MmuINT1013374 @ mm10
Intron Retention
Gene
ENSMUSG00000051107 | Gm15440
Description
predicted gene 15440 [Source:MGI Symbol;Acc:MGI:3642353]
Coordinates
chr13:51685529-51687380:-
Coord C1 exon
chr13:51687283-51687380
Coord A exon
chr13:51686247-51687282
Coord C2 exon
chr13:51685529-51686246
Length
1036 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TTCTTGTTTTTGTTCTGTAGGAA
3' ss Score
10.54
Exon sequences
Seq C1 exon
AGGCACTGCAGCAGGAAAAGTGGAGCCAGGAACTTGCTACGTGGCGTGCTGTGGCCGGGGAGCATGACAGGCTGATGCAGGGCTGGAGGAAGGCATGG
Seq A exon
GTATGTACCTGGCCAGCAGGGAGCTTTTTGCCCACTGCTCTTTGGACACTGGGCCCCTCTGACTTCCTCTTAGCCTACAGACAAGTTCTGCTTCTCTATTGCCCCAAGGGAATTCTGGGCTGTTACTGAGGCTAGTAGGATCAAGGATATGACAATGTTGTAAGAGGAGACCAAAACACATTTTAGGTCACGTACAGGCCAGTAGCTTTTTCCTAGGTCCCAAGGCTGCCCCAGCCCCTGGAACTCACTGCTTTCATGAGAGCAGGAGACTAGCTGCTGTTGAAGAACATGGGAAGGTGGGACTGTCACTACGTACAAGCTTGTGGAAGAGGCTTCCTCAGGAAGGGTGCCCTCACATAGGCTCAAGTCACTGTGCTGCCCCTTGGCTAGATTTACCCTGCGGTTAGCTGCCACACACAAGCAGGGAGCTCTAACCTTGGGGAGGCCTAAGTATGTGCATCAGATAACTGCCAGGCTGTCACAGTGAGTGTTGCTAGTCCTCTCATCAGAGCCCATGCAAATCTCCCCTCCAAGGGTCCTCTTTGACACTAGGAGACGCCAATCATCTCAGCCATTGACCACAGCCTCTTTCTGAAGGCTAAGCAGCATGGGCTCATAAGCACCTGTCTGAAACGAGAGCACACAGTGCTGCCTTTGTCTCAAGAGTCCTGAGAGATGGGGCTGGAGAGATGGCTCAGCCTGACTGCTCTTCCAAAAGTCCTGAATTCAATTCCCAGCAACCACATGGTTCACAACCATCTGTAATGAGATCTGACACCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTACTCACATATAATTAATAAATAAATAAACAAATAAATAATTTTAACCCCCCCCCCCCAAAAAAAAGAGAGAGTCCTGAGAGAGACCACTTGCATACTCTTAACTTGACGCCCTGGGGGTTGGGATGGGGGGGGGTTTCCACCATTCCACCCCAGAGCAGGGAAGGCCTAGTCTACTGGGCCAATCACTCAGAAACTACCTTGAATTCTTGTTTTTGTTCTGTAG
Seq C2 exon
GAAAGCTGCAGCAAGGATACCTTCTAGCCACCAGAGGCAGTTCTGGACTGATCCCAAGTGACCTTGTTGACACCAGCTGCAGACGTACCTGATGAACGCACAGCACCTACTGCACCAAGCTATTGTGTCTTGGCTGGCTCCACACTGCCATTCGCCACAGCCTGAGTGTCCCTTCCTAGAGGCTGGGAATCTCTAGGCCTGAACCCCAGTAGGCCTGAGACAGAACAAGACCTTTCTACATTAGCTCTTATGTAGCAGAAAGATCAGTCTGCCTGGCAGAAACAGAAGGCTCCTCACCCAAGCAGATGACAGAGCAGCAGGTCTGTCATGAAGGCTAACCGGATGGCAGACACCCTGCATTCTCCCCAGGACTTCCCTGCACTCCTGTCCCTCCCCCAGGGCCAGAACAGCTAATCTCCACTCCCCTTCTGTAGATCTAACTCAAGTCTGCTGCTGTGGCCACCTAGGAAACAGGTTGTTCCAGGGGCTAAGCTGGGATAGGAGAGGTGGGGTCCATGTGAGAATCTTTTGCCTTAAACCTTGAGTGACATGAGGAAGTTGCTCTTCGCTTATCTCAGAGCCCAAGGCTGTTTTCCAAAGCACAGTGCTTCCCACCCGTTTACCCTGTCAGCGCTCCGCTTCTGAGGTAGAAATGCCAAACAGGCCAATTATGCAAACCTTCAGGTGCCGTATTAAACTGTTTTCCAGTGCTGAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051107:ENSMUST00000110042:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF059386=Self-incomp_S1=FE(38.6=100)
A:
NA
C2:
PF059386=Self-incomp_S1=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCATGACAGGCTGATGCAG
R:
CTGCTCTGTCATCTGCTTGGG
Band lengths:
356-1392
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