MmuINT0043767 @ mm10
Intron Retention
Gene
ENSMUSG00000040314 | Ctsg
Description
cathepsin G [Source:MGI Symbol;Acc:MGI:88563]
Coordinates
chr14:56099881-56100797:-
Coord C1 exon
chr14:56100543-56100797
Coord A exon
chr14:56100151-56100542
Coord C2 exon
chr14:56099881-56100150
Length
392 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TTTTCCTCCTCTGCCCACAGGGT
3' ss Score
13.11
Exon sequences
Seq C1 exon
CTGAGGCGCAGAGCCCGGAGGAGTGGATCGGTGAAGCCTGTGGCTCTGCCTCAGGCCAGCAAAAAACTGCAGCCAGGGGATTTGTGCACAGTGGCTGGCTGGGGCCGGGTAAGCCAGAGCAGGGGAACAAATGTACTCCAGGAGGTGCAGCTAAGAGTGCAGATGGACCAAATGTGCGCCAATCGCTTCCAGTTCTACAACAGCCAGACTCAGATCTGTGTGGGAAACCCGAGAGAAAGGAAGTCTGCCTTCAGG
Seq A exon
GTAAGAATGTGAACACCCACTAGTGTTTCTTGGGACAAAGTATAACAGAGGACAGCAGGGCAGGTCTCCATCCCTTCAATCCTGGGTACTAGACCAGAGTAGAAAGGGTTTTTCCTCTTCGAGAGTGACAGGAAGACACACAATTTATCTTACTGGGGAAGGTGGAGGTACCTGGATGGAGTGAGCTGGAGGCAATAACTTTAGCAGGATCTGAAGCCTAGCAGCGGAAAAGCCCAGGAACTTGATTCCTGCAATCCTATAAAAAAGCTCATCACCCACACACAGGCAACTGAAGGAAGCCCCCAGCCCATACCTTTCTCTGAGAGCCTGTATCATGGGACAGCAAGGGGCAGAAGGCCTAGCTTTGTGTCCTTTTCCTCCTCTGCCCACAG
Seq C2 exon
GGTGATTCTGGTGGCCCCCTGGTATGTAGCAATGTGGCCCAGGGCATCGTCTCCTATGGAAGCAACAATGGTAACCCTCCAGCTGTATTCACCAAAATCCAGAGCTTCATGCCCTGGATCAAAAGAACAATGAGACGCTTTGCACCAAGATATCAGAGACCTGCTAACTCCCTGTCTCAGGCACAGACCTAGGGACTTCCATAGCCCTTATTAATGCCTTCTGGGGAGTGTACATTTTCATTTATTAAATATTATATAGTGCTGTCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040314:ENSMUST00000015583:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.141 A=NA C2=0.254
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(17.9=60.9)
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:
GAGGTGCAGCTAAGAGTGCAG
R:
TGTACACTCCCCAGAAGGCAT
Band lengths:
348-740
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