MmuINT0128817 @ mm9
Intron Retention
Gene
ENSMUSG00000034573 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:MGI Symbol;Acc:MGI:103293]
Coordinates
chr5:103969991-103970635:+
Coord C1 exon
chr5:103969991-103970405
Coord A exon
chr5:103970406-103970540
Coord C2 exon
chr5:103970541-103970635
Length
135 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
CCTTCCTCTTCCCTCTGTAGTTC
3' ss Score
10.49
Exon sequences
Seq C1 exon
AGAGAGCTTCGTTTAGGAGCCTGAACCTGCAAGCAGAGTCTGTTAGAGGATTTAATATGGGCCGCGCAATCAGCACGGGCAGTCTGGCCAGCAGCACCATCAACAAACTTGCCGTCCGACCCCTGTCAGTTCAAGCTGAGATTCTGAAGAGGCTGTCCAGCTCAGAGTGGTCGCTTTACCAGCCCCTGCAGAACAGTTCAAAAGAGAAGACTGACAAAGCTTCCTGGGAGGAAAAGCCTAGAGGGATGAGCAAATCGTATCACGATCTCAGTCAGGCCTCTCTCTGTCCTCACCGGAAACAGGTCATTAACATGGAGGCCCTCCCACAAGCCTTTGCGGAGCTGGTGGGAAAACCCTTGTACCCGATGGCAAGATCTGACACAGAGTCACTGGCAGGACTCCCAAAGCTTGATAA
Seq A exon
GTAAGAGCACGATTGACTAACCCGGAGTAAAGCCTTTGCAGCCCCTCCTGTCATGCGTTTGTTTTCCTTTTATTATTTCCACCGTGTTCTTTTTGCATTGACACTCCCCCTCCTGCCTTCCTCTTCCCTCTGTAG
Seq C2 exon
TTCAAAGTCTGTTGCCAGTTTAAATAGAAGCCCCGAAAGGAGGAACCATGAATCAGACTCATCCACTGAAGACCCTGGCCAAGCATATGTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034573-Ptpn13:NM_011204:18
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.309 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGATCTCAGTCAGGCCTCTC
R:
CAACATATGCTTGGCCAGGGT
Band lengths:
246-381
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: