MmuINT1013151 @ mm10
Intron Retention
Gene
ENSMUSG00000087626 | Gm15050
Description
predicted gene 15050 [Source:MGI Symbol;Acc:MGI:3705180]
Coordinates
chr6:52172881-52174059:+
Coord C1 exon
chr6:52172881-52173008
Coord A exon
chr6:52173009-52173635
Coord C2 exon
chr6:52173636-52174059
Length
627 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGG
5' ss Score
5.74
3' ss Seq
TCTCCCATCCTGTTTTTCAGGCA
3' ss Score
9.76
Exon sequences
Seq C1 exon
AGCAGCACGACGTGGCCCCGGGCGCAGGGAGCCGCACTATAAAAAGCTGCTGGAATTTACTGGCAGCTACAAATATTTGCTTAACTTGCGTCTGGAGTTGGGGGATTTTCCGCGGAGCAGCAGAACCA
Seq A exon
GTAAGGGCTGGAAGCTGGGTCTCTGGAGCCAAGGTCCAAAATGAGACAGGGTCTGGAGGCTAGGTTGGGGTCTTTCTTTTCCAGAAGAAGCTGTGGCGTCCCTTTGTAGAGGCTGAGGCTTTCTGAGATCTTGGGGGAACTCTCAAAAGGGCAAAGGGTCGTCATTTTTTCTCCAATCCTCCCATAAGGATTCATATTTGCCTCAAAGATCTATGATGGTCAGACTTCCTTCCTAGCCAGCCTTTGCCTGGAACTCTCAAAGGAGGTTTGCACACACACACACACACACACACACACACACACACACACACACACACACACAGGCAACTACCCTATCGGATCATGATGGAGTTTGGAAGCTGAGTTTGTTAGACAGTTAGCCTGTTCTAGTTCAGGGAAGAGGACCAACCGCCTCCAAATGAACCCTATAAGGTCAAGAAGAGTGTGGAAGAGAAAACTTTTGAAGAAGTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACTGTGTGTGTGTGTGGGGGGGGGGGGGTCTTCCCAACTCCACCCTCAAGTCACAACTCAAATCTTGTAACTTTCTATACATTTTCTCCCATCCTGTTTTTCAG
Seq C2 exon
GCAATTTGAAACAAGCCACTCCAACCTCTTTTTCAAAGTTATAGGAGGTTCCCTGTCTTGAAGTCTCCTGCCTTGGATTTTCTGAGGTGCTGCTATTCTGGGCAACTATCAAAATCCTACCTGTTAAAACATGATGGATTAGAGAAAAAAAACAACCCACCAGGAACCTGAAAAACCGGCGTTCATCTCCATGACCACGGCTTGAACTCTCCTTCCAACTTAACGATAATAGGTTCTGTCTTAGAAACTGCTATGTAATTTGATGTATGGGGGTCATTTGGCTCCAGAGGAGGCATGGAAGCACAAACCATAAACTCCTGCCAGACTTCCCTGATCTTTGTATACTTTTGTTGGTCATATTTGTTATTTGGTCCATTTTCCTGCTTCAGAAATACTAAGTAAAGAAAAACATCTTTTTAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000087626:ENSMUST00000133723:1
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
(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:
CTGGAGTTGGGGGATTTTCCG
R:
TTTGTGCTTCCATGCCTCCTC
Band lengths:
344-971
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