MmuINT1035327 @ mm10
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137378948-137380926:-
Coord C1 exon
chr5:137380786-137380926
Coord A exon
chr5:137379078-137380785
Coord C2 exon
chr5:137378948-137379077
Length
1708 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACA
5' ss Score
6.25
3' ss Seq
CTGTCACCATTTCCTTTCAGAAG
3' ss Score
8.21
Exon sequences
Seq C1 exon
ACAGCCCTTGTCTGCAGAACCCCTGTCACAATGATGGCCGGTGTGAGGAGCAGGGGGCCACCTTCATCTGCCACTGTGACTTCGGTTATGGAGGAGAATTCTGCACAGAGCCTCAGGATATCACAACCAGAAAAAAGATAG
Seq A exon
GTAACAGCCACATCCCCATATAATATCTATTATATATCATAGGTATGTCATAGAAATGACATTGATACATAAAATATCCAATAGTATTAATCTATCATAAGATATTACATATAGTATAATAAGCAAGTATTATAGACAATATTGTGTATTATATACCATATATGATATATAAAGTATATAATTACATATCACATATATAGCTTATGGTTATATGTGAATATTTTGGGTGATTATACTAATATATGTTAAATGTATAATATATAGATTACGCTAATATGCTATATATTTTAGATATCATGAGTCATATACTATTAGTTATATAATATATTCCATATAATATATTTTACATATTTGAGGGATAGTTAGTTAGTTAGTTAGTTGTTGTGGAGGTCAGAGAACAGCCCAAGGAAATCACTTCTTTCCTTCCACTGTGGGAATCCCTCCATACAGCTCAGGTCTCTAGCTGGTGCCGAGCACCTTGACCTATGCACCTGTCTTGCCTAATCATGTATTTTACACTACATAACATACGTGTAACATTCAGGGACAGTGCTACAGGCCTATAATACTAGTATATTGGAGGTGAAGACAAGAAGATTGAGAGTCCAAGGTCATCCTCAGCTATATAGTGAGTTTGAGGCCAGCCGTGTTGTATGAAATCCTGTCTCAGTTAAAAGCCCCTAAAATATGTATTACATAATAGTATATTACATAGGAAATGTAATAGAGATCATGTTGCTGTGTGATTCCCCCAAAATCTGCAAGACAGCAATCCTCAATGGTCTTTTGCCCATCTCCTAGTGGAACAATCTGGAATCTTCTCTGTGAACCACCACCACTCTTTTGGTTGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTAGTGGTGGTAGTGGTGGTAGTGGTAGTGGTGGTGATGATGGTGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGGGAGGGAGGGATAGAGAGAGGGAGGGGTCAGTGAGACAGGAGGGTTAATAACCCTGAGCTCAAGGCCAGTCCACCTAGGCTACACGGTTCCAGGATAGCCTAGGTGTGAGCAAGGCCCTGTCTCAAAAGATCAAGACAGCACGTAGGGGAGAGCTGCAGATGACACCGGCGTGGACGGCCCTTGTGAAGTCCTGTGGGGGCTGTGACTGGAAATAGTAAGGACCTTCAAGTCCCTGAGCCTCCTGGAGGGAGAACTAGACACTAAGCGAGTTAGGAGGACAAGATGCCTTACTTAATCTGACAGCAAAGTACCAAAAAGAAGTGCTACTTCCAAATATCCCCCAATCTCCCACCCTGTCACCCTGTCACCCTGTCACCTGTCCCTGTCATGCATGGGGCGGGGGGCGGGGCATGCACAGGCACCGTATGCATGTAGAGGCCAGAGGACAACCTTGGGTGTGAGTGCTGAGATGGCTTAGAGCCCTGACAAGCTGGCTCAGTGGGGCAAGGTGCTGGCTTCCAAGCCTGATGACCGGAATTTGATCCCAGGGCCCCACAGAACTAACTCCTGCAGGTTATCCCCCCACACTCCCCCACACACGTCTTCACCTCACATCTTGCTCTTGCCGGGACCACAGGCATGCACTACCACAGTAGCTGTGGGATCTGTGCTTGTAAAGGTAACTTTACCCGGAGCCACCACCCCAGGGCCTGTCACCATTTCCTTTCAG
Seq C2 exon
AAGCATCCAGCTTAGTGGCCATCCTGCCGGGAGTGCTTGTGATGGTGTTAGTCCCTGTCTTACTGCCCAGAGTGTATGTTTACATGGCAACAAGAACAACCATGGGGAGGAGGAGGATGAAGAGGAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173:ENSMUST00000117564:85
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
CAGCCCTTGTCTGCAGAACC
R:
TCTTTCCTCTTCATCCTCCTCCT
Band lengths:
270-1978
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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