MmuINT0075437 @ mm10
Intron Retention
Gene
ENSMUSG00000015437 | Gzmb
Description
granzyme B [Source:MGI Symbol;Acc:MGI:109267]
Coordinates
chr14:56260579-56261234:-
Coord C1 exon
chr14:56261087-56261234
Coord A exon
chr14:56260715-56261086
Coord C2 exon
chr14:56260579-56260714
Length
372 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TACGTCTGCTCTCTTCACAGTAT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GGGAGATCATCGGGGGACATGAAGTCAAGCCCCACTCTCGACCCTACATGGCCTTACTTTCGATCAAGGATCAGCAGCCTGAGGCGATATGTGGGGGCTTCCTTATTCGAGAGGACTTTGTGCTGACTGCTGCTCACTGTGAAGGAAG
Seq A exon
GTGAGGAGCAAAAAAACCAGTCCATACCTGCCTAGAAAGATTCCATGGAGGCTCCGCCTTCATCCTAAGGTGCTTGGGAGGAGAGAGGGTCTAGCAAGTCTCATGAGGGGGAAACAGACTGTCACCAGAGTCACTGATAAGGAGTCAAGCACATTTCAACCAGGGTTAGCATTGCAGTATGAGCTGAATAACTCAGTTTGCCTTCTTAGAGCTGATGGGCTCCTGAGCACCTCTAATGCAGCAACTGGTGCTTCAGATTATCCCTTTACTTCCCTCAGCTGGAGCCCCACCCTGCCGGCCCTGCCTGTCCTTCACACCTCCTGGGCAGCATCCTCTCTGACTCCACGTCTCTTACGTCTGCTCTCTTCACAG
Seq C2 exon
TATAATAAATGTCACTTTGGGGGCCCACAACATCAAAGAACAGGAGAAGACCCAGCAAGTCATCCCTATGGTAAAATGCATTCCCCACCCAGACTATAATCCTAAGACATTCTCCAATGACATCATGCTGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015437:ENSMUST00000015581:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.4=94.0)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=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:
GGAGATCATCGGGGGACATGA
R:
AGCAGCATGATGTCATTGGAGA
Band lengths:
279-651
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