MmuINT0075438 @ mm10
Intron Retention
Gene
ENSMUSG00000015437 | Gzmb
Description
granzyme B [Source:MGI Symbol;Acc:MGI:109267]
Coordinates
chr14:56260182-56260714:-
Coord C1 exon
chr14:56260579-56260714
Coord A exon
chr14:56260443-56260578
Coord C2 exon
chr14:56260182-56260442
Length
136 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTTGCTTCTTCCCCAACAGCTG
3' ss Score
10.11
Exon sequences
Seq C1 exon
TATAATAAATGTCACTTTGGGGGCCCACAACATCAAAGAACAGGAGAAGACCCAGCAAGTCATCCCTATGGTAAAATGCATTCCCCACCCAGACTATAATCCTAAGACATTCTCCAATGACATCATGCTGCTAAAG
Seq A exon
GTGAGACCTGTCCCTGTCTTGGTCCACGGACTGCCCCTCTTGCTCTCATCCTCTCAATTTCCTCCCTTTCATCCTGGCCTTCATGGTGTTTCAGACCAGCAGGCCATGAGCTGGACTCTTGCTTCTTCCCCAACAG
Seq C2 exon
CTGAAGAGTAAGGCCAAGAGGACTAGAGCTGTGAGGCCCCTCAACCTGCCCAGGCGCAATGTCAATGTGAAGCCAGGAGATGTGTGCTATGTGGCTGGTTGGGGAAGGATGGCCCCAATGGGCAAATACTCAAACACGCTACAAGAGGTTGAGCTGACAGTACAGAAGGATCGGGAGTGTGAGTCCTACTTTAAAAATCGTTACAACAAAACCAATCAGATATGTGCGGGGGACCCAAAGACCAAACGTGCTTCCTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015437:ENSMUST00000015581:3
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=0.138
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(39.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCATTCCCCACCCAGACTAT
R:
GGACTCACACTCCCGATCCTT
Band lengths:
246-382
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