MmuINT0034145 @ mm10
Intron Retention
Gene
ENSMUSG00000058579 | Cela2a
Description
chymotrypsin-like elastase family, member 2A [Source:MGI Symbol;Acc:MGI:95316]
Coordinates
chr4:141825530-141826160:-
Coord C1 exon
chr4:141825943-141826160
Coord A exon
chr4:141825625-141825942
Coord C2 exon
chr4:141825530-141825624
Length
318 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
TCTCAATCCTCTCTTCACAGCCC
3' ss Score
8.82
Exon sequences
Seq C1 exon
GGGAATGGAAAAATAAACAAAAACAAGAAAACCAAACATTTGGACTCCAGCCCTTTATTGCACTGGACTTTGGGAAAATCTCCACCTTGCATATTCCTCCAGCGTCTCTGGCTGATAAGGCCACTCATAAAAAGGAAGCTTGGCCAGGGCCAGACCTACAGACGTCCAGGGACACACCATGATCAGGACACTGCTGCTATCTGCCTTGGTGGCTGGAG
Seq A exon
GTAACCTGTCTGGTGAAGCTGGGAACCTGAATCTCCTGCTCTTCCCTTGAGCTGCTGTCCCCTCTCCGGTCCCTCCTATAGCAGGACATGGTGACACACTCCTTGTGTCAGCCTCAAGAACCTAAGACAGGAGGGTGGCAAATTTAAGGCCAGCTCCAGTTAACTAATTCAAAGGCAGCTAGGAGCTGGGGTGGAGGACAGGACTCATGGACCTCGAAGATCATTCCAAAGCAAGGGTTTCCTGTTGGGGTTCAGGTGATTTTGCCCACAATTATCACTCCCAACCAACACAATCCTCTCTCAATCCTCTCTTCACAG
Seq C2 exon
CCCTCAGCTGTGGGTACCCCACTTATGAGGTGGAGGATGATGTGAGCAGGGTAGTTGGGGGTCAAGAGGCCACACCCAACACCTGGCCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058579:ENSMUST00000102481:1
Average complexity
IR
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=0.062
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(6.0=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAAACAAGAAAACCAAACATTTG
R:
CTGCCAGGGCCAGGTGTT
Band lengths:
297-615
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