MmuINT0162619 @ mm10
Intron Retention
Gene
ENSMUSG00000035861 | Tmprss11b
Description
transmembrane protease, serine 11B [Source:MGI Symbol;Acc:MGI:2442893]
Coordinates
chr5:86662174-86663562:-
Coord C1 exon
chr5:86663388-86663562
Coord A exon
chr5:86662434-86663387
Coord C2 exon
chr5:86662174-86662433
Length
954 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TGGGTTTTTTGTTCCCTCAGGAC
3' ss Score
10.14
Exon sequences
Seq C1 exon
GCTGTGGGAGAAGACCAAGAATGTCTGCAACCTACGACAGAATCACGGGAGGTTCCACTGCTCACAAAGGAGAGTGGCCATGGCAAGCGAGTCTCAGAGTGAATGGTAAACACTACTGTGGGGCATCTCTGATTGGCGAAAGATTTCTGCTCACAGCAGCTCATTGCTTTCAAGG
Seq A exon
GTAAGATCGTCATGTTCTTTAAGGTCAGGGGATCCCGAGGAGCTGGCGAATTGTCTTCCATCCTCACAAGTCCTGGTTTGAAAAGCAAACTACTGATAAGCCTATCTCAACCTTTTCTACTTCACCGCTTAAAAATAGGAAGAGCCATTAGTTTTTTTTTTAATTGATTTTTATGCCATTCATTTTTGATATACTTTTTTTTTCTTGCATGAGTCTTATTTCCTCATCGCTGTATACTTCAGACTCTAAACCACCTGCAGTTGTTCAAATTCTACATTGAATCTCTTCTCTTCCTCCATCCTATCCCACACCTATGCAACATCTAAGCGAATATGACTCAGTCTAAAATGCTGTTTGCTCTAAAAGTAGTAGAAATTTCCTTTTTCTTAAGCATGGAGGTTCATGTCCCCCTATTTATTTGTCTCATTAAATATATGGGCAGACATAAAGAATTTATAATTACCTGTCTGTATACACAACTTGCATTAAATTTCAGCTTTTAAAAGGCATATACTATATCAGTCTATCTAGTGTACACTGAAGAGACTCAAACAAGATGTTTTAAAAATGAATTTAAAAATCGAATTATATGGGGTTGGAGAAATGGATCAGCAGTTAAGATTACTTGAGGAGGAACTGGGTTTGGTTCCTAGCACCCATATGGCCACACCCAGTTGTCTGCAACTTCAGTCACAGGGGATACAAAGCCATCTCACCTTCATGTTCAATATATACATGTGGTGCATAGACATACATACATGCGAGCAGAACACTTATACATACAAAATAAGTCAGAAAAAAAATGAAAAATCAGATACTGTTGCAATGGGCTATAATGCAAGAAAATATTGATGTCGTAAAAGCTTGTGATAGATGCTGCTATGTACTATAAAATGTAGTATTTCTGTCACCTAAAAATAAGTATAAAAATATGTGGGTTTTTTGTTCCCTCAG
Seq C2 exon
GACAAATAATCCAAAAAACTTAACTGTCAGCTTTGGCACTAGAGTAACTCCAGCCTACATGCAGCATTCTGTTCAAGAGATTATTATTCATGAAGATTATGTGAAGGGGGAACATCATGATGACGTTGCAGTTATAAAGCTCACTGAAAAAGTTTCATTCAATAATGATGTGCATCGGGTTTGTCTTCCGGAATCCACCCAGATTTTTCCACCAGGTGAAGGAGTCGTTGTTACAGGATGGGGATCATTTTCTTACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035861:ENSMUST00000038448:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.5=74.6)
A:
NA
C2:
PF0008921=Trypsin=FE(38.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTCACAAAGGAGAGTGGC
R:
CAACGACTCCTTCACCTGGTG
Band lengths:
348-1302
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