Special

MmuINT0028734 @ mm9

Intron Retention

Gene
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:184408679-184409873:-
Coord C1 exon
chr1:184409837-184409873
Coord A exon
chr1:184408745-184409836
Coord C2 exon
chr1:184408679-184408744
Length
1092 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTCTGTCACTCGCCTTCTAGATT
3' ss Score
9.69
Exon sequences
Seq C1 exon
AGCTGTTGATGACGAGATCGAGGCCAACATTGAAGAG
Seq A exon
GTATTTCTTCCTAACTAACTCTGTGCATTTGATGGACACATAGTATGTGACAGAGAAAAACACTGCAGGGGTGGGGGCTGGGGGGATGGCTGGGCTGTGTGAAGACACTTTGAAAGCCAGGCTACAGCCAGTCTCTTGTTCATTAAAGCCCGAGGGGTGGGGAAAGACAGATCACTAATGCTGCACTCAGAAGGCCACTCCCTCGCTCAACCTCACTTTTATCATTTATAAAATGGACTCAAAGTTTCTGAGAGTTCTAAGAATGGTTCAGTGGTAAATCCCAAAGGGCTCTTAGGGAATGTAATATAGGACTTTCACCCAAGGCCCAGTCTTAGCAAAAGGACTGCAGGCTAGAGAAAGGAAGGGGTCTTGCTTCCTCTCGATGAGGCCCTGAGGTGACTCTTTGATTGGATCATAGCTGCTGAAGTCTGGTGTTTGTCATATGTACCCAGTGGGACACCAAACGGTTTGTAATTGACTAAACTATTCCACGGCATTCCACTGGGCTCCTGTTGGATGGACCATACAAGGTCATTTTAGTTAAATATTAAAGATACTTGGGATTACAAGAAGTTAAAGGGTAACCTGCCTGTGGTGTGGTTTCCACTTCCTTTCATGGGCTTTAGCTAAAACAAAACCAAACACCTTACTTAGCTGGGCATGGTGGTGCACACCTGTGACCTCAGCACGGGAGAGGTACAGGCAGGAGGATGAAGAGTTCAAAGCATCTATTGCTCTACAGTGAGTTCAAGGCCACCCTGGGCTACTTGAGATCCTGTCTTGAAAAGGAAAAAAATATATCTTAAAAGACAGGTGTGGTGATCCCAGCACTAGGGGGGAGGGTCAGGAATTCAGGCCATTCTCAACTCCATAAGTTTGGGGTCAGCCTGTGTTATATGAGACCTTGTCTCAATACAAAGCAAAATAATTAATTCTTCATATTGCCATTCATTGTAAGGCCAGTATCCTAAGAACTCTGGTCTAAGGGACAGGAAGACTGGAAATGGGGGGGGGGGCACCATGGGAGGGGGAGGGGCCCTTGCTGTCAATCTCCCCCTTAACAATTTCCTGTTTCTGTCACTCGCCTTCTAG
Seq C2 exon
ATTGACGCCAATGAGGAGGACATTGACGATGGATTCCGAAGGCTCTTTGTTCAGCTGGCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509-Capn2:NM_009794:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):

C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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