MmuINT0143081 @ mm9
Intron Retention
Gene
ENSMUSG00000028082 | Sh3d19
Description
SH3 domain protein D19 [Source:MGI Symbol;Acc:MGI:1350923]
Coordinates
chr3:85910892-85911274:+
Coord C1 exon
chr3:85910892-85910960
Coord A exon
chr3:85910961-85911133
Coord C2 exon
chr3:85911134-85911274
Length
173 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
AGTGCTGTTGTGCTTTACAGCGT
3' ss Score
8.62
Exon sequences
Seq C1 exon
CTGTCTGTGCCTCATGGAATTGCCAATGAAGACATTGTCTCCCGAAACCCCACGGAACTCTCTTGTAAG
Seq A exon
GTAAAGTCAAGCTCTTCCCTTACTGACTGATTAAAAAATAACAAAAAACGCTGCCCTCTGCTCCTGCTATTACACATTATTAAATGCTTTAGGCTCCAAAGATTAAAATGTGGGAAAGTAATAATGTTTTATGAAATAATAATTGCTTCAGAGAGTGCTGTTGTGCTTTACAG
Seq C2 exon
CGTGGGGATGTCCTTGTGATCCTGAAGCAGGCAGAAAATAATTACTTGGAATGCCAACGGGGAGAAGGCACCGGCAGAGTCCACCCATCCCAGATGAAGATTGTCACTCCCCTGGACGAGCGCCCGAGAGGCAGACCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028082-Sh3d19:NM_001082414:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.609 A=NA C2=0.631
Domain overlap (PFAM):
C1:
PF0765312=SH3_2=PU(33.3=78.3)
A:
NA
C2:
PF0765312=SH3_2=PD(63.0=72.3)
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:
CTGTCTGTGCCTCATGGAATTG
R:
GTTAGGTCTGCCTCTCGGG
Band lengths:
210-383
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: