MmuINT0178382 @ mm10
Intron Retention
Gene
ENSMUSG00000039686 | Zer1
Description
zyg-11 related, cell cycle regulator [Source:MGI Symbol;Acc:MGI:2442511]
Coordinates
chr2:30101036-30101953:-
Coord C1 exon
chr2:30101765-30101953
Coord A exon
chr2:30101134-30101764
Coord C2 exon
chr2:30101036-30101133
Length
631 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
AAGTGGTCTCTCTCCTGCAGGTC
3' ss Score
10.79
Exon sequences
Seq C1 exon
CAACCTGCTGGAGAGCAAGGCCGACGGCATTGAGGTTTCTTACAACGCCTGTGGTGTCCTCTCTCACATCATGTTTGATGGGCCTGAGGCCTGGGGTGTCTGTGAACCTCAGAGGGCAGAGGTGGAGGATCGTATGTGGGCGGCCATCCAGAGCTGGGATATCAACTCCCGAAGGAATATCAACTACAG
Seq A exon
GTCAGAGATGGGAAGGTACACAGCATGGAGAATCAGAAGCTGCTTGTCTCAACATGGGGTGCCAGAGCTTTCCACCCTGGTCCTGTTCTCCAAAGGTGTTTGCCCTCACTCACTGTAAGGTCCAGTGTGTGAGGGGCACCTCTCCCACTTGTTAACATGTGCATCTAGCCAGGCCTGTCTCTTATGCATGTTACATACAGCAAAACACAAGTCACCTGTCACCCCGCCCATGGCCATCCGGCTGCCTCAGTCCTTCTCCCTGCCACGCTGTGTATGGTAAACAGTTGAAAGGAAAGCCATCTTGAGCGGCTGTGCTCAGGCCCCAGGTCCCTGGGAGGCAGGAAGCTGAATCCCAGGACGCTTGTGAATGAAGCTTGGCTGATAAGAATTATTGTAGGTTTCTCTCAAGGCTCCCTTCCTTACCAGTTCACACTCTTGGTTACCAAGACCCTAGCTTTCTGCCCTCTCCCTCTTCCCTGACTTTGGTCTTCTCCAGAGCGAGCTTCTGGGTGGGGCCAGCAGCAGGGCCCTGGCATCCTACAGGCTTGCCCATGCTGCCTTTAGGACCCTGCATGGAGGAGAAAGCCTCCCCCTCCCCAGCCTCCAGGTAAAAGTGGTCTCTCTCCTGCAG
Seq C2 exon
GTCCTTTGAGCCAATCCTCCGCCTCCTTCCCCAGGGTATTTCTCCAGTCAGCCAGCACTGGGCCACCTGGGCCCTGTACAACCTCGTGTCTGTCTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039686:ENSMUST00000113677:13
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=0.000
Domain overlap (PFAM):
C1:
PF032249=V-ATPase_H_N=PD(13.7=46.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGAGCAAGGCCGAC
R:
GGTAGACAGACACGAGGTTGT
Band lengths:
280-911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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