MmuINT0075471 @ mm9
Intron Retention
Gene
ENSMUSG00000015443 | Gzmn
Description
granzyme N [Source:MGI Symbol;Acc:MGI:2675494]
Coordinates
chr14:56785613-56786212:-
Coord C1 exon
chr14:56786077-56786212
Coord A exon
chr14:56785874-56786076
Coord C2 exon
chr14:56785613-56785873
Length
203 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCATGACTCTTCCCAATCAGCTG
3' ss Score
5
Exon sequences
Seq C1 exon
CTCAATGACAGTCACACTGGGGGCCCACAACCTCCGTGCACAGGAGGAGACTCAGCAGATTATTCCTGTGAATAAAGCTCTTCCCCACCCAGACTATAATCCTCTGGATCACACCAATGACATCATGCTATTAAAG
Seq A exon
GTGAGACCTGCTACCCTCCCACCCACACTCCTCTGCCCACTCCTCTCCCCTCCCACCTGGTGCCTGTGCTCCGAGTGGTGCAGAGATAGCCTGATCCTCCTGTTCTAATCCTGCTTCTTCCCTCTCTTCCATCCCAATTTTAAAAGACTCTCAGGCTAGCAGGCTCCTAGCTGAGCTGGTCTCTCATGACTCTTCCCAATCAG
Seq C2 exon
CTGGAGAGTAAGGCCAAGGGGACTAGAGATGTGAGGCCCCTCAAGTTGCCTGGGCCCAAAGACAAGGTGAATCCAGGGGATGTGTGCAGTGTGGCTGGCTGGGGGAAAACGTCCATCAATACCACTGAAGGATCTGCTCTCTTAGAAGAGGCTGAATTGATCATCCAGGAGAACAAGGAATGCAAAAAACAATTCCGTCACTATTCCAAAATCACAGAGATTTGTGCTGGAGACCCAAACAAAATAGAGGCTCCGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015443-Gzmn:NM_153052:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.156
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(38.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCTCTTCCCCACCCAGACTAT
R:
TGTTTGGGTCTCCAGCACAAA
Band lengths:
301-504
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: