MmuINT0177506 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137875121-137876980:-
Coord C1 exon
chr5:137876856-137876980
Coord A exon
chr5:137875420-137876855
Coord C2 exon
chr5:137875121-137875419
Length
1436 bp
Sequences
Splice sites
5' ss Seq
AAAGTAATG
5' ss Score
1.16
3' ss Seq
CCTTGCTTTTCCCATTCTAGTTG
3' ss Score
10.44
Exon sequences
Seq C1 exon
GTCTGCGGTGTGTGTGGCAATTTCAACGGCGAAGAAGAGGATGAGCTCATGACACCCAGTGGTGAACTAGCAGAGGATGAGCAGGAGTTCATGAATAGCTGGAAAGATAAGAGCATGGACCCAAA
Seq A exon
GTAATGGTCCCCTAAGTCCATCCATCCTTCTTTCCTTCCATTCCTTTCTCTCTTCCTTCTTCACCTCCACCCTTTCAGGACAGGGTCTCATTGTATGACTCCGGCTGGCCTGGAACTTAATAGATTAACCAAGTTAGCCTTGAACTCACCAATGGCCTCTTGCTTTGCCTCCTGCAGGCTGGGATTACAAGCATGCACCGCCACACCTGGCTCCTTCCATCGTAACTTCCTTCCTTCTTTCCTTCCTTCCTTCCTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTCTCTCTCTCTTTCTTTCTTTCTTTCTTTCTTTCTAACTTTCTTTTTCTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTTTTTCTTTCTTTCTTCTTCTTCTCCCTCTCTTCTTCTTCCTCCTCCTCCTCCTTTTTGTAGTATAGTGGGCCTCAAACACTCCAGGCAAGGGCCCTAACCTGCAACTATATTCCCAACTTTCATTTTATTTTATGTATTGTTACTATGTATATATGGTGTGTGTGTGACTATGGGCTGGAACCTGCCATGGTGCACATGTGAGATCTGGGATCAGCAAGTACTTTTACCTGTTGAGCTATTTTGCCATTACCTTTCCTGTGTGGGTGTGGGTGCATGCGCATGTGAACAAGATTGTGTGTGTTTAAGGCAAAGGCCTATTGTGTATTCCACACCAGCCTCAAACTCTCCAAACAGAAACAGGGTTTCTTTGTGTAGCCCTGGCTGTCCTGGAGCTTGCTCTGTAGACCAAGCTGGCCTCAAACTCAAGAAATTTGCCTGCCTCTGCCTCCCAGTTGCTGGGATTGAAGGTATTCACCACAACCACCCGGTGAACAACTTTTTAAAAAAAGGTTTATCAGTTTTGTTTTGTTTTATTTTATTTAGTGTTTTATCTGTGTATTTGCCTGGTACCCATGGTAATTGGCAGAAGTAATTGGATCCTCTGAAACTGGAGTTACAGATGCTTGCGAACTATCGTGTGTACTGGACAGTGATCGTGGGTCCTCTCTAAGACCAAGTTCTTAACCCCTGGAGCTGTTTCTCCGGCCTCAGTGAACAACTTCATATTTTATCTTTTAGTTTTATGAATTCTGTTGTGTGTGTCCATATTTCATGATGCATGCGTGAAGGTCAGAGGACAATTTGCATGCGTCTGTTCTCTCCCTCCTTATTACAGAGGTTCCTGGTCAGATTCGGGTCCTGAGACTTGGTGGCACACACTTGCTGATTTATCTCAGCAGCCCCAGCTTTGCGCTTCCGATCCTCCAGCCTCCCACTTCCCCCTTCCAAGCGTTGAGAGAGCAGGCGTCCACCACCATGCCCAGCTCTTCTGAGACCTTGCTTTTCCCATTCTAG
Seq C2 exon
TTGCCAGAAAATCGAAGGGCAGAACCTCCAAGTGGAACAGCAGGAGATCATGAATGGAAAATGCAGGCCCATTGACTTTGAGAAAGCCCAGGCAAACTGCCAAACTGCCCTTCAGGGTCCTGCCTGGGCCCATTGTTCCTCCCGGGTACCCATCAAGCCCTTCTTGCTGAAGTGTATGAACAGCTTCTGTGAATTCAGAGAGCTCTTCCGTGCTCTTTGTGATTCTCTGCAGTCCTTTGAAGATGCCTGCCAGAACCAGGGGCTCAAGCCACCTATCTGGAGGAACAGCAGCTTCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(13.1=50.0)
A:
NA
C2:
NO
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:
AGCAGAGGATGAGCAGGAGTT
R:
CAGAAGCTGCTGTTCCTCCAG
Band lengths:
354-1790
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: