MmuINT1012538 @ mm10
Intron Retention
Gene
ENSMUSG00000086578 | Gm13583
Description
predicted gene 13583 [Source:MGI Symbol;Acc:MGI:3650462]
Coordinates
chr2:60551046-60553923:+
Coord C1 exon
chr2:60551046-60551192
Coord A exon
chr2:60551193-60552787
Coord C2 exon
chr2:60552788-60553923
Length
1595 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
AACTATTTCTACTCTCCTAGGTC
3' ss Score
7.87
Exon sequences
Seq C1 exon
TGCTGGTGCTTTAAGAAAGCAGGCCGAGCAAACAATGGAGAGCAATCCAGAAAACACCCTTCTTCCACAGCCTCTGCATCAGCTCCTGTCTTCAGGTTCCTCCTGTCTTTCCCTGACTTCCCTTCACGATGGATTGTAATCTGTGAG
Seq A exon
GTAAACGAAATAAGCCCTTTCTTCCCCAAGTTGCTTTTGCTCATAGTGTTTACCATAACCAGAGAAGCCCTAACACAGAGAAGTAGACACTGTCTACTTCTGTGCCACTCAAGGGCCAATTCCTGGGTGTGGGTCAAATCTTGGGTGATGCCCTGGTGTACCCCCAGCAGCAGCTGCTGCAGTATCACTAACCATTGAACCATCAGGCACGCTAGGTGATGCCCTCGGGAACCACAATCATGCCCTCTGCTCTGGACTGGGGTGCAGGAGACAAGGGACACCTCCACTCTTTTCCCCAATACCAATATTTTGTTTTCCCTTCTTTGCTAATAAAAACTCGATTTCAGGCTTGTCTACAATTCACTTGCAATTCTACTGGTGCAGGTGATGGGGTCAGGAAGAGAGACTGTGTGGTAGCTAGTGCAGAATGCCTATACTTTTAGTGCATCAACCACAGCGCCTGTGTTTGGAGAATCTCTGGGTCTGCAATGTTGAACTCCAGATTTGCAGGCTGTACCTGGGGAGTATGGCAGGGAGCTGGTTGTTTTCATATTCAAAGTGCCCTTGATTATGGAAAAGAAGGCCTCTTCAGCCACTATCTCAGGTCAGGATTTGGGTCTGCCAAATATAGAAAGGATTAGCTCCCAGTGGGTGCTGACCCTGACTGGGAGGATCTCGGATCAGGCTTCCTGTGGCTGAGTCCCAGCTAGTCTCACAAGCTGCTGCCCTTTCCTAACACTTAAGCCCAGGCAGGATCTCCACGCTAAGATACAAAGTGGCCAACTGCCTATCTATGCATATGCTTGCCCCTGTGTACTTAGAGTTTTACTTAACTGAAAAATACCTAAGAGCATTTCTGGCTGCTCCAGAATAGGAAGAGCTGGTGTGGTTTAGCCTTGGTGAGGATAAAGCCCCTAGAGTGCTCTGAAGTACAACTGAGGGAAAAAAAAAAAAAAAAAAACAACTTAAAAATGTGTGCATATGTTGAAGGAAAAATAAAAGAACAAAGAACTGGATTACATCTTGTTTTATGCCTCTTCGCCAAAGGTTTTCCTAGGACAGAACGCACAGGAGCTGCCAGGAGGCTCCTTCTGGTTTAAGGCCACCTGCTTGCCTTTGATCACGGCACAGTCACGCGTTCAGGGACACACCTTTTATGTCTCAGAGACTCGGGCCTGAGTTGCTCCTTGCGGACACTGATTCTTTTCCTTGGGCTTCCTTCTATGCTCACGTTGGGGCCTTACTGTATGTGGGCTGATGCTCAAACCGATGCTGCATTTATCAGTTTGTACGCGTGTCGGGGGCTGTGTAACTTATTTGTCAGTGGTTCATGAATATTATAGAGCCATTGTTCAGCCTAGAGAAACGGAGGACCAGAAGGTACAAATCCCATCGCTGTCCACCCCACTGAGCCCCGCCTCCCCAAGGGGCGTAGCAGACAGGCCTGTTTGGGGGTTATCTGTAGAATGTAGATCCAACTTCTCCCTTTGGAAGGTAATGAAAGAAGACATCTTTTTGTCAGCATTATCTGAAAGGTGACCCTCTTAATCAACCCGTGTAAAGTTTGCATTTTGAAACTATTTCTACTCTCCTAG
Seq C2 exon
GTCCCGCAAGCCTGGAAGGCAAGACCCTGCCCCTTACCTCGCCCTAATTTGGAGGACAAGAGGATGTGCGGAAGAGACTGTCCCATCTGCCCCGGGACAGTACACAAGCAACCACAATACAAACTAGGCCTTGCTCTTACTTGTCTTGCTCAACTCCTACCCGTTTTCCGCCCCGAGTCCCGGGTGCCAATCAGCCCCCAGTTCGGCGCTGCGGACACTCACCACGCCACTCGAGGGACGGTTCCTGGATGTGAGTCAAATCTTGGGCGATGCCCTGGTGAATCCCCAGCAGCAGCAGCTGTTGCAGCCAGAGCAGCTGCAGCATCGCTAACCATTGCACCATCAGGCACGCTAGGTGACACCCACGGGAATCAGAACCGTGTCCCCTGCTCTGGACTAGGCTGCAGGAGGCAAGAGAAGCTACCACTCTTCTTGAGGACCACGCCATCCCAGAGCCCTGGAGATGAACTCGCCTCCCTTGTCGCCACAGCGTGTACACTTGGGACTCTGGGCGTGGAGACGCAAATAGCGGAGTTTTCGCCGCCCCGCCCACACTGCTTTGGGGAGGGAGCAGGAAAAAGGGCCGGGCCCTGTGCAGCTTAAACACTCTGGCCTTTTGGGGTTAGGAGAAAGTAGGGCTAAAGCAGCACCGTGGCTCCCCTTCCCTGCTCCATGAGTGCTCAAACTTCTCTCTCGGATTTGCTGCAATTCCTGGTCACCCGTCCCCAGTGTGGGTGAGCGAGCTAATCCTCTCCAGGAGAAGAAACCTGCCCACTGGATTTGCAAGGGTTTGGCTGCCGGCAGAGGAGTCAAAAGAGCTGCCGGGTGAACTCAGGCCCGGGATGCCTCTGGAATGCAGAGCACAGGAGACACCTAGGGGCCCAACCTGGTCTTCAACATTGCTCCAGAGTAACCAGAAGTCACCTTCAGTATCCAGCTTTATCCTATTTTAAAATAACCCCAGGCTTCCGTTTTCTTAGATCATCTTCATCTAATCAAATATCCCACACTGTAGAGTTGAAGAACCCAGTCAGAAAGGTGTGTGACTGGATCTCGGTTACTCCTTAACTCAACAAAACTTACTCCCTAAATTAGTAGACAACAACAAATAAATACAAAACATCAGGCTGCCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000086578:ENSMUST00000151931:2
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:
CTTCCACAGCCTCTGCATCAG
R:
TGACTCACATCCAGGAACCGT
Band lengths:
344-1939
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