MmuINT1014855 @ mm10
Intron Retention
Gene
ENSMUSG00000092474 | Gm20478
Description
predicted gene 20478 [Source:MGI Symbol;Acc:MGI:5141943]
Coordinates
chr17:36168463-36171805:+
Coord C1 exon
chr17:36168463-36168662
Coord A exon
chr17:36168663-36171315
Coord C2 exon
chr17:36171316-36171805
Length
2653 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGA
5' ss Score
5.24
3' ss Seq
GTGAATTTTTCTCTCCTTAGAAC
3' ss Score
9.55
Exon sequences
Seq C1 exon
TATCAGGGCAGCGGCCAGCAGCAGGAGCAGCGTTCGCGGTGCCATTGCCCCATCTGGGAATGATGATACAGGAGATCTGAGGCCTTCAGGCTGCTTGGACTTTATAACCAGCGCCCGCGGAGGAGCTGTTGGTTCCTTCCCCAGGATCCTGCCACCCAATGGAGACGAGACCTGCCAGATAATTCCTGCTACCTCAGGAG
Seq A exon
GTCAGAGAGGGCATCAGATCCCCAGGAGCTATAAAGTGGTGCTGCTCCAGGGCAAGGGAGGGGCAGGAGCTGAGCTGCAGGAGAGGGTGGTGTCTGCAGGGAGCAGAGTGAGGCCCTTGTGCACCTGTGTCTTAGTGAGGGTTTCCATTGCTGTGATAAGACCCCATGACCAAAAGCAACTTGAGGAAGAAAGGGTTTCTTTCAGTTTACACTTCCACATCTCAGTCTATCATTGAAGAGATTCATGGCAGGACCTTGAGAGAGGATTCTAAGTAGGAACTGAAGCAGAGACCATGAGGATCAGTGCTAATAGCTTTGTAGTTTATGGCTTGCTCAGTCTTCTGTCTTATACAATTCGTGATCACCACCCAAGACCAACTCCAGTGGGCTGAGCCTTTCCATACTGATCATTCATAATAATTTAAAAATGCCTTATAGACTTTCCCAAAAGCGTCCTGGATGGAAGCAATTTCTCAATTCAGGATCCTCTTCTTATATATGTCTCAGTTTGTGTGGAGTTAACAAATGCAAACAGCACAGCCTCCTGGTGCAGGGTCACTCAGTGAGAGCTGAGGGAGGAGCATGTGTGAGTTCCTCCCCCTGAGCTGAGCCAGGGACCTGCCCTGTGAATGGAGGACCCAAGGTAAAACAGTTGGAATGCAAGGAATGGGAGCACAGTGGGTTCCAACTCCATTCCTGCCCCTCAGTCCTGAGAACATGTCTCTTCCTTGCCTGTTGGTTGATGCTGTTGACATAACCATGGGAGAGACTGATAAAGTCAGGGCAAGGGAGGAGATGGGGAGAGAAATAGGGACCTTTTCTTACCTCAGAGCAGGGTAATCAGATTTTGAAGAGACTGAGGAGCAGCTATGTAGGTATGTAGTTAGTTAGGTAGGTAGTTTATAGATATTCAGACAGATAGACAGACATAGAATTAAAATGGAATGAGACGTGCTCTTCTACTTTTTGGACATTGACAATTTCCCTTCTTGCTCAGACTTCATGCAGTTTTAGGTCCTGCTCCAACAGACACCTGCCCAGCTGGGGAAACATTCATGGCTGACCCTGTGGGGCTTGTTACAGTTCTTGCATGGATCAGAGAACCATGAGATTTTCAAAGATCACACACCACAGCAGAGTGCATGTGAGAGATTTATTGGGGGTGGGTAGTCAGGCTGGAAGAGATAAAATAGGGGGCTGTGGAGACCTGGGTTGGATAACAGTGAGCAACTTGTGGCCATAGTGGAAATGTGTCACATTTGGTGGTTGGTGATGATGTGGTTTCTGGCACTGAGAGGCTGAAAGCAGGCTGGTTCTGAAATGTGGGTGGTTGTTGGCTGACAGACATCCCTTCCTCTTATTTATTATATAAGGTGAGAAAATAGAAAGGGGTGACTGGTGAGGCATAAATGGGGTTACTGTGCTCTTTAGAAAGCTTTCTGTTGTCTAGGGTGGTGGTGGTGTCAACATCTTTGGTGACCCAAGAAAGCTGGATGCTGTCTAGGTTCAAAAAAAGCATGCTGTTCCCTCACTGTCCAGGCTCTGCAGGGCCATCTGCAGCTGGGGCATGCAGATGCATTCTTGGGGCATCATGGGGCAGGTGCTTTGAAGCCGTCTGGCATGCAGAGTTTGAGGAAACACCTGGAGCTAGCATTTTACTGAAGCACATCTGTATATATAAGGATCAGAAGATAAAGTTAAGGAGGCTAGAATAAATTTTTTCCTTAGCTGAACATTTTAAACTTTTAGGCCTATTAGTTGGGGGTGGGGCATCCCAAGACCACAGAAAAGGAGAGGATAACCCCACACTTAGGACTAAGCTGAACAGGCAGCAGGTGAAACAGGCTGTTGATTGACAGTTCTTATCTGCAGTCCTTTTGATCATGAGAGGTGGATTCAAGTAGATTCTTTGAACCTTAAAAGAATTTTTTGAGTTTACAGAATGAGATAAAGTTTAGACATGTAAACATACCATGTGTAATCTGTACTGAACTTCTCATTGTAGAAAAGGCAGCAGACTCGTGCCTTTGAGTCTTAGTAAAAGCTTGGAGACCCTGAAAGAGGGGTTTGAGGTAAAAGCATGAATAGGGCATATACAGATTGGACAGATGTTTTTAGCTCAATGAGAAGCCCTTTTAAGTCTATATACTTAGAGACAAGCGTAGGAAATTCATAATCTTGAGCTTGTGACTGTTATAATAGCAATCAATCACTGATTATCATAGCTAGATCAATAACTCATCAGAACACCAATGATTAATGTGAAAACTTTGGACTCTTTAGATCTTAATATAACAATAGCATAGAGAGGGAAGAAATCTGAAACATTTTTCATTTTTACATACATTGTAAATCACTTTCTTAAACCTTTACATTTTATATACCTTAAAACTTTAAAAACACCCTTTTGACCTTTATAAATATGATTCACAGATCTGAAAGCACACTTTTAAGAATGTTGTAACGTACTTAACATTTCATGTCTTTGGAAGTTACATAAACTCTACAGTTTTTTTTATCCAATTATTCACCACAACTCACATGCCAGAGATTGGTTAGTGAGAGCAAACATCCTGGTAAAACAACTTCCTTTACATAAAGAAATAGTAAGAGGCTACATTGAATTCTGTTGTGTGAATTTTTCTCTCCTTAG
Seq C2 exon
AACCTGGTAACAATGTGATCAGTGTGGAGACCCAGTAGCAACTCTAGGAAAGTGTCCATGATTTTTACACATGAGGAGAACTGAGAAGCACCTGAAGCCTGTGCTGTTGCTTGCTGAGAAACTGACAAAGCTCTCCCTAGTCCACACCATCAGAGATCTGGGAAGGATGAATTTCTCCTGAGAAAGCGGGAAGTACAGACCAAGCAACTTCCAAATCTATTAAAAATGACAGACTTATCTGTTACCTAGACAACCACTGTGGTATACTGATTTTATTGGGAACAGAGGACCCAGGGAAACATCAGTCTCTTCTGCCCAGTCCAGAAGATCCAAAGCAAGGCCATCAACTCCCTAGTTGTCCACAGTTTGTCCAGGGTCCTGGTGACAGATTAGATGAAAGGCAGATTTTCACCCAGGCGGTCTGGCTTTGTCACCTTTAAAGCAAGCTCAAAGTGGAGTTCTTCTCTACCCCATCATCATCTGTGAAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000092474:ENSMUST00000173648:2
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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Cow
(bosTau6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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