MmuINT0075465 @ mm10
Intron Retention
Gene
ENSMUSG00000054206 | Gzmm
Description
granzyme M (lymphocyte met-ase 1) [Source:MGI Symbol;Acc:MGI:99549]
Coordinates
chr10:79692821-79694262:+
Coord C1 exon
chr10:79692821-79692980
Coord A exon
chr10:79692981-79694123
Coord C2 exon
chr10:79694124-79694262
Length
1143 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
GAGCAAGGTTTGCATTGCAGGCT
3' ss Score
3.16
Exon sequences
Seq C1 exon
CAGGCAACAGATTTGAGACCCAGATCATTGGGGGTCGAGAGGCAGTCCCGCACTCCCGCCCATACATGGCCTCTCTACAGAAAGCCAAGTCCCATGTGTGTGGGGGAGTCCTTGTGCATCGGAAGTGGGTATTGACAGCTGCCCACTGCCTGTCTGAGCC
Seq A exon
GTGAGTATCCCTCTCCATGTCCCACAGTGGCTGCAGGCACTGAAGGACTTATCCCAACCCTCTCTAGGCTGTATAGGCTGTGGGTTCAGGTTGGGTGGGTCACGTGGTACAGGAAAGGACACCTCCTTCCAATCCTTTCTGTGACACCTGGTAACTTGTGAAAGCCAGCCTTCCAGTAAGACATAGCCAGCCAGCCAGGCGTGGTGGCACATGCCTTTAATCCCAGCACTCTGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGACTGGTCTAAAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCGAAAACAAAACAAAACAAAAGAAATTATTGGAAAAAAAAAAAAAAAAAGCCGGGCATGGTGGTGCATGCCTTTAGTCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAACACCAAAAAAAAGACAGAGCCATCAAGAAGCCACTAAATAAATAGATCCATCTTGATAGGGCTGGTAGAATGACTGCTCATGCCGGTCTCACCCTCAACACTAAAGAAAACAGGAGCCCAGAGCAAAAGGAGGCAGCTCTTGGGTGTGACCGCATATGCAGTCCCAGCTCTCAAGGAACCTGAGGCATGTAGATCTCTACCTGACCTGCACAATTCCAGGCTACATAGTAAGATCTTATCTTAAAGCCAAAAGGGATTATTAGCTCATGTGTTTCAGAAGGCTAAGCTTCAGCTTGATCCAGGTATTTATCTGAGGTTCTCTCACGTGGCTTGCAAGTGTGACATAGGAGTCTTATGTAAAGAGGTTATTTCTCTGTAGTGTGGACAATGCAGGAAGGCAACACAAGTTGACGGACCCGCAAGCCTAATCACAGACGAGAGGCTGCAGGTGGGGGATGGGTACTAAATTCCCCCAATCGGGGCTGGGTGAGAGCCAGAGAGGAGGACGGAGAAGATGGGAGATGTCCTGCCAGGTGTGGACTGGGGAGGCTGCCATGGATGTGTGGAAAGGGGGGAATGGCAGTTCTCAGGCTGTGGGCAGTTGTGGGTGAGCAAGGTTTGCATTGCAG
Seq C2 exon
GCTACAGAACCTGAAGCTGGTGCTTGGCCTGCACAACCTCCATGATCTCCAAGATCCTGGCCTCACCTTCTACATCCGGGAAGCCATTAAACACCCTGGCTACAACCACAAATATGAGAACGACCTGGCACTGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054206:ENSMUST00000020549:2
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.0=83.3)
A:
NA
C2:
PF0008921=Trypsin=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCAACAGATTTGAGACCCA
R:
CTTAAGCAGTGCCAGGTCGTT
Band lengths:
299-1442
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