MmuINT0143079 @ mm9
Intron Retention
Gene
ENSMUSG00000028082 | Sh3d19
Description
SH3 domain protein D19 [Source:MGI Symbol;Acc:MGI:1350923]
Coordinates
chr3:85906812-85908269:+
Coord C1 exon
chr3:85906812-85906873
Coord A exon
chr3:85906874-85908004
Coord C2 exon
chr3:85908005-85908269
Length
1131 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
ATGGCTCCCTGGCCTTTCAGACC
3' ss Score
8.73
Exon sequences
Seq C1 exon
GAACTGGAGCAAGCCAGCGAATCGGGAGGCTTGGTACAAGGACCCCCCAGGTTGCCACCAAG
Seq A exon
GTAGGTATAATGTAAGAAAGTTGGAGGGACGTGAATGCGGTGGAGAACTGGCTCCTGTCCACTATCTTCTATATGCAGGGCTGTGAGCCTTAGATCTTGCTGTGGAGAAAAACTCATGAGTCTGCCCAGGCTGCCAGCCCACAGTCTGCTTGTGACAGCAGGTTATGGGACTCTCTGCTTGTGACAGCAGGTTATGGGACTCTCTGATCTTTTCTTCTTTTAACAAGATCCAAAAACCTACAGAGCACAAACACGAGTGAGCCTTTGATACTTTTTCCAAATAAATAAGACAGCTTTCCAAACCAAAGCAGTTCCTCTGTGGAGACTTGCTCATAAACACTCTCCTATTAGGAAAGGCAGGCCTGTGTCTCAGCATCTTGGGAGGGAACTCAGAGCTGGCCTCTCCCCAGGGCTCTAGAGGTATTTGAACAAAGGCTGCCACACTTGCAGAAGGCATTGCCATGTTGAAGTTTATTTCCATTTAGAGGTTAGAAAAAAAGGTTTTCAAACTAGTAACTGTCCTATTGCATTTTTAGGACTTTATGCTGATCTAAATTAAGAGTTTTAATAGTAAATATAATGCGACCATTAGGGGACTTTGATGTTCCTTTTCTCATTATACAAACGACCCAAGCACCTACACCTGATATCATCTCCTGCCTGAGCTTTTGTCTCAGACTGTGGTAGATAGTGCTTAGCTTCCTGAAATAGTCCGTGGGTTTAGGAGCAGTTGGGGCCTTGGAGTGCTCATGACAGTAAATGCCTGTTTGTCTTGAGCTAATGAATCTCCAGTGCAAGCTAAGAGGAAGCCGGAGCATCATACCATTTCCTCTGATATAATGTTTAATGCAACAGTCATTTGCTCAGAAATAGCACACCCTGCAGGTTTTAGTAAACAGTATCCCACCAGCAAAAAAGCTCTTCACGCCTTCGCCAGATTGCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGTGCGTGCGTGCGTGCGTGCGTGCGTGCGTGCGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTTGGGTTGAAACGGAACCTAGATGAGATCTAACGCTGACTCATGGCTCCCTGGCCTTTCAG
Seq C2 exon
ACCTGTACATGGAAAAGTCATTCCAGTTTGGAGGCCTCCCCCAAAAGGGGCCCCTGAGAGACCACCACCCCCTAAACTTCCTGCATCCAAATCATCAAATAAAAATCTGCCTTTTAACCGCTCCTCCTCTGACATGGATCTTCAGAAGAAGCAAAGCCACTTTGTATCTGGACTCTCAAAAGCCAAGAGTCAAATCTTTAAAAACCAAGATCCGGTGCTACCCCCTCGTCCCAAACCGGGACACCCTCTCTACAGGAAATACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028082-Sh3d19:NM_001082414:4
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=1.000
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:
TGGAGCAAGCCAGCGAATC
R:
ATTTCCTGTAGAGAGGGTGTCCC
Band lengths:
318-1449
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: