MmuINT0143073 @ mm9
Intron Retention
Gene
ENSMUSG00000028082 | Sh3d19
Description
SH3 domain protein D19 [Source:MGI Symbol;Acc:MGI:1350923]
Coordinates
chr3:85924452-85925108:+
Coord C1 exon
chr3:85924452-85924654
Coord A exon
chr3:85924655-85925055
Coord C2 exon
chr3:85925056-85925108
Length
401 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CCCCGCTTTTTTTTATGCAGGTA
3' ss Score
10.49
Exon sequences
Seq C1 exon
AGGCCCACGTTGTGTCGCACGGTTTGAGTATATTGGAGACCAGAAGGATGAGTTAAGTTTCTCAGAGGGAGAAGTCATTATTCTCACAGAGTACGTGAATGAAGAATGGGGCAGAGGAGAGATTCGAGACCGGAGCGGGATCTTCCCCCTGAATTTTGTGGAGCTTGTTGGGGATCACCCCACATCTGGTGCAAATATTTTAA
Seq A exon
GTGAGTGTGGGGGATGGGTGGGTATTTATTGTGTCTCCGCCTGACTCAAATGAACCAGTAATATCATAACGCTTAAAATGGTTAATGAGCCATATTACCACATTTGTTACGGTAAGAAAAGAACTTACTTTGAATGGTGATTTGTGGGGGACACTGGTTTAATCTATTGTTTAGGTAATTAGCAATGGCTACCTATGAGAAATGACAGAGACTTGTAAGCAGTGCATTATACAGTTAATTTTGAATCCTGGTTTACCGTTAAAGAAACAGTCCCCAGGAGGCTGACACAGAGACTGTCTTGAATCCCATGCTTTGCTGTCACCCCCACCTAACAAGTTTTCCTCAAATACTATGTGGAGTTTTTTCATCTGACCCCCCCCCCCCCGCTTTTTTTTATGCAG
Seq C2 exon
GTACAAAGGTGCCACCAAAGACCAAAAACGAAGACCCTGGCTCAAATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028082-Sh3d19:NM_001082414:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.072 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF146041=SH3_9=WD(100=71.0)
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:
GCCCACGTTGTGTCGCAC
R:
CTGAGAATTTGAGCCAGGGTCT
Band lengths:
254-655
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: