MmuINT1033394 @ mm10
Intron Retention
Gene
ENSMUSG00000061259 | Tmprss11d
Description
transmembrane protease, serine 11d [Source:MGI Symbol;Acc:MGI:2385221]
Coordinates
chr5:86326408-86327656:-
Coord C1 exon
chr5:86327618-86327656
Coord A exon
chr5:86326586-86327617
Coord C2 exon
chr5:86326408-86326585
Length
1032 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GATGATGTTGTTGTTGCTAGAAT
3' ss Score
4.99
Exon sequences
Seq C1 exon
CACTCACTGACCAGGATACAGAAAATGTTTTGACTCAAG
Seq A exon
GTAAGTTTTTAAAATTTTTGTAAATATTTATTAAATTATTCACTAGTTGATGGATCAATGTTTAAGCAGTTCTTCCTCCTTCTAGAAAAAAAAAAGAATGGAAGTGTAGTGAAGGGCAGTCCACTTGGCACTCAACATCAAGCTCCTGCCAGTTTTCTTGGCTGTTGTGGGAAGCTTTGCTCCTGGGGTTCTAAAGCAATGTTTCTGAAAACGTGTAAATTACATTTGATGACAAAATTCATGTAGCTTTTGAAAACCACCAAAATGGCTTGCTTTGTTGTGGGTTTGGGTTAATCATAAGGTAATAAATTATAGATATGTCTTGTCAGTTGGAGGCCTATAACCTGAAGGGAAAGTCATTCTGTGCCAAGGTCACCCCAGATATATTATCAGGCTAGGAGGGCAGGCATAGAATCGCTAGAGATGTGAACTTTACTTCTCAGACCAGCCGGATGTACTTAGAAGTTAGTTCCAGGTACTTGGATTTCTGATTTATTTTAGATGCTTAAGAGGTTTTTTAGTGAGACTCCACTCCACGATATTTTTCAATTCAGTTCTGTGTTTAATCTATAATTATTTTGAATAAAATTGTAATAAAATAATTACTAAGGAACTTATTTGAAGAAGGCAAGAAAGGAACCCACAGCCATGCGTGTTTTTAATGGTAGTCTAGTTAAACATCTTATATTGGGAAATTTGTAAGAACGCTAGTGCTTAGGGTTAGCAGCCTATTGCCAATAGCAATAGAAATTACTATTTGTGATATATACCTCCAGTATTACTGATAAATATTAAACTAAGCATTAGAAAAACTATTATAAGATTTTGGGTTGAGAAGAACTGAGCAAACGAACCCACCTTAACCAATTTCACCTCTGACATGAAAACGTTTGTAGGTTTCTTAAGATATTTAAATACAGTTTTATGATAGAGAATCTCCACAGGGATTTTCTAAATGGAAACTGGCACCAGCTTGCCAGCATGTTAATACCTTTATGTTGTTGTTGATGATGATGATGTTGTTGTTGCTAG
Seq C2 exon
AATGTGGAGCACGTCCAGACCTTATAACACTGTCAGAAGAGAGAATCATTGGAGGCATGCAAGCTGAGCCCGGTGACTGGCCCTGGCAAGTCAGTCTACAGCTCAATAATGTCCACCACTGTGGAGGTGCCCTGATCAGTAACATGTGGGTCCTGACAGCAGCTCATTGCTTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061259:ENSMUST00000031175:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.240 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(19.5=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTCACTGACCAGGATACAGA
R:
CAATGAGCTGCTGTCAGGACC
Band lengths:
208-1240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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