MmuINT1014160 @ mm10
Intron Retention
Gene
ENSMUSG00000089711 | Gm16240
Description
predicted gene 16240 [Source:MGI Symbol;Acc:MGI:3801994]
Coordinates
chr10:76293165-76294860:+
Coord C1 exon
chr10:76293165-76293308
Coord A exon
chr10:76293309-76294390
Coord C2 exon
chr10:76294391-76294860
Length
1082 bp
Sequences
Splice sites
5' ss Seq
GCTGTGGGT
5' ss Score
0.7
3' ss Seq
AGCTGAATTTTGTACAATAGGTT
3' ss Score
5.11
Exon sequences
Seq C1 exon
TACCTGGAGGGATGTGGATGGAGGAGACAGGGCAGAGCTATTAGGGCTAACATTCATCTCTAGAAAGAAAACGCTGGAAGGAAGCGATGTGCTCAAGTGACCACCGACTGCAGCTGAGTGCATAAGCAGAGAGCCAGGGCAGCT
Seq A exon
GTGGGTGGCTGTGGGCAGATGTGGCTGGCTGTGGGTGGTTGTGGGCAGCTGTGAGTGGATGTGGATGGCTGTGGGCAGCTGTGGGTAGCTGAGTGCATAAGCAGAGAGCTAGGGAAGCTGTGGGTGGCTGTGGGCAGCTGTGGGTGGATATGGCTGGCTGTGGGCAGCTGTGGGCGGGTGTGGGTGGCTGAGTGCATAAGCAGAGAGCTAGGGTAGTTCTGGGCAGCTGTTGGCAGCTGTAAGAGGCTATGGGCAGCTAAATGTATAAACAGAGAGCCTGGGCAGCTGTGGGAGGCTGTGGGCAGCTAAATGAATAAGCAGAGAGCCAGACCAGCTGTGGGCAGCTGTGGGCGGCTGTGGGCAGCTGTGGGCGGCTGTGGGCGGCTGTGGGCGTGAGAAGGCATGAGTTATCCATGGATATGGGAAGGAGGCCTTGCTTGTCTCAGACGTACACTAAGAGGATGAGAGGTGTTTAGGGGTGTTGCGTGCCTGTTCTGCTCCCCTGAAAGATGGGGTACAGAGAAGAATAGGGGTAACTATTTGGTACTGCAGAAGAAACCCCTGCTCAACTAGTGTCACTTGGGGCTCCCCTAGAGGACACCCAATTCAGGCCTCAGGCAGTCCTGGGCCTAAGAAGTTCACGCAGCCACCAGAGCAGTTACAGCCCTGTTGACAGCAGCGTCCTCACTGCTTAGGCAGATGCCACAGTCATTCCTCCAGGAGGGGTTGGGGTTGGCCAGAGATACATGGAGGAGGAATAGCTGGGTCCCTGTGAAGGCGGTTGGAGTTGAGAGCCACATCAAGGGAGCCTAACACCAAAGGGCAAGGAGTTCAAGAGGTCCCTAACAAATCGGAGAGCCTATTTATAGCTTAATCCTCTGACCTCTTAAAGACAATGGTTCCCACTAAAGGTTCTGACAATTGTATTAAAATTGCTTGTAAATTTAGTCTTAATAAATACATATGCGACCCACCAATGGGTCACTAACAAGGGGCAACATGTCATAGAACGTAATAGGACACTGACGTTTCCTTATAGGACACTTATCAAAGTAGTGATGAAGCTGAATTTTGTACAATAG
Seq C2 exon
GTTCCATCTCGACAGGCTGTTCAGTCCTCCCGGCAAGTCGAGCATCACGTGCGCCAATACCCCAAACCCACCAAACCCACCCGCGGTCACCCAGCCTACTCACATGGGTTAGCGCCGTCTGCCACAATCAACATGCGCAGAGAGCTGAGACAGACATCCCTCTGACCTCGCTGTGCCAAGAGCGACCAGTGCATATCTCGGGACTTTACCAGGGCAGCCCGGGCTGCAAAGAGAAGAGAGTACCGATGTCTCAGGGTCACGGGGGCAGGCACACCCACACTTCAAAACACTGCTGCACTCATCCTGTGCAGAGGCACTCGTGCAGAGGGTGAGGGGCCTGCTGCACGGACCACACTCTTGTCTGTTTAACTATCATCCGTTATCTCGTGCGCTTCCTAACCCCTTCCGTCCCTTTTCTCCTCAAAACTTAATTTGAAGATGCAGTTTGGATATAAGATGTTTAGATCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000089711:ENSMUST00000161924:1
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
Cow
(bosTau6)
No conservation detected
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:
CGACTGCAGCTGAGTGCATAA
R:
CAGGATGAGTGCAGCAGTGTT
Band lengths:
346-1428
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