MmuINT1035838 @ mm10
Intron Retention
Gene
ENSMUSG00000002266 | Zim1
Description
zinc finger, imprinted 1 [Source:MGI Symbol;Acc:MGI:1341879]
Coordinates
chr7:6682050-6682866:-
Coord C1 exon
chr7:6682740-6682866
Coord A exon
chr7:6682182-6682739
Coord C2 exon
chr7:6682050-6682181
Length
558 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CTTGTTTTTCTGTGGGACAGAAT
3' ss Score
5.97
Exon sequences
Seq C1 exon
GAACCAGTGATCTTCAAAGATGTAGCTGTGTACTTCAGCCAGAAAGAGTGGCAGCTACTGGAGCCTGCTCAGAAGGACCTGTACAAGGATGTGATGCTGGAGAACTACGAGAACCTGATCTCTGTGG
Seq A exon
GTAAGGATGACTTCCATACAGTTTGTACTGGCCTCGTGAGAGCTTGCAGGTCTCAATGCTGAGAGGCTGTGGTTCATAGGGATGAGCTCTACCATAAGACTAAATTCACACACTGCAAGTTGGACGCTGTTGACGGCATCCTAAGACTTTCCAAGAGCCCTGCTCTTCAGAAGCTCAGAGTTTAACTCGTATGCAGAGTAGAAGCTGGAATGTGTCTCGGGAATGGATGGCCTTTCTCTCTCCCTATTCCTCACCTTCACTGATAGGTCTGGCTTAAGTCACAGGAGCCCAGTTAGCCAATCCTGATGGCCAGTGGGTTGAAAAATGGGTTCATTGGATGATACGGTCATGAGCTCAGTCTCTTGGACTATTAACATGATAGGGAGGCGGGGGCAGGACAAGGTGAAGGAGGTGATAACCTCTATGTTCCAGCTGATTGTTCTTTGTGTTTCTATGCAAACATTTGTCTTGAAAAGTGATTCTTGGGGGGGGGCATGCAAAAGTGTTTCTTCTTCATCTTGTGTTTCTTCTTCATCATCTTGTTTTTCTGTGGGACAG
Seq C2 exon
AATATTATATTTTCAAGCCAAAGTTGATCACCAGGTTGGAGCAAGGAGTTGACCTTTTTGCCAAAGAGAACGATGTTCCTGGAGACCCCCAGCAAGGTGAGGCAGGAGTCAGCAGAAGTGACACCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002266:ENSMUST00000002336:6
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=0.567
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGTGATCTTCAAAGATGTAGCT
R:
CAGAGGTGTCACTTCTGCTGAC
Band lengths:
254-812
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