MmuINT0088119 @ mm10
Intron Retention
Gene
ENSMUSG00000109764 | Klkb1
Description
kallikrein B, plasma 1 [Source:MGI Symbol;Acc:MGI:102849]
Coordinates
chr8:45275408-45276154:-
Coord C1 exon
chr8:45276042-45276154
Coord A exon
chr8:45275577-45276041
Coord C2 exon
chr8:45275408-45275576
Length
465 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CACATCTCAACACTTTTCAGACT
3' ss Score
5.47
Exon sequences
Seq C1 exon
GTGTAAATGTTCCTTAAGGTTATCCACAGATGGCTCCCCAACTAGGATCACCTATGGCATGCAGGGGAGCTCCGGTTATTCTCTGAGATTGTGTAAACTTGTGGACAGCCCTG
Seq A exon
GTGAGTGAGGTTCGTTTGTTACGGAACTGCATGGCTGGCTTGGCTGTTGTGATTAATGTCTTGGTCTTATGTGATGGGATTGTTTATATGGTTTCTGTTATGGTTTGTATATGGGAGTGGCACTATCAGAAGGTGTGACCCTGTTGGAGTAGGTGTGTCACTGTGGGTGTGGGCTTTAAGACCCTCATCCTAGCTGTCTGGAAGTCAGTATTCTGCTAGCAGCCTTCAGATTAAGGTGTAGAATTCTCAGCTCCTCCTGAACCAAGTCTGCCTGCATGCTGCCATGTTCCCACCTTGATGATAGTGGACTGAACCTCTGAAACCTGTAAGCCAGCCCCAATTAAAACTTGTCCTTGGTCATGGTGTCTGTTCACAGCCGTGAAACCCTAACTAAGACAGTTTCCTTGGATAAAGGGAAAGAATGCTTATCTGTGTCTAATCCTGCCACATCTCAACACTTTTCAG
Seq C2 exon
ACTGTACAACAAAAATAAATGCACGTATTGTGGGAGGAACAAACGCTTCTTTAGGGGAGTGGCCATGGCAGGTCAGCCTGCAAGTGAAGCTGGTATCTCAGACCCATTTGTGTGGAGGGTCCATCATTGGTCGCCAATGGGTACTGACAGCTGCCCATTGCTTTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109764:ENSMUST00000026907:10
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=0.000
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(36.9=79.5)
A:
NA
C2:
PF0008921=Trypsin=PU(20.3=82.5)
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:
AAATGTTCCTTAAGGTTATCCACAGA
R:
GCAATGGGCAGCTGTCAGTAC
Band lengths:
270-735
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