MmuINT1002910 @ mm10
Intron Retention
Gene
ENSMUSG00000087670 | 9530036M11Rik
Description
RIKEN cDNA 9530036M11 gene [Source:MGI Symbol;Acc:MGI:1925866]
Coordinates
chr6:54146887-54150238:-
Coord C1 exon
chr6:54149520-54150238
Coord A exon
chr6:54148028-54149519
Coord C2 exon
chr6:54146887-54148027
Length
1492 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCCAAGTTTCTTTCTCTCAGGCC
3' ss Score
7.64
Exon sequences
Seq C1 exon
AAATACAGCCCTGGTCACACTCTCAAAAGAAAATGCTTTTGCAGGGTCTCTATGTGAGTGATTTCTGGCCACTCAGACTTCACACAGAGAGAAAAAGACCCTCAACACACTCCCCCACCCCCACCTCCACCCTCAAGAGCAAGAACTTGCAGAGCAATGAGCCTTGCCTAAAAAAGGAAGTAGTTGCTGAAGTTGGACGGAGAACGGTCATGCAGAAAATATGGCTCAAACTGTTGCACTCTGAAGAGGACAGGGAGAGTCCTCTTCATGAAGCCATACAGACACAAGGCTTGTTTTAAAGATTCACAGCGTGAAGCAAAACCTCAGCTATAATCCCAATACTTTCAGGAGGACAAAACTGTGACTTTGAGACCAGCCCAAACTACAATAATTATGAGGCTAGCCAAGGGCTATGTGGCAAGCTCTCATCCAAAACAAAAACAAACAACTCAAATAAAACTGATTCACCGGTTGCAACATTAGAATTCCAAACACTTCAGCGGCACCATAGGCCCTAATGGGCTCTGAGCCTACAGGGTACCATTCACTTTTCTGCTTCAAACCTCTGCAGATGCTGTGCCTGACAATGATGTGATGCTATCCAAGGCTGTTTCCTCAGAAGATGCTGATTTTTAAAACCTCCCCATTCTGTGCATTCTCTAGGAGTTAAAGGAAGCAAGAAAATGAAAATCAATCAGGCTACAGGATGTATCAAAAAT
Seq A exon
GTAAGTACAAATATTAAACTGTTAAGTTAACTTTAAACTTCACTATTCAGGAAAGAGATTCGTCAAGTTGCAGGCAGCATTTAAGGCCATAAAACGGTTATTACCCTGCAGTATTTATGCAGCTCTCTAGGCTCCAGATGCATCACAGCCACTAATTACACAGCTGTCTGGCTGTCCCAATATGGGAGTTTGGTGTCATTAACCACATTACACAAGCAGAAAATAGGGAGTTGACTGGCAGGGCTCAGGTTACAGACTAAGGAAGGTAGGAAGTAGTGATTGTGCTGAAAAATCTCTGATCACACAGACATTGGACACTGTCTTGTGTTTAACATAAAAAGGAGTTGAATATTGGGGCAGAGCCATCAGAATCCGCCTCTCCAGTTGTTTACAGCAGTGGTTCTGGAATGGTGGCCTATACCAGGTCCCTTGGAGTTAGGAGCTTATTAAAACAGTCTCCTGGCCTCACCTCCAACTCCCTTCTTTCAGAGCTAGGGCAGAGCACGAGACTGTATTTCTGGAAAGTTCCCAGGTGTGGATGGAGGTCTGTAGCACTCAATCGTGAAGGCCTTCTACTTCACACCAGCCTTCCTCAGGCACCCTGTCGTGGTCTGCCTCCTCCCTCTCTAGGCTGCATCTTTAGACTTTTAATCCTCTTCCTTTCTTTCTAGCTGTCACATCCCTGCTTTCAGTCACAGCTTTTCCCACAGATAGAAAATGAGGCCGTCAGGGTGCCGCTGGCATCTATCAGGATGACTCCATTCACTCAAGTTGAGGTCCTTCTGTCCTCACATCTACAAAATGGGCTGATGCACTACTTATTAATTAAGGGTTAGATGAGGTCAGCTGATGAGGCACCGAATGCCTAACAGGGAGTACAAGCTCATTAGTAATTATCATTATTACTATGTGTTTGTCCTACATCCATCGAACACATTCTAGAGCTCTGTAAAGGGGGATCAGGATAGGACGACAAGCCCCCATCCCTGTTCCCAAGCACTTTCACATCTGCATTTGTTCTAGATGAGGGCATTACAGTCATCTGTGATGTTGGACCATGTGAGCATTTACAAAGATGTTGTCCGTTAGTGATCAACAAGGCAGCAATAAAACCTGTCTCCAGTGAAAGCTGATGGAGAAGATTCACAGCCAGTTTTCCATCTGCTCTGATTTAATGGCAGAGTGAAGATGGATGCACTCCCAGGGCTTGCTTCTACTTCTGTACAGCCGTTGTTCACTTAGAAACCTACAGAACAGGCCATCCCTCTTTCCCTGAAGTAGAAGAAAGTATGGTCCATAGAGGTGACATTATTTGCAAATGAGGCTACCTGCAGGGAGAAGACCAGTGGTGGGAAGGGCTTCCCAGTTTCTCTGAAGTTGACTGGCCAGTCTTGATTTACAGAAAAGGGCACAGCAGCCTGGGACTATTTATTAGTGGGTACCAATGACAAGTCTGGCAGACTAACTTCTAATCCAAGTTTCTTTCTCTCAG
Seq C2 exon
GCCTTTTCTCACATCTTCCTTGCAAACAGGACTCCAGGATAGAAAATTCATTCCCATCAGAATGAGACAGGTAACATGTGTTTCTCAACTTGGTGGAACAACAGACAGCATCCTGGAGAGCTGCAGTATTTCAATCCAGTCACTAAACCACACATTGGACTTCCTTCGCCTCTGCCTCTCTCTGATAGCTATTAGCTAAAGGATCACATAAAAAGCAGAAGAGGCCTTGGACAGTTTGCTGTGGTTGGGACCAGATATCAGAAGTCTCCATTCTGTTGGCATCCTTGATAGGATGCTGAGGGACCTTCAGAGAAGGATAAAGTCCCTGCCTTGTTTCTAGGCTTCCCTGCCTAGAACAACATTTGGAAAGCAACAATGACCAAAAAGGAAACAGAACCCAAGGCAAGAAGAACTGGATGGATAAGGACACCCAAATGGTCCAAATGAGTTTGAAACTCAAATACCAGACAAGTTGTACCCAGTTCAGAGGACCCTTCCTTGCAGAGCCTTTGAAGAAAGTCTGATCCATAAGAGTTGGGCTAGAAGAAAGGCATGTTTTGAAGCCGGGTTGGGGTGAGTGGAGTAGAGGATCTCTCTAACAGCTACAAGCTGATTCCAGAGATAATAAATGAGACAGATTATAAGGGAATGAGCCTGGTGATGCCTGGGTGCCAGCCTCGCCTCCATAAAAAGGAAAAAGCCAGATAAATACCAGTCACTTCTTTCCAGGTAAAAACTACACAGAGGGGGCATAGTAAAAGTGGAGCAGACAAGAGGGACCTCAGCAAAGAATTCTGGACATGATTATTATGACCATAAGGCAAAAACCAGTACTAGATCAACTGGCTGACTGGCAGTCATGTATTAGTTAGAGGAAAAAAAATTATTTCTTGGTCTTACCTCAGTAATCTTTGACCAACAACAAAAGTATTCTTATCAAAACTGTCCCTGGAGACTGGAGAGATGTTTCAGTGGTAAAGAACAGTGGTTGCTTTTCCAGAGACCCTGGGTTCAATTCCCAGCATCCACATGGCAACTCAACACTCCAGTTCCAGAGGATTGGACACCCTCATAAAGACATATATGCAGGCAAAACACCAGTGCACATAAAATGAAAAATAAGGATAAATAAATCATCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000087670:ENSMUST00000138767:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACTTCAGCGGCACCATAG
R:
AGCTCTCCAGGATGCTGTCTG
Band lengths:
351-1843
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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