MmuINT0149587 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26232389-26233587:-
Coord C1 exon
chr2:26233541-26233587
Coord A exon
chr2:26232557-26233540
Coord C2 exon
chr2:26232389-26232556
Length
984 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATT
5' ss Score
5.73
3' ss Seq
CATTTCTGGCTCCTAACTAGGAA
3' ss Score
6.63
Exon sequences
Seq C1 exon
ATTCGCTGCCTGATGAGGACTTGGAAACTGCTGGTGCCCCCATCTTG
Seq A exon
GTAATTGTTGCTTACCAGGCCAGGCTGCTGGGTCATACCTGTTAACTACCTTCCAAACTGGCCTAAGAGGACTTTGCATGCCTGTGGGATTTTCTACAATTAATGTTATTTACTGTGAAAATAAGGCATCACAAAGTATTTACTTATTTTTATGGTGCTAGAGATGGAATCCAGGGTCTCATTCACACTAGGCTCACACTCTACCACTAAGCTATACCCCTAAACACAAATTATTATCAAAACTAAAGTTTATCCATAGAAGTGAAGTAACTCTAACAGACTGGTGACTATAGCTGCTGGCTTTTCCTGAGCTCACAGTCAAAACATCAGATGTGAGAGGCAGCATACCTGGGACCTGCTTCACAGCTAACCCTCTGTGTCTCAGTTTCCCGTTCTAGATGGTAGTCATCATGGATGGCTTAGGAAAGCATCTGGCAGAGATTAGTCATGCCAGCGTTGCTAGCCATGCTTTGTTCGTTTTGCTTACTTCCTCACCAAACAAGCAAGTATGGAGTCCCATTAGTGTTTAAGGACCATGTGTCTGCTCAATAGACTAACACAGCTCTGGAGTCGTTGGACATTTGGCGTTCTTGGAGGTTTGACCCTGATTGCTATTCCGGGAATTTCCTTGCTGAGATCTGACACTTGAGGTGTTCCGGATGGGAACACAAACTTGCTGTGAAGTTCAGGCTCCAAAGAGATGTCTGTTATAAAAATGGAAGCTGCCTGCTATGGTATACCAACTCCCAACCCCAGCATACATTTTACAAGCAGATCTCATGTTGGTTTGGAAAGATGCCCACTCTCTAGCTTGAGGATGATGGGCTCTGTATAACTTCTCCCTCCTTCCAGTATGGTTCCACACTCAGTGAGTGTATACTAGGGCTTCCTCAGCTCCCTCTCATGGGCTTAGGCTTGAGCTTGGCAACAGGAGAGGGCTGCCTGTTTCCTGTTCTTCCTGCTCCATTTCTGGCTCCTAACTAG
Seq C2 exon
GAAGAGGAAGGGTCGAGTGAGAGCAGCAATGATGAGGAGGACCCCAAGGACAAAGCTCTCCCTGAAGACCCCGAGACCTGTCTGCAGCTAAATATGGTCTACCAGGAGGTGATCCGGGAAAAGCTAGCAGAGGTTAGCCAGTTGCTAGCCCAGAACCAGGAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281-Snapc4:NR_033572:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
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:
ATTCGCTGCCTGATGAGGACT
R:
CTGCTGCTCCTGGTTCTGG
Band lengths:
215-1199
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: