MmuINT0177520 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137857432-137858407:-
Coord C1 exon
chr5:137858266-137858407
Coord A exon
chr5:137857650-137858265
Coord C2 exon
chr5:137857432-137857649
Length
616 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGG
5' ss Score
4.7
3' ss Seq
TCACTCTCTCTCCCCCACAGCTC
3' ss Score
12.25
Exon sequences
Seq C1 exon
GCAGATAAGACCTGGATCAACAGAGGCTGTACTCAGAGCTGCACCTGCAAGGGAGGGGCCATCCAGTGCCAGAAATTTCAGTGTCCCTCAGAGACTTACTGCAAGGACATCGAGGACGGCAACAGTAACTGCACCAGAATCT
Seq A exon
GTAAGGGAGCCATGGTGGAGGTGGAGAATGTATGCATGTGGCTACAGAGCTCAGAGGCAGAGCAAAGTGGAGCTTAGTTCCCCTGGCCTCAGAGGCCCGAGATAGGAAAGACCACAGTGAGGAGGGCTTTTGGGAACCTTTGACTCTGCTACGTCCCTTCTCTCTCTTAGTTCTCCATGGTTAGTCCCCACATTAGCTTGAGATAGCCCTTCATCTTTACGTCTTACTTTAAATTGCGTGTATTAGTTTATGTCAATGGGTGGGTATGTCCACATGAGTGCAACATGCATGGCAGCCAGAGGAGTGGACTGAATCCCCTTGGAGCTGAATCCCCCAGAAACTGTGAGCAGCCCAATGTGGGTGAGACGAACCCTGCTCAGTTCCTCTGCAAGACCAGCAGCACTCCTAACTGCAGAACCATCTCTCAGCTGCAAGTGATCCAGTCTTTCTTTCCTTGAAGCTGGGCACAAAGTTCTCAATGACTAAATATGTGATGAGTGGACAACAGAAGGGGGAAAGCGCTACACTCGCTTGGGCATTCTAGTGTTGTATCTGTAACCTCTGCTTGCTCTGACCTGTGTTCCTCTCCCCTGACCTCACTCTCTCTCCCCCACAG
Seq C2 exon
CTCTGCAGTGCCCAGCCAACAGCAACTTCACCAGCTGCCTGCCTTCTTGTCAGCCCTCCTGCTCTAATACGGATGTCCACTGTGAGGGATCCAGCCCCAACGCTCTCTCCTCCTGCAGGGAGGGCTGTGTCTGTCAATCTGGCTACGTGTTGCATAATGACAAGTGTATACTCAGAAATCAGTGTGGCTGCAAAGATGCCCAGGGTGCTCTCATCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:47
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:
PF127142=TILa=PD(78.6=91.7)
A:
NA
C2:
PF0182612=TIL=WD(100=80.8),PF127142=TILa=PU(17.9=13.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACCTGGATCAACAGAGGCT
R:
GAGCACCCTGGGCATCTTTG
Band lengths:
345-961
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: