MmuINT0143075 @ mm9
Intron Retention
Gene
ENSMUSG00000028082 | Sh3d19
Description
SH3 domain protein D19 [Source:MGI Symbol;Acc:MGI:1350923]
Coordinates
chr3:85927068-85927705:+
Coord C1 exon
chr3:85927068-85927254
Coord A exon
chr3:85927255-85927607
Coord C2 exon
chr3:85927608-85927705
Length
353 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AGATTCTTGTGTCTTTGCAGCTG
3' ss Score
9.59
Exon sequences
Seq C1 exon
GACAGCAGCCCTCCTGGAGAATGGTGCAAAGCTCTTCACAGTTTCACAGCAGAGACCAGCGAGGACTTACCCTTCAAACGCGGAGATCGGATCCTGATCCTTGAACGTCTAGATTCCGACTGGTACCGGGGCCGACTGCATGACAGGGAGGGCATCTTCCCAGCAGTGTTTGTGCAACCCTGCCCAG
Seq A exon
GTATGACAGCTACTAGTGTGACCTACTGCGTGGGCCCTTTACCTCTGACCATGCTTGGCTTAAGTTTCTTATCTACATCCGGAAGAGATGATTAATAAAGTCACTTCTATACTACTGCATCAAAGTTATGTGGAGAGCAAAAGATAAAGCTATCATTAAATAGCAGCTAACTTTGACTAACACATAGACTTTGTACAACTTTTTTCCTCCTAGGTGAACATCCTTTATCTTTTTGCAAGTTAAGTAAATTCAGAACTACTTGAAAATATTTAGAGAAAGATAAGGCAGGTTCTTAAGTTGTCTGTTTTGTGTGATTGTCTTCCTGCATACTTGAGATTCTTGTGTCTTTGCAG
Seq C2 exon
CTGAGGCAAAAGGTGTGGCTTCCGCAATACCGAAGGGGAGGAAGGTTAAAGCCCTGTATGATTTTCTTGGGGAGAACGAAGATGAGCTCTCTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028082-Sh3d19:NM_001082414:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=WD(100=73.0)
A:
NA
C2:
PF146041=SH3_9=PU(30.6=45.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGCCCTCCTGGAGAAT
R:
AAGAGAGCTCATCTTCGTTCTCC
Band lengths:
278-631
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: