MmuINT0075443 @ mm10
Intron Retention
Gene
ENSMUSG00000079186 | Gzmc
Description
granzyme C [Source:MGI Symbol;Acc:MGI:109256]
Coordinates
chr14:56231401-56232499:-
Coord C1 exon
chr14:56232239-56232499
Coord A exon
chr14:56231658-56232238
Coord C2 exon
chr14:56231401-56231657
Length
581 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CGTACCCACTCAATTCACAGGAG
3' ss Score
7.76
Exon sequences
Seq C1 exon
CTGGTGAGAAATGCCAAGAGGACTAGAGCTGTGAGGCCCCTCAACCTGCCCAGGCGCAATGCTCATGTGAAGCCAGGGGATGAGTGCTATGTGGCTGGTTGGGGAAAGGTAACCCCGGACGGGGAATTCCCAAAAACACTGCACGAAGTTAAGCTGACAGTACAGAAGGATCAGGTGTGTGAGTCCCAGTTCCAAAGTTCTTACAACAGAGCTAATGAGATATGTGTGGGAGACTCAAAGATCAAGGGAGCTTCCTTTGAG
Seq A exon
GTAAGTTGGATTGCCTTCAACACTGGGCTCAGTTGGAGGGAAAAGGAACCTGGGACCTAGAGACCTCAAGGAACTCTTTTGTCCACTGGCTGTGATCTTTCTCCCTGGGAACAGCAGGAATCAGAAACTAAGCAGGGCCCCCAGAGCTGACTAAGGAGTCTCTGCTGAAGGTAGCTTGTACAAAAGGAGGTGTTGGCAACACAATACCTGTCTCCAGGCCCAGGCTGTAGAAAGCTGGGCTCCCTGGGTGTGTCATAACCACACCCATGTGTCTCCTCTGAGCAGACACACACTTTGTCAGTGGGCTTCCCCTCCATGCTCACACCTGGCCCACTCACTGTCCCCATGTCCTTAAACAATAGCCTAGAGACGAGGGTCCCACACACCTTCCTAGAGAGTGGATCACAGACCTGGGGAAAGGGCAGAGGCTGCCTCAGGAGGGAGGTGCAGCCCTAACCATGTCCACAGTCAGAGCTGACTGACCTCCCATAAGCATAAGTCATGCTTCTCTGAGAGGAGCCTTGACATGAGAAGGAGGTTGGGAACAACAGCTCAGTGTCCCGTACCCACTCAATTCACAG
Seq C2 exon
GAGGATTCTGGAGGCCCGCTTGTGTGTAAAAGAGCAGCTGCAGGCATCGTCTCCTACGGGCAAACTGATGGATCAGCTCCACAAGTCTTCACAAGAGTTTTGAGTTTTGTATCGTGGATAAAGAAAACGATGAAACACAGCTAACTACAAGAAGCAAACTAGATCCTGATCTGACCAGCCATCTTCCCCATAGCTGAGTCCAGGATTGCTCTAGGACAGATGGCAGCAACTGAATAAAGAACTTTCTCTGACTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079186:ENSMUST00000015585:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(17.6=81.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGTTGGGGAAAGGTAACC
R:
GGGGAAGATGGCTGGTCAGAT
Band lengths:
357-938
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