MmuINT0170579 @ mm9
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 homolog A (C. elegans) [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55099277-55100885:+
Coord C1 exon
chr13:55099277-55099441
Coord A exon
chr13:55099442-55100696
Coord C2 exon
chr13:55100697-55100885
Length
1255 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GACCACACTTTCTCTTGCAGCCT
3' ss Score
9.29
Exon sequences
Seq C1 exon
TGGATGGGAGCTGGAGCCCATGGAGTAAGTGGTCAGCCTGCGGGCTTGACTGCACCCACTGGCGGAGCCGGGAGTGCTCCGACCCAGCGCCCCGCAACGGAGGTGAGGAGTGCCGGGGTGCTGACCTGGACACCCGCAACTGTACCAGTGACCTCTGCCTGCACA
Seq A exon
GTGAGTCTTCTCTGCCCCAGGGCTCACCTCCGTCTGACAGCCCTATGGGCTGTGGTCAGGGCAGCCACTCTCCTGCCTGTGTCTCTCCAAAGCTTGGGAGCCCAGGGGTCCCTTTCATCTCTAGCACACTCTTCCCTGTTACACAGACACACCACCTTCCCCCTGAGACACATGCAGATGTGAATCTTGACCCCTGTACATCCAACTGCTCCCCCGCGGCTTTGAAATTATCCCGTTCCCCAAGCTCACACATAAGTCCTGTGGGGGTGCTGGGCTTGTGAGGCCTGTTAATTACAAGGCCATAACTAACAATTAAAGATCTCTGTTGGATTGTTTTTTTCCTTTAGACTACACCCTCCCCTGTTCTTTCAATTAAAAACCTAATTATCTGTGTCAATTCCTTTCTGATGGACATTTCTTCCATTATGCAAAACTCTTAAAAATCGATAGTGCTTCCTCCAAGCAGTTGGTCCCCCACCCACCCCAGTTTCAGGGCTGGTGGTATACACAAGGGCTCACACTGTCCTGGAAACACCTGAGAAACTGACCACCCATGTATCTGCCTATTTTCTATTTCTATAATGAACTAGCAAAAGAAATTTATTAGTTTTAGAGGCTCAAATTCCAAATAGCGTGATGCTGGCTCTGGTAAATGTGCCTTCTACCCCAAGCCACATTTCTTGGTGGCAGATAGCACCATGTCAGTACTGTAGACAAGAGAGAGATCACGTGTCAGGAAGAGAAAAAGACAGACACAGAGACAGGTAGACACGGAAAGATGGACAGCCCCATGGTCTAAGAGCAGCACTCATAATGATGTAATGCCTCCCCACTGGGGCCCACCTCCTAAAAGGCCCCACTGCTGCTCATATTGCCACAATGGGGACCACACCTGTCAATATGAATCCTTAGGCAGGCATGTGCAAACTATAGCACCATACTTAGGGTCTCTCAGGAGTTCACCTTGCCCCAGACACCCTGACCCCCAGCCTAGGAGCCAAGGATATACCACCACTCACCCCGGTGAAGTAGCTCTTCCCCTGCTCCACTCTGCCTGTGAGGGTGTGACTTGCTCAATCCCAAGCAAGGTTGTGGTGGGTATAGAACTAGGATGTACCCACCAATACCACGCTCCCTGCCACGTGCCCACTGCCCAGGGGGTGCTGAGATCCTATTCTCCTGGGGATAAACCATGGGCCTCTCCTCTGAAGCCTCTACATCCCTGCCATTCTCAAGACCACACTTTCTCTTGCAG
Seq C2 exon
CCTCTTCCGGCCCCGAGGACGTGGCTCTCTACATCGGCCTCGTCGCCGTGGCCGTGTGCCTCATCTTGCTGCTGCTGGTCCTCGTCCTCATCTACTGCCGCAAGAAGGAAGGACTGGACTCAGACGTGGCTGACTCATCCATCCTTACCTCAGGCTTCCAGCCTGTCAGCATCAAGCCCAGCAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876-Unc5a:NM_153131:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF121913=stn_TNFRSF12A=FE(35.1=100)
A:
NA
C2:
PF121913=stn_TNFRSF12A=PD(49.5=75.0),PF150691=FAM163=PU(50.0=78.1)
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:
GAGCTGGAGCCCATGGAGTAA
R:
CTTTGCTGGGCTTGATGCTGA
Band lengths:
344-1599
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: