MmuINT0121208 @ mm9
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:23890898-23893320:+
Coord C1 exon
chr8:23890898-23891061
Coord A exon
chr8:23891062-23892419
Coord C2 exon
chr8:23892420-23893320
Length
1358 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TGACCTATGCTCTTCCACAGGGT
3' ss Score
9.65
Exon sequences
Seq C1 exon
CGTCTCCATTCTTCTCTGACCGGCTGAAGGAGGCTCACGTCAGACTGTACCCGTCCAGCCGCTGCACCTCACAGCATCTGTTTAATAAAACCGTCACGAACAACATGCTGTGCGCTGGAGACACCCGGAGCGGAGGCAACCAAGACCTCCACGATGCATGCCAG
Seq A exon
GTAAACACAGAACCCTAACACTCTGGGTCCTCCTCTGTGCCCTTAGTGGGGGGTAGGGGGACCACACAGGGGAGGGTGTGACGCTGGGATTCAAAATTGGAGCTTCAGAGAAGAAAATGATAAGAGACCAAAACACCTCAAATCTAAGAAATCTGAATGGCAGGAAGTTTTCCCAGTCTGTGGACAGGAAACTCCACCTAGAGCAGGATTTCCTGTAAGCCCTATTGAAGTGATAGGTAAAGCGACATAATTTAGTATAATTGATCCTTGACTTGTGAAGGTGTTGGGGCATGTGAGACTGCTACTGCTTTGTAAGATGAGGAAAGGCATTCCCCCCACACCCCCAAGACTCAAGATACAGATAGGATGTGGGGAGGGGAGGCGGGGGGGGGGGGCAAGTTCATCCTGGGAAGCAAAGCACTTTTGGTTCTCAATGCTGAGCCCACTGGACTTGGTACTTAGGTTTCCTCCTTAATAGAGTGCTGGGATGTAAGCACAGAGCCACCACTGACATTGAGACCCAGATAGTCATCACCTGATTAGGAGGAATGAACCAGAGTTCACTGAGGCCACACAACTTACAAGTAGCACAGTTCATATGTGTGCGTACACACACACACACACACACACACACACACACACATACACATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATTCATCCATCCATCCATCCATCCGGCTGGCCTGGAACTCTATGTAGAAGAGGCTGGCCTCAAATTCAGAAATCTACCTGTCTCACCCTCCTAAATGTTGGGGTTAAAGGTGTGTACTACCTTGGCACCCACTCAAATCAGACTATAAAGCTAGAGTAGTTTTTGTTTTTGTTTTTGTTTTTTTTTTGGGTGCTAACAGTTACCTTAAGTCTGTGTTTGGAAAGTTTTAGTGGATTTTTACTTATCAATTGGTCTTTTTGAGACAGGGCTTCACTCACTGTGTGGTCCTCAGTAGCACGGAACTCTATATGTAGACCAGGTTGGCCTTGAACTCAAAGACATCCACCTCCCTCTGCCTTTTGAATGCTGTGCTTAAAGGCACGTGTCACCATGCCTTAAATGCTGTTTTATCAGAATTCCTTCATATACAGCCTAATCTATACCATCAAAATAACTGAGCCTCAAGTCTCAGTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGAATCAAATACTTTGAGGGCTGCAGTCACCAAAGTACAAATAGCAATAGAAATCTTCCAAATAGTCTGCCACGCGTACAAACCACTGACCTATGCTCTTCCACAG
Seq C2 exon
GGTGACTCGGGAGGCCCTCTGGTGTGCATGATCAATAAACAGATGACATTGACTGGCATTATCAGCTGGGGCCTCGGCTGTGGGCAGAAGGATGTGCCTGGGGTCTACACAAAGGTTACGAATTACCTAGACTGGATTCACGACAACATGAAGCAATGACAAAGAAAGCCCAGCTCCTTCAATCCAGAGGAGGACCTGCCTTCCTCTTCCTCTTCTACAGAAGATGCGCCTAAAAGGCCAAGCATTCTTTACACCATCATCTTCGTGAGCTGCCACTCGGGAGAGGGGAGGGGGGTCTTTGGGAGCAGATGTAGCATTTACCTGTGACAGGTACTTCACAACTTGTAAGTTTTAAGGATGAAGGTCTGGCTTTAGAATAAATCCTGTCAGATGAGATGACAGGGAGATGCCAACCTTCCTATAACTCTAGGATTTTAAAAAGAGAGGTAGACCAAAGTCTGCCCTCCTGGTCCACTATGTTGTACACTGAACCACAAGATCATGTCTCAACAGCAAAAAAATACAACTTGATCTTTCAGGAGTGAAAGTTTGCACTGGGGACAAGAATGTGTTTTTATAGTTACACAGGGGGCCCCACAGGGCCTCCACGAGAAGGAAGGGGTATCTGGCCGAATCACAGCACCATAAAATCCTTGAGATCATGCACTCCCCATCCCTCCACACTCCTCAACTCTTGGGACATATCCCTTTGTATACAGTGTAAATGTCTTTTTCTTTATAAACTCTATAGATGGTTGGGAGAACTGTATGATTTTAATAATTGATGAATAACACTAGTATATTTATATTTTAATCTATTTTAGTTTTTACTTTGTTACTATAACTTTGTATTATACTGTACTTAAATAATAAATTCAGAGGTATTTTTCACACTTTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538-Plat:NM_008872:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(22.0=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.4=84.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGCTCACGTCAGACTGTA
R:
AGAGGAAGAGGAAGGCAGGTC
Band lengths:
349-1707
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: