MmuINT0177512 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137915168-137915729:-
Coord C1 exon
chr5:137915583-137915729
Coord A exon
chr5:137915440-137915582
Coord C2 exon
chr5:137915168-137915439
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-Zan:NM_011741:4
Average complexity
IR-S
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
Rat
(rn6)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: