MmuINT1013819 @ mm10
Intron Retention
Gene
ENSMUSG00000086868 | Gm15883
Description
predicted gene 15883 [Source:MGI Symbol;Acc:MGI:3801875]
Coordinates
chr7:27124481-27126439:-
Coord C1 exon
chr7:27125469-27126439
Coord A exon
chr7:27124988-27125468
Coord C2 exon
chr7:27124481-27124987
Length
481 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TGACCTTCCATTTTCCTCAGCAC
3' ss Score
8.16
Exon sequences
Seq C1 exon
GAACTTGATGTACTGTGAAGACTGGCCATGAACTCATGATCCTCTTGTCTCAACCTTCTGAGTGCTAATGAATTTTTTAGAGAGATGAGCATACCCAAGGGTCTTGGAACTGTAGAAAACTGTGATTTTGTAGAAAACTGTGATTTTGTTTGAACTTTGTATTGCTGACATAGAACTGAGGTCTTATGCACACTAGGCAAGAACTTTGCCACTGAGCCACACCCCCAGCCCCTCACTGGAGGATTCTAGCCAGGGGCTCTACCACTGAGCCACACCCCAGCCCCTCACTGGGGGATTCTAGGCAGGGGCTCTCCCACTGAGCCACACCCCCAGCCCCTCACTGGGGGATTCTAGGCAGAGGCTCTACTATTGAACTATGCCCCCAACCACCTCCTGTGGGATTCTAGGAAGGTGTTCTACCTTCTTAATTATAAATCCCATAAGAAATAAAATGATCAACCCCCAAAGATATTTAGTTTTAATTATGTGTGTGCACATACATGTGTGTGGATGCCCGGAGGCCAGAGGGTGTTGGATCCTCTGAAGGTGGAGTTATAGGAAGTTGTGAACTACGACGTGAGTTCTGGGAACTGAACTGAAATCCTCTGCAGGAGCAAGAAGTGCTCTTAATCACAGAGCCATCTCTCTAGTCCTCTTTCCCCTCGCCCCCTGACATTTTTTATTTTTGAAACAAGGCCTCATGTAGCATAGGCTGGTGAAGGTGGAGTTATAGGAAGTTGTGAACTACGACGTGAGTTCTGGGAACTGAACTGAAATCCTCTGCAGGAGCAAGAAGTGCTCTTAATCACAGAGCCATCTCTCTAGTCCTCTTTCCCCTCGCCCCCTGACATTTTTTATTTTTGAAACAAGGCCTCATGTAGCATAGGCTGGTTTCAAACTCACTATTTATCCAAGAATGATCTTGAAGTCTTGGCCCTCCTGCCTCCACCTCCTGAATTCTGGAATTACAG
Seq A exon
GTATGCACTACCACATCCAGGTCCAGCTGTGATAGATTCCCCTGAACATTTTAAATTAGGTTTATTCACTTAAGTTTGTATGTGAGTGTTTTGCCCGAGTGTGTGTATGCACCATAGACGTACTTGGTACCTGTGGAGGTCAGAAGAAGGCACTGGACTCCCTGGGATGGGAACTATAGAACTACCGTAGGCATATGCTGGGAACTGAGCTGGTGCAGTTCAGTTGGCCAGCTGTGTGGTAAGTGTTTGAGGATGCCATCATCACGCCCACTAGGAACAGACAAGTTGGGACATCACGCCAGAGCTGTGATCATTGGGCAAGCCTCAGGGGCCCTCACCCCCACCAACCCCCAGGAGGACAGTTCACACCATAGGCAGTGTGAGAGGCCTCCAGGAATTTCTGCTCACATCCAGGTTCTGGAGCCCACTAGTGGGATGGATGCTATCCCCAGGGTGTGGCCTGACCTTCCATTTTCCTCAG
Seq C2 exon
CACCTCCAGCAGGAAGCTGCCTTCTTCCAGGATCCGCTCCTCGATGCTTCTTTTTCCCATGCCAAAGTTCCGCAGGATTTGGACAGAGAACCTTCTGAGGATCTTCCAGCGCTCTCCATCGGAGAAGGCGATGCCTGGGAAGAGGAAAAGGAACGGCAAATCCAACTGGCAACCATTCCCAAATCACAGCCACCGAGTCATCTCTTCCTGCTCCATCAGGAGGGGGATTCTAAACTGACTCCGCAGTTCTTCCAGCAAATCCTTCCCGACTCTTGGGACTGGACCAGGAGCCTGCTTTGGGCTCCACAGGACTCTGGGCTTTCCACTGATCATGCTGACTCTGTATTCCCTTGTAACGACCTGTCACTTTGAGGTGTCAGAAGGCAGAGTAAAGACACATTTTGTGTCAAAATGACCTTTGAATTGTCATCAGACTTTGTTGATTGTTTATTGATTATTGAGTGCACAAATAAGATATGTAAATAAGAAAAATAAATATTGGGACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000086868:ENSMUST00000153562:3
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
Human
(hg38)
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:
AGGCTGGTGAAGGTGGAGTTA
R:
AAATCCTGCGGAACTTTGGCA
Band lengths:
342-823
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