MmuINT0177481 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137908181-137909701:-
Coord C1 exon
chr5:137909555-137909701
Coord A exon
chr5:137908453-137909554
Coord C2 exon
chr5:137908181-137908452
Length
1102 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GGTTCCCTTCTTTTATCCAGGGG
3' ss Score
6.62
Exon sequences
Seq C1 exon
AGAGCTTTCCCCAGTGCGACTTCGAAGACAGAGTCCATCCTTTCTGCGACTGGAACCAGGTGTATGGAGACATGGGACACTGGAGCTGGGGAAGTAAAAGTGTACCCACCCTCATTGCAGGGTCCCCAAGAGAGTTCCCATATGGAG
Seq A exon
GTGAGGGGACAGAGGACCTCGAGGTTATGAGTCATAGCATCTGTATCTAGTCAGGGACTTGATGGTGTCACTGCCGGCAGATAATGTGTTCATGGATGAGAATCAAGAGCCAGAAAGACTATGCTTAGGTTGGTCAGAGTAGTGGGATCATTGCAACCCAGCAGAAAATCCAAGCTTTGTTGTATAGGCACAGATTAATGGTAGAACATTTGCTTAGAATCCCCCATGGAAGGGCTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACAATGGAGCACATGCTTAGCATGTGCAGTTCCGTACGTTCTATCTCTAGCTCTGGGGGTGAGATGGAGAAGAGCACCTGAGGTCTTGCTCTGAGCCCAAGACTTCAAAATCCATGGTCTTTCAGCTGCCTGTGATGCCGATAGACTCTGGACTGTAGACTGGGTTTCCTGCATCTTTTGGCTCTCTTCAGTTAATGTCCTGAGTAAGCACATTGTAGCAGTGCATACTTGGGATGTGTAGGCTAAGGCAGGAACACTGTAAGTTCCAGGCCAGCCTGAATGATAAAACTTAGAAACTAAAGAAAACAGCTGGACATGATGGTGCACACCTTTAATCCCAGCACCTTGGAGGTAGAGGCAGGAGGATCTCTGTGAATTCAGCCTGGTCTACAGAGTGACTTCCAGGACAGCCAGGGCTACACAGAAAAACCCTGTCTTCAAAAATAAAACAAAACAAACAAATAAAAAAAAAACAAAAACAAAATAAGTGGCTGGAGAGATGGTTCAGCGGTTAAAAGCACTGACTACTCTTCCAGAGGTCCTGAGTTCAATTCCCAGGAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGACGCCCTCTTCTGGTGTATCTGAAGACATGACAGTGCACCCGTATGCTTAAATAAAATCTTTAAAACAAAACAAAACAAGCGAAGAAAAAAATACTACTATGCATATTTGGTTGTATATTCACTTAGAAAGCTAGACATGGTTGCAGCAAGCAGCTAGACTTGTCTTCCACACACGCTTAGGCTTGGCGTCTTATTGTTCTGGTTCCCTTCTTTTATCCAG
Seq C2 exon
GGGAGCATTACATTTTCTTCGATTCAGTGAAGTTATCCCAGGAGGGGCAGTCTGCCAGGTTGGTGAGTCCACCATTCTGTGCCCCTGGGGACATCTGTGTGGAGTTTGCTTACCACATGTACGGCCTTGGCAAAGGTACCACACTCAAGCTCCTGTTGGGAAGTCCTGCGGGTAGTTTTCCCATTCCTCTGTGGAACCGTGTTGGGTCTCAGAGCTCTGGCTGGATGAACAGCTCTGTCACCATCCCTAAGGGATATCAGCAGCCCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:11
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:
PF0062918=MAM=PD(0.1=0.0),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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGCGACTTCGAAGACAG
R:
CTCTGAGACCCAACACGGTTC
Band lengths:
351-1453
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: