MmuINT0043764 @ mm9
Intron Retention
Gene
ENSMUSG00000040314 | Ctsg
Description
cathepsin G [Source:MGI Symbol;Acc:MGI:88563]
Coordinates
chr14:56720434-56721411:-
Coord C1 exon
chr14:56721219-56721411
Coord A exon
chr14:56720582-56721218
Coord C2 exon
chr14:56720434-56720581
Length
637 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGCCAGATCTTTCTTTGCAGGGA
3' ss Score
8.47
Exon sequences
Seq C1 exon
ATGAAACCTTTCACACGAGCAGGAAAATAGATCTGTGACCTCTCAGAACCACCCTTCCTTCCTCTCTCTCCAGGGGAGGATAAAAGTCTGGCAGAGAAAAGCCCCGGCAGCAACTGACTAAGCAACGGTTCTGGAAAGATGCAGCCTCTCCTGCTCCTGTTGACCTTTATTCTACTCCAAGGAGATGAGGCAG
Seq A exon
GTGAGTGGCCAACCACACCTCAGAGATCAGGTCCTGTCCTATACACTTGAATAGACAAGTTGTAGCAATCCTAACTCTGCATTGTTGAGTAAATTTCTTGAACTCACATCTCCTCAGTTTCCTTACCTATAAAATGCAAATGGCATTAATACTGTGGCCTAAGGTTGCTATGACAATTACATTGGTTAATAAACAAGAGAGTCTTGTTATTGGCCCTGACATATAGAAAGTACGATATAAATGTTTCCTACATAAATTTATTCAGTCACCCATATCTAGTGCCATGATTTGAGAAGGTAGACTCTGGGCCATGGGGTGCTCTCTGAGGAAGGAAGTACCAGGGAACCGAGAAAGCGCAGACTTTGGGAAAGCGTCTCAATAGCCAGAATCAGCCTCATGTGGAACAAACATCCTTCTCCATTTGGAGGAGCACACAAAGGTCTGGGAAGGAGACGAGTCTCCCTTCAAACTAGGAGTAACTCCTGTGAAGTCTTAGCATCTTCTCCATGTGCCTGGAGGCCTGCAAAGCTCCTCTGTATCACCTCCCTCCCCCACTTGCAGCCTTTCTAAAGCTGCCCACCTGGCACTGCCGGCAAGCTCCCAGGTACACGGGTAAGTGCCAGATCTTTCTTTGCAG
Seq C2 exon
GGAAGATCATTGGAGGCCGAGAAGCCAGGCCCCATTCCTACCCCTACATGGCATTTCTTCTGATCCAGAGTCCAGAAGGGCTGAGTGCTTGTGGAGGGTTTCTGGTGCGAGAAGACTTCGTCCTAACAGCAGCTCATTGCTTGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040314-Ctsg:NM_007800:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(21.6=94.0)
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:
AAACCTTTCACACGAGCAGGA
R:
TGAGCTGCTGTTAGGACGAAG
Band lengths:
326-963
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: