MmuINT0177535 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137847070-137847774:-
Coord C1 exon
chr5:137847557-137847774
Coord A exon
chr5:137847200-137847556
Coord C2 exon
chr5:137847070-137847199
Length
357 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
ATTTCCTGTGGCTTCTGCAGGCT
3' ss Score
9.21
Exon sequences
Seq C1 exon
CTCTGCAGTGCCCCACCCACAGCAACTACACCGACTGCCTTCCCTTCTGTCTCCCTTCCTGCTTGGACCCCAGTGCCCTCTGTGGGGGCACCAGCCCTAAAGGCCCCTCTACTTGCAAGGAGGGCTGCGTCTGTCAACCTGGCTACGTGCTGGATAAAGACAAGTGTATTCTTAAAATTGAGTGTGGCTGCAGAGACACCCAGGGCGCTGTCATTCCG
Seq A exon
GTGAGTGAGCATGGACATCAGAATGGTGGAGGGGTCAGCCAGTAGACTCAACTGGTGTGAAATCTATAGACAATGATGCAGATGTAAGTAAGCCAGGCAAGAGGGGACACAGAGGTGGCTCAGTGCTTAAGAGCACATACCTACATACCTGTCTAACAAGAGGATTGGGGTCTGGGTCCCAGCACTACGTGAGGTTACTCACAAACACCTAAAACTCAGCTCTAAGAGATTGCCGTGTCTTCTGGCCTCCATGGACAGTCATATGCATATACTTACATGGGCACGCACACACACACACACATACATAAATAGCCACCCTCAGATTTTCCTTCCTTCCATTTCCTGTGGCTTCTGCAG
Seq C2 exon
GCTGGCAAGACATGGCTCTCCACAGGCTGTATCCAGAGCTGTGCCTGCGTGGAAGGGACCATTCAGTGCCAGAATTTCCAGTGTCCCCCCGGAACGTACTGCAACCACAACAATAACTGTGCTAAAATAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:60
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:
PF0182612=TIL=WD(100=80.8),PF127142=TILa=PU(18.9=13.7)
A:
NA
C2:
PF127142=TILa=PD(77.4=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCAGTGCCCCACCC
R:
GTATTTTAGCACAGTTATTGTTGTGG
Band lengths:
348-705
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: