MmuINT0075437 @ mm9
Intron Retention
Gene
ENSMUSG00000015437 | Gzmb
Description
granzyme B [Source:MGI Symbol;Acc:MGI:109267]
Coordinates
chr14:56879416-56880071:-
Coord C1 exon
chr14:56879924-56880071
Coord A exon
chr14:56879552-56879923
Coord C2 exon
chr14:56879416-56879551
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-Gzmb:NM_013542:2
Average complexity
IR-S
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: