MmuINT1014219 @ mm10
Intron Retention
Gene
ENSMUSG00000087435 | Gm16323
Description
predicted gene 16323 [Source:MGI Symbol;Acc:MGI:3826604]
Coordinates
chr2:30413716-30415338:+
Coord C1 exon
chr2:30413716-30414152
Coord A exon
chr2:30414153-30415219
Coord C2 exon
chr2:30415220-30415338
Length
1067 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTCCTTTATCCACCTTGCAGATC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTGGCCTGGCATGGAGGATGAGAGGTGGCAGAGAGAGGCAGGAAGAGGGAGTCCCGGAGACTCTGGAGGTGGCAGAAAGCAAGACAGGAAGGGCCCAGGCTGCTGGCACAGTGGCAGGCAAGCGGCAGTAGCGCCATTCCATACCTTCTCTCTCTGCTGCTCGTCCTCCATGGCAGGACTGAGGATGTGAGCCCTGTCTGTCTGCCTGGGCTGGACCTCTAAGCCTAACTGTGCTACCAATTGGATGAGCAGAAACTAGCAAGAGCGGCCACCTGCCTGGACTGGAAAGAGAAGACAAGACTCACAATTCAGGCGTGAAGGGTGGTGAGGCAGTAGCCACTGGCGTGGTAGCATCTAAGGCTGGAGCAGTGGTAGCTGTGGGGCTGCAGATGCCGCTCTGCCTCTCGCTAGCCTCCAGAAGAGGAGGAGTAAGGCAG
Seq A exon
GTAAGTGGGCTGGAAGTAGGTACTGAGGTAAGAGGAGACTGGGAGCTCTCTCCTGTCTTCTTTAGATGGGCCCAGTGCCAGGGAGGCAAGCCAAGAGAGGTATTAAAAAATCCACCTGTCAAAATCTTCATAGATCTTTTTGATGTGGGAAAACTTGGCTGGAGGGTGGAAACAGGCTGGCCGCTAACCTGTGGCCCTGAAATCAGCCCTGCTTGGGAATGGTGCAAGACAGGAGATGCCAGGGAAGGGCCACTAGTGGACAACCAACGATTGCCACACACCTGCCCAGCTGTTTCCCTTCCAGACCTCAGGGCCTTGGTGGCCACCCCTCTTTTGGTGGTTTGTTTGTTTTTTCTAAATGAGTTCTGGATCATCCAGGTTGGGATCAATAGTGGGGGAAATACACTTTTGTGCTTCTGCTGTGAGTAATAAGCCAAAAGACCCCATTTGGGCTCAGTTTATTAGCACAACCATGGGATTTGATTGTCTCCTTGTTTCAGTCTCCCTAGCATTAAAATGCTTATGCAGTAAGGTGGTCCCAGAGGGTGACGGAAGGCGGGACGACTTGGAGGAGGGTCTCAGGTGCTGCCAGGACTCTTAGTAGAATCTCAGTCTTAGCTGCCAACCCAGTGTCTGACAGGGCAGTCCAGTTCACAGCTGGATAGACAGCCTGAATCAGAGAGGACAGGAGCTCACCATTAGGATAGCTGCTTTAGATAAGGATGGTGAGGGGCAGCCTGCCACCTCCTGCCTCCTCCTGCCTGTTTGGGGGATTTTCAGTACTAGTCTCCACCTGAGGTTCTCTTAGCAATATGCAATGGGGAGGGTGGGCATCTGATGAACTCAAGGAGACTGGGTAGGCTTGGAGAAGTGGCTCTAGTCGGGCAGAAGCATAGCCTAGGGCTGAGCTCTCTAACCAGTAGCCCCGACAGGTGTCTGAGTCCGAATAACTGGGAGCATTAGGGAGGAGTGGAGTGGAAAGGTACAAAAGACTTGAACCTAGGTTTCTCAGTCTTCTTCTGGGATCGAACCCACCCCTTACCTGGTCTCCTTTATCCACCTTGCAG
Seq C2 exon
ATCGCACCCTACCAGCCGGTCTGGGGTTTTCTTGACCGTTGCTGGAGGCCCGCCCGTCTTGTCCCGTCCATGGCCCTGCTGGGCGAACTCACCACGGTTCTGGCAGCAAAGGCTAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000087435:ENSMUST00000134920:1
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:
GCAGTAGCGCCATTCCATACC
R:
GTCAAGAAAACCCCAGACCGG
Band lengths:
349-1416
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