RnoINT0029044 @ rn6
Intron Retention
Gene
ENSRNOG00000034015 | Capn2
Description
calpain 2 [Source:RGD Symbol;Acc:2268]
Coordinates
chr13:100884163-100884680:-
Coord C1 exon
chr13:100884612-100884680
Coord A exon
chr13:100884242-100884611
Coord C2 exon
chr13:100884163-100884241
Length
370 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGG
5' ss Score
3.87
3' ss Seq
AAGCATTTTTCATGTTCCAGAAA
3' ss Score
5.57
Exon sequences
Seq C1 exon
GAAGATGGGAGCGGCAAGCTGGGGCTGAAGGAGTTCTACATCCTCTGGACGAAGATTCAGAAATACCAA
Seq A exon
GTAGGGCCCTGGGTACCCCAGGGTGGGTAGGTCAGTGCTGGGGGACATTTAGGCATATGCTTTAAGGTGTAATGGTTCTGGAGAGTAGGGGCACATTTCCAAGGGAATTGAATTTCGCGGAACTCAGCAGAGGTGAAGTTTGCTTGTATGCTGACCAACCAGGCAAAGCAAGGACTTAGCAAGTAACATAGCCTTGTCCTATCATTTGCCTGATTGGTGACCAGAAATGAGGTCACTGTCAAGAGTTTCCCGAGAAGGCTGTGTAGAAAGAAGTCCTTCGAGCCCACTCAGCACACACCTAACAGGCACCTTGACACCTCACCTGTTTTGCTTTGGGTCACAGTTCTAATAAGCATTTTTCATGTTCCAG
Seq C2 exon
AAAATTTACCGAGAGATCGACGTGGACAGGTCGGGAACCATGAATTCCTATGAGATGCGGAAGGCTTTGGAAGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034015:ENSRNOT00000045326:17
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:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(2.4=8.7)
A:
NA
C2:
PF134991=EF-hand_7=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]