MmuINT0170578 @ mm9
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 homolog A (C. elegans) [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55098554-55099441:+
Coord C1 exon
chr13:55098554-55098721
Coord A exon
chr13:55098722-55099276
Coord C2 exon
chr13:55099277-55099441
Length
555 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
TGCCTGTCTCTCTTGTTCAGTGG
3' ss Score
9.56
Exon sequences
Seq C1 exon
TGAACGGTGGGTGGTCGACGTGGACCGAGTGGTCCGTCTGCAGTGCCAGCTGTGGGCGTGGCTGGCAGAAACGGAGCCGGAGCTGCACCAACCCGGCACCTCTCAACGGGGGCGCCTTCTGTGAGGGGCAGAATGTCCAGAAAACAGCCTGCGCCACTCTGTGCCCAG
Seq A exon
GTACCGGCAGCCACCGACTCCTGCATCGTTCCTCACCACGCCATCTCCGTGGCCTGGCTCCATCGCACCCACCAGCCTGCCCGCCCCCTCCCCCATGGCTCCATCCCACCCGCCTGCCACACACAGGGCCAGGCTCAGTCTGAGGTGGGGATCAGGGTGCAGTGTGGTCAGAGTCAAGGGCTCGGTTTAGGGTCTAAGGTGCAGTTTTAGGACAGGATCTAGGCTCCGCCTGGGGCTGCACAATCCACCTGTGCCTGGACCAGAAGGGCCATCATGTGACTAGGAGCCCTTACCGCCTCAGGACAGGGACAGCCTCCCTGGGTTGAGAGAGCCGAGCAGGCCCCAGCATCATTGCGTCTCCTTGTCATTAGCATGTGTCATCAAGGCTAGCTGGACACTCAAGGTCCGACCGATCAGAGGGCCTGACCCTGGCATTGTACCCAAGCCCAGGCCCTGCCTGGTCCAGATGACTAGCGGGGCCACCCAGGCCAGCCACCCAGGCCAACCTCCTAAGCTGACTGTCCCATTCCCTCTCTGCCTGTCTCTCTTGTTCAG
Seq C2 exon
TGGATGGGAGCTGGAGCCCATGGAGTAAGTGGTCAGCCTGCGGGCTTGACTGCACCCACTGGCGGAGCCGGGAGTGCTCCGACCCAGCGCCCCGCAACGGAGGTGAGGAGTGCCGGGGTGCTGACCTGGACACCCGCAACTGTACCAGTGACCTCTGCCTGCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876-Unc5a:NM_153131:6
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=0.057
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.7)
A:
NA
C2:
PF121913=stn_TNFRSF12A=FE(35.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACGGTGGGTGGTCGAC
R:
CAGGCAGAGGTCACTGGTACA
Band lengths:
329-884
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: