MmuINT0170612 @ mm9
Intron Retention
Gene
ENSMUSG00000059921 | Unc5c
Description
unc-5 homolog C (C. elegans) [Source:MGI Symbol;Acc:MGI:1095412]
Coordinates
chr3:141452693-141454843:+
Coord C1 exon
chr3:141452693-141453037
Coord A exon
chr3:141453038-141454755
Coord C2 exon
chr3:141454756-141454843
Length
1718 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TTTCTCTTTTTGCTATTCAGGAG
3' ss Score
9.51
Exon sequences
Seq C1 exon
ATCTCCTGGCTGTCCCCCCTGACCTCACCTCAGCTGCAGCCATGTACAGGGGACCTGTCTATGCTCTGCATGATGTCTCAGACAAAATCCCAATGACCAACTCTCCAATTCTGGACCCACTACCCAACTTGAAAATCAAAGTGTACAACAGCTCAGGTGCTGTCACTCCTCAGGATGACCTTGCCGAGTTCTCATCCAAACTGTCACCCCAGATGACCCAGTCCTTGCTAGAGAATGAGGCCCTTAACCTGAAGAACCAGAGCCTCGCAAGACAGACTGACCCATCCTGCACAGCATTTGGTACCTTCAACTCTCTTGGGGGTCACCTCATCATTCCTAATTCAG
Seq A exon
GTAATTCCTGAAAATTTAAGTGACAAAGATGCAGCTTGAAGTCATATTGTAGTCTCTATAATCTTATCTCTCTTTGTTTATAATGAACCTGAGATGTTAGATGTAGTCTACCTCAAAATTCCATTCAGTATATCTCAAGCACTACTTCATATAAAATCTGCAAAATGTTTTTAATCTCATCCAACTAACTCTGAATTTAGTTCCTCTAGAAAGACCTTTTTGCTTGAATGGAGTTCAGAACTTGTACCAGCTGCCTTAAAGGCAATTAATCAACCCAGGTAGAAAATGCAATCACTTGGTTCAGTCCACTGTTCTCCAGGAAGCTATATTTTAGAAAACTATTTCATAAATGATTAGAAATATAACAGCAGAGCCAGGCGGTGATGGTGGACACCTTTAATCCCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGATAGCCAGGGCTACATAGAGAAACCCTGTCCAGAAAAAAAAGAAGAAGAAGAAGAAAGAAAGGAAGGAAGAAAGAAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGAAAGAAAGAAAGAAAGAAATATAACAGCAGACACAAAATCTTTATTTATTAATTATCCAGTATATCATTCAACCAGAGAGTACCTAAATTATTTATTCCAGTCTATGATATATTGATCTACAATTTCAGCTTCATCCAATATCAATTTGTAGTTGTATTTGTTTATTAGTTTATTATATAGTTTAGAAATACCTAAAGAATAAAAAACACAGTGTTCTTCCATAAGTCCGTAGCTGCCAATGTTGAAAGTTGAAGTTTATTTTTAGCAGTACTGATAGACTGGCAGTCATAAGTTATAACACAGCTAATGTTTAATTTCACTGACGTATTGTGTTAATGCATGTAAAATTGTGTTATACACACATGCACAATGCACATACATGCACACACACACACACACACACACACACACACACACATTCCTTAAACAAAAATTTCCACCATGCTTTAGGAACCAGGATTTCCAGGTGGTCTTGACACCAGCTCAAATTGTCACAGTATTATCCGCGGCCGAGTTTTCACACAGTTCATACCAACAATCCTTCTCATTGGCACACTAAGCAACATATGAGAAGTGCCGTGCCGTGACCTGTTGCAGCTGAGTAAGATGTTGCTCAATCCATAGAGTTGTGTATAATAAATTATCCTTATCTCTAACTCTGCTGTGAAATAACACTGATGCTCACCAGATATTTTAGAGGGGAAAAATAAAAAGGTTTTCAAATCTGGCTGAGGTTAGCATTCCCCTGACTTTGGATTTCATGAGGAACTTTTTTTTTTTTTTTTAATCAAAAACAATGCATCTTTGCAGCTGTTTAAAATTTTAATAGCAGTTTTTGGTTTCCCCTCAATTTACAAGAAAAACAGCAGTGGAACCATCTGTCGATTCCTTAAATAAAACACGAACTTTCCAAATGACATCACTCTCTTAAGAAATTCCATAACAGTTCAAAGGGAGCTGTGGCAGAATGCAAGGCCAGCAAGAAGAGAAGGCAGCTATAGACCTTTACATGTCTTTAGGGAAAATGTAAAGAGTGCTGCCTCATAGGCACAAAATCCGAGTCCTTTTTGCATGCTGCAAAAGCATTCTAGAAGTTTCTTTTTGGTTCACAGGTCTTATACAGTACTTTTCTCTTTTTGCTATTCAG
Seq C2 exon
GAGTAAGCTTGCTGATTCCCGCTGGGGCCATTCCTCAGGGGAGAGTCTATGAAATGTATGTGACTGTACACAGGAAAGAAAATATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059921-Unc5c:NM_009472:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.133
Domain overlap (PFAM):
C1:
PF0079115=ZU5=PU(20.4=18.1)
A:
NA
C2:
PF0079115=ZU5=FE(28.2=100)
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:
CCTCAGCTGCAGCCATGTAC
R:
CAGCGGGAATCAGCAAGCTTA
Band lengths:
342-2060
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: