MmuINT1013985 @ mm10
Intron Retention
Gene
ENSMUSG00000086718 | Gm16069
Description
predicted gene 16069 [Source:MGI Symbol;Acc:MGI:3801823]
Coordinates
chr3:89180755-89182293:-
Coord C1 exon
chr3:89181908-89182293
Coord A exon
chr3:89180914-89181907
Coord C2 exon
chr3:89180755-89180913
Length
994 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CTCATTGTATCTCATTGCAGCCC
3' ss Score
8.69
Exon sequences
Seq C1 exon
AGAGGGAAGAGATTATAAGGGAGGCAGGCCCCTCCCATCCCAGGAGGATGGCACCACTCACTAGTCTCCTGCTTTGTACCGTTCCTTCTGCGTTGGCACTCCCTCCAAACACACAAACTCACCCACCCAAGAAAGTCCATTAGTTGATAACCCACCCGCCCTGCCCCATTTCCTTAATGTTCCACTCAGCAGCCCCTAGGGACCCAATGATCTCACTCCCCAGCCCCACCTTCTCCCGACCGGCCCTCACCCGCTTCAGCATCACGATTCCCAGCACTGCGATGCCGGTGAAGAGCAGGGCGACGAGCAGCATGAGCACCGCCACGGCAGGTTTGGATCCCACCACCACCAGAGCAGTCACCCAGCCGCTGTGGGAAGATGCACGG
Seq A exon
GTGAGGACCGACCACTCTGCCGGGGCTCTGCTCACCCGGAGTCCCCTAGGTCTAAGAACATGCTCCAGGCCCATCAACGGTCAGGGCCTCGGCCAATATGGCGGCATCCCATGAACCAATCCCACTACATCTATTCTCTTCATACTTTTCAGTCATTTCTGAAGCATCCGCTCCTAGCTCTCCTGGCATCCTCATGAAAAACAGATTCGAGCCAGGCATGGTGGCCCACGGCTTTAATCCTAGCACTCGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGTCAGCCAGGTCTACAAAGTAAGTTCCAGGACAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAACCAAGAAAAAAAAAGAGAGAGAGAGAAAGAGATCCTTCTCACTTCTGGGCACTCCCTTGATCTTTCGTCCATTGTGACATGGCCTCTCCAGGAAAATTAATTTTCAGCCTCTGCCTGTCTACTGCTGTCTTGGCTCTAGCCATAGAGTGCCCTGACTTCAGTTACATTAGTCTTTCCCAAGGAAAAGACCCACATGACCCTTAGTTGGACAACCCCATTAAACTGAGTTGCCCAATGTGTGAGGAAGGGCTGAGGACGAATGGTAGCTCACACACCTGAAGCCCCACCCTGGGATGCCAATGGCCTGGAGGACAAAGAACACATCCTGGACGAAGAAAATGAAGAAAAAAACGAAGAAATTGAATGAACTATCACTCCTGCAAAGAGAAAAAAAGCAAGTGTGGGAGAATTAGAAAATGAGGTTCAGAGCAGCTCCCATCACCTCTCACTGCATCTCACTGTAGCCCTTCTCTCATCACCTCACTGCATCTCACTGCAGCCCTTCCTCCCATCACCTCTCACTGCATCTCACTGTAGCCCTTCTCTCATCACCTCACTGCATCTCACTGCAGCCCTTCCTCCCATCACCTCTCACTGCAGCCCTTCCTCCCATCACCTCTCATTGTATCTCATTGCAG
Seq C2 exon
CCCTTCCATCACCCCTTTCACTTACCGGAAAGCCTTATACATCGGGCGGTACCAGCAGACAAAGGAGCAGGGAGTGAAAAGGAGCAGCCAGAGCATAGACAGCCCAAAGCCTGAGCCACTGCCGGTGTCCACACAGAACCTGGCCAGGCAGGCGAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000086718:ENSMUST00000131146:1
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACACAAACTCACCCACCC
R:
GCTCCTTTGTCTGCTGGTACC
Band lengths:
347-1341
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