MmuINT0170572 @ mm9
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 homolog A (C. elegans) [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55105139-55106017:+
Coord C1 exon
chr13:55105139-55105303
Coord A exon
chr13:55105304-55105838
Coord C2 exon
chr13:55105839-55106017
Length
535 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
GCAAACATCCCATGATACAGGAC
3' ss Score
2.2
Exon sequences
Seq C1 exon
GAGATCCCTTTTTACCACATCTGGAATGGCACTCAGCAGTATCTGCACTGCACCTTCACCCTGGAGCGCGTCAATGCCAGCACCAGCGACCTGGCCTGCAAGGTGTGGGTGTGGCAGGTGGAGGGAGATGGACAGAGCTTCAACATCAACTTTAACATCACTAAG
Seq A exon
GTGGGCGACAAGATGGTGTGCTCCTAGTACCGACCATCCCAGGCAGGCTCCACCTCTGCGCGTAGCTGCCCACCAGCCACCGGCCTAACTTGAGCTGCCCCTTCTAGCTTCTTCCAAGTTTCTGGGGACATAGGTGTAGGTGCTATATGAGGAGCGGGAGGAGGTAGAGTTGTCCTGGGGGCTCTGGAGCGCTTCCCCAAAGAGGGACTTTGCACCGGGCCCCAAAGGATAGGCAGGAGCGGGAATCTGACAGACTGCAGGGTTGGGAGAAGGCATTTGGGGCAGCAGGCACTGAGCTGAGAGCATAGCCATGGATGGTCAGCAGAGCAATAGTGTGGGGAGCAGGGAGGTGTTCTCCGTCACCAACTGTGGCCAGGTGACTTCATCTCTGAGATCTAAAGAGTAAAGCCCTGGTGTACCAGGGAGAGGATGCCCTGCTGCCCCCATTGTCTGGGGTTATCTGGAAACTCCCCTGGCCGAGGCGGCAGGGGTCAGAGTTCTAACTGGTACCTGTTGCAAACATCCCATGATACAG
Seq C2 exon
GACACGAGGTTTGCTGAAATGCTGGCTCTGGAGAGTGAAGGGGGGGTCCCAGCCCTGGTGGGCCCCAGTGCCTTCAAGATCCCCTTCCTCATTCGGCAAAAGATCATTACCAGCCTGGACCCACCCTGCAGCCGGGGCGCCGACTGGCGAACTCTAGCCCAGAAACTTCACCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876-Unc5a:NM_153131:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053117=Death=PU(36.0=45.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCCCTTTTTACCACATCTGGA
R:
GTCCAGGTGAAGTTTCTGGGC
Band lengths:
342-877
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: