MmuINT0108518 @ mm9
Intron Retention
Gene
ENSMUSG00000021806 | Nid2
Description
nidogen 2 [Source:MGI Symbol;Acc:MGI:1298229]
Coordinates
chr14:20630176-20631009:+
Coord C1 exon
chr14:20630176-20630288
Coord A exon
chr14:20630289-20630407
Coord C2 exon
chr14:20630408-20631009
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GCTGTCCACTCCCCTCACAGGAA
3' ss Score
10.21
Exon sequences
Seq C1 exon
GGATGGTGTTATATCAGTGAATAAGGACAGTGGCCAGTTTACTGATGAGTTTCTCCCTGAGCAGCGGTCTCATCTCTATGGGATCACTGCAGTCTACCCGTACTGTCCAACAG
Seq A exon
GTGAGTCTATCAAAGTGCATCATGAGGCTTCCTTGGACCAGCGGGTAGAGAGGGGCTGTGCTAACTGTCAGCACTGCGTTCCTTAACTAATGATACACTGCTGTCCACTCCCCTCACAG
Seq C2 exon
GAAGAAAATGAACACTAAATGTATAGGAGGATTTCAAGTTTACAAGAATCTTGTCCTAAGAATATTTGCTACGAAGGCAAAGACAGTGGAAAAGGAATTGGCCATTATGAGCTCTTGGCACACAAGTGAGCATTTTCAGTGCAGTGAGACTCAAGTATATTTTGTGAAATGTATACCTCAATCTTTACTACTGTATTTTTAAAAACAAAGGTTATCACAAGTTTAAAATAGAATTTTAATCATTGCTTATTAAATCAACTTTTGTAAACAGTTATTTAAAAGGCCAAATTCATTCAACATAGAACCAATGAGAGCAAAGACACTAAATCTGATTTTTGTTTGCCATGGATTCTACCTGGCCAAGAAAAGTAAAGCAAACAGATGGCTATGAGAACTGATTCCTGAAGCCCACTGAGGCCCGCCACAGACGGACCATGGGGTTGGCCCAGCGAAGTCCTCAGACTTTATTTATACTAAGGTGCTACAAAGAGTCCCCAAGTGCCTCTACAGAAGTATCCCTCAAAAGTACTCCGGGTAAAACACCAAAGATGCAGCAGTTCTTCAATTTTCTATATAATTCCAATAAAATATTTTAAAGCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021806-Nid2:NM_008695:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAGTGGCCAGTTTACTGA
R:
ACTTGAGTCTCACTGCACTGA
Band lengths:
245-364
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: