACCAAGCTCAGGTTTCCCAAGAAAGGCTCACTGGACTCCAGTCTGTCCTACTGCTGAGGAACTCACTGGCCCCTTCCCTTCCCTGGCTCTGGAGTGACAGCGGTTGAGTCCATAGCAAACTGGGAGCCTTGGAAGTGAACCCTGCTTTGAGGCTGACTCGATGTAGGAAGCAGGAAACAAGCATGAGGCCCAGTGGGGTGGGGTCAGTCTGTGCTGTGTGGTTGCCACAGTTACACGTGGGTGAGGTTCCCTGTAGCCTTTGGCAGTCCTAGGTTCAACCTCTCCATTTGCTTGGAATTTGCAAGGCAGAAAGGAGGCTTCTTAGTACTCTGGCCGTGTCTGTGCTGCCATCTTGTGGCTGCACCCAGACTTTGCCTGTGAATGCTCATCAGTCTGGGTTAGAAAGCGGTGCCTCCCAAAGTGTGGCTTGAGGGCACACAGGAAGTGGTGACACTAGAAGCGATTAGAGAGGAGGAGCCCCTCAATGGGGGTGATATGTCCCTGCCCACGCTTGGGGGAGAACTGCTGCAAAACTACCCAGTCTTAGGTTTCCCTAGAGAGGATTGCTAGTAGGCTCCAGTGGAGGTCCCGTTTGCCGTGCGTGGTCTGAGGATCTGGTGCATGACCTGCTGAGTTTGGATGCTGTTCAGTTCTTGCAGGATTATGCCAAGAAGGCCCCTAGGGTTGTCACCTGAAAACCTACCTGGAAGTGTCCCCTACGCAGCCAAGTGTTGCTTGTAGTCATTCACTTACCATCTACAGAGCGACTAAGTGAGGGTACAAACCCGAGCAGCATCTCCTCTTTATTTATTTATAAAATCGTGCACTTCTAAAATAATTTCATGGAGGCTAATTTCAGGTCTAAAGAGGCCTGTACACTCAGCACTGAGCAGGTTGCATTGTGCCCATGAATAAACCGCAGCTCAAATCTACCCACCCACCTTCTTTTCTTTTCTGACTGTCTATGAATTGAGAAAGGGGTATTAAAACCTGTTAATGGCTGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCGGACTGCTCTTCCGAAGGTCAGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACGAGATCTGACTCCCTCTTCTGGAGTGTCTGAGGACAGCTACAGTGTACTTACAATAAATAAATAAATAAATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059555-A830007P12Rik:NM_146115:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF063096=Torsin=WD(100=28.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCTGCTTCCTGAGTTGCTG
R:
GTCAGGCTGTCGAAGGTGAAG
Band lengths:
343-1009
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: