MmuINT0177562 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137820176-137822154:-
Coord C1 exon
chr5:137822014-137822154
Coord A exon
chr5:137820306-137822013
Coord C2 exon
chr5:137820176-137820305
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-Zan:NM_011741:85
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=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: