MmuINT0177512 @ mm10
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137473940-137474501:-
Coord C1 exon
chr5:137474355-137474501
Coord A exon
chr5:137474212-137474354
Coord C2 exon
chr5:137473940-137474211
Length
143 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TCCACTCTGTCTCCCCACAGAGG
3' ss Score
12.35
Exon sequences
Seq C1 exon
CCATTCTCTCCAAGTGTGACTTTGAAGACAATTCCAGACCTTTCTGTGACTGGTCTCAAATGTCTGCAGATGATGGGGACTGGATTCGGACTACTGGACCCTCCCTGACGGGCACTTCTGGCCCCCCTGGGGGGTACCCCAATGGAG
Seq A exon
GTAAGTGGTTTGAGGGAAGCCTAAAGTTTGGAGAGGGGATAAAGTTGGGAGGGGACTGCTGGAAGCAGAGCTGAGCAGGGGGTGGATGGGATGGCTCCTGCGGACAGCAAAGACTCAGCCCTTTCCACTCTGTCTCCCCACAG
Seq C2 exon
AGGGGTATTACCTGCACATGGATCCCAAGACCTTCCCTCAGGGCGGAGTGGCACGCCTGCGTAGCCCTGACATATGGGAGCAAGGCCCCCTTTGCGTCCATTTTGCTTTCCACATGTTCGGGCTGTCATGGGGCGCCCAGCTCAGACTGCTGCTGCTCAGGGGCCGGAAGCACCTCCGGCCCTATGTACTCTGGAAACATGTGAACACCCAGAGTCCCTCTTGGATGCCCACCACTGTCACTGTACCAGCAGATCATGATATACCAAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173:ENSMUST00000117564:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(26.8=88.0)
A:
NA
C2:
PF0062918=MAM=FE(54.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GACTACTGGACCCTCCCTGAC
R:
TTCCAGAGTACATAGGGCCGG
Band lengths:
255-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types