MmuINT0006885 @ mm9
Intron Retention
Gene
ENSMUSG00000035875 | AI182371
Description
expressed sequence AI182371 [Source:MGI Symbol;Acc:MGI:2138853]
Coordinates
chr2:34941621-34942033:-
Coord C1 exon
chr2:34941951-34942033
Coord A exon
chr2:34941684-34941950
Coord C2 exon
chr2:34941621-34941683
Length
267 bp
Sequences
Splice sites
5' ss Seq
ACGGTAATC
5' ss Score
4.8
3' ss Seq
CTCCCTTCTTTCCCTCACAGATA
3' ss Score
12.85
Exon sequences
Seq C1 exon
GCACGGTAGATGGACAGTCAAGGCTAAGTATAGAGAAGATGCTTCAAAAACTGGAACTACATACTTTGAAGTTAAAGAATACG
Seq A exon
GTAATCCTTGGCCATTTTGAGTTATTTATAAAAAGTTAGGTGTTTCCCCCCAGTAATCCTTCTTAGTAATGTAGCTGATACAAACCACTCCTCAGTGCAGATGGTGCACCCTGCCAGGGTTATGGGAAGTGCTGGTTGGGTATAGGTCTGGGCAGTTAATGGTTGTTACAGGTTGTCAGAGGGTCACCATGATGTAGGATAGAATACTGTCATGGGACTGTTTTAGAAAGATTTGATGTCTTCCCCACTCCCTTCTTTCCCTCACAG
Seq C2 exon
ATAAAACTTACAGAATATCTATCATGCCCACAATTGATCTGCAACCCGAGGTGGAAAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035875-AI182371:NM_178885:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PD(25.3=82.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTAGATGGACAGTCAAGGC
R:
CTTGCTTTTCCACCTCGGGTT
Band lengths:
143-410
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: