MmuINT0128850 @ mm10
Intron Retention
Gene
ENSMUSG00000034573 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:MGI Symbol;Acc:MGI:103293]
Coordinates
chr5:103489608-103492310:+
Coord C1 exon
chr5:103489608-103489793
Coord A exon
chr5:103489794-103492222
Coord C2 exon
chr5:103492223-103492310
Length
2429 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTTTGATTACCTGTGTACAGACG
3' ss Score
4.67
Exon sequences
Seq C1 exon
CCCATCAAGCTGGGAGACCATCTTAATAGCATCCTGCTGGGCATGTGTGAGGATGTCATCTATGCTCGGGTGTCGGTTCGGACCGTCCTGGATGCTTGCAGTGCCCACATCAGGAACAGCAACTGCGCGCCTTCGTTTTCCTATGTGAAACAGTTGGTAAAGCTGGTTCTGGGCAATATTTCTGGG
Seq A exon
GTAAGTAAGCTACAGTGCTAACGTGTAAGCATAGTCATACTTGAAAATCAGTCATATCACAACTTCTCTTGACATGTACAGTACAGTTTTTCAAGATAGAGAATGAAAAATTGGGACTTACTGTTTTAATGTTGATTGTTTACTACAAACAATACTTTAAAATTTAGAATTCTATGCAGTTAATGAGACCTCCGTGTTTTACGAAAACCTCTTTTTAAAGATCTTTATTCTAGAAAAGATTGTAGAAGGGTAACAGCTCTGTCCACCCCTACTTTCCTCCTCTGAGCCTCCCCAGAGATCTCTGAGCAGAGCACTGTAAGCACCCTCAGGGGGATGCATTCACCCAGAGTGATTTCAGAAACACTTACCGGACCTACTGTTCCCAGACTTCTTTCTCGCCCTCATGTGTCAGGGTCCCCCGTGAACTTCTCAACCTTCTTCTCCTCTGGTGTGAAAAAGAATCCATGGTCTGCTGCTTCCTGACACTTGAACGTCGCCACTCTCTCTCATCCAGAATGAAAAGAACTTGAGAATAAAACCTGTATCTAATAACCCGACCTCTGCTCTTCTTCCCTCCAGGTGTGCTGCCCCGTTCTCTCTGGCTGGGCCTGCCACTTTCTGTGGCTTTCTGATTGGTACACACACACACACACACACACACACACACACACTCTCTCACACTTACCCACTCTTGCTGCATGATGGCCTTCATCCAATGCTTGTCCCTTCTCCATGTGAGATACAATCTTGTTCTGTCACGTGGTGTTCTTCCTGGTTTCCTCTTAATTCTAAGTATATACGTATTCCACATGCTTTGCCATATGGTAAGAAATAGGCTCAGAGGTCTCCTAGTAACATTGTGAACTAAACTTTAGTGATGCTCTGTTGGGGCTGGGGGATTGTAATGGGGCTGATGGATGGAGTTTTCTTGCTCCGGCTGCTCCCATTTTATGCCCCGATGTCCCTTTTGGAAGGAAAACTACTAAAACTGTGCTGTGATATGTAGTAAAGACACAGTCAGAAGCTGCACATCTCTGACCACAGGGCCTTGCTGTTCCTGCCTCCAGTGGCCACTGTGATGGTCAACGCACTTACTTAAGATTAGTCAGCCGTGAGCCAGTCAGCAAGCCAGCTCAAGTGCCTTGGATCCTCTAGTCTTCAGGGCTTTGACCCTAATTTTGACTAACTGTAAGAGCTATGGTTATTACTAAACAGCATCCATCCATGTCACCAGGCCTTGTGAAGGTGACAGAGCTGCTTTCAGGCACTCACACGGTGCTGCCACTTCAACGAGTCTATAACAGCTATGGCAGTAAGAGTGGTGTGTACTACACCGGGTACGCCGTTGATAACACACCGGGTTGCTTTGAGAATTAGGTATGGTGTTGATAATGCACTGTTCAGGGCCTGGCATAACTGTTCGCTAAATGGCAGTTGTTACTGATAGTGGCCTCAAAGCAGGGATTCACATTATCTATAATATTCACTGTATTCCTGTTTCCATCGGTGCAGTATGACTGACTAGTTATGTCATTCAAGGACAGCATCATTTCAGAAATACTTCCTTTTAAATCTTCTTTCAAATATGAAATAAATTTCTTTGAGCTGTGAATATGCTAATAGAATTTTGATCTATACGCAAACTTCAGTAATAAATGTTAAAATGTGTGTGCACAGATGCAGGCGAGGGCACATGCCTTTGAACTACACTTTTAGCATCATTGTTCTCATCAACTTTAATCTGTATTTATCCTGTTTTTCTCATCTAAGTAAGCCAGTGTTCTAACTTTCATCCTATGTAATATGGAGTTTGACCTAATTTGACATGGCTTACTTTTTATAAGTATGGTTTCAGGCATTGAAATTTCAGACCACTGACACATGTTGTTACAGAGAGGATTTCGTAATGCATCAGTTTAAATTGTCACTTGCCAACATACCCGGTTTAAAGATTTTAGCAGACTATCTCATTCTGCAAGCAGTATCTACGAAATTACTTCTGAAATAATTTAAATTAGTATTCTCAACGTATAGCTGCAACCAGAGAAAGTTTTATTATACAAATTATTGTAGCCTTAAAATTATGTAAGTCTCATTTGAGAGATGAAAGTAGTTATCAGAATGAGGAAAACAGAAGGCCGCAGTTACTGCCTTCAAATGGAGCCACTTTTAATCTCGAGTCCCCAGGTACAGCTCGCTCTGTGTTTTGTTGCCTTGTAACTTTCTAAAGATAGACTGGCCAGTCCTGGTGCATATAAGCCTTACCCAAGCCATAGAGATTACAGTCAGATGTGGGGGTCTCCTTACTTGCTACTAAACCCTGAAGGTTGGGTAATGTGCTATTCTGTGGACAGTCACTGACCCCCCCATCCCCGCTCCCCCCCAAAGGATTAATTTATCAAACTTGATTTTTGATTACCTGTGTACAG
Seq C2 exon
ACGGATCCACTTTCCCGTAGCAGTGAACAAAAACCTGACCGGAGCCAGGCCATTCGAGACCGACTGAGAGGAAAAGGATTGCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034573:ENSMUST00000048957:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.900
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types