RnoINT0028995 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87077513-87078348:+
Coord C1 exon
chr1:87077513-87077571
Coord A exon
chr1:87077572-87077653
Coord C2 exon
chr1:87077654-87078348
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGCCTTTTCTTTCTTTTCAGTGG
3' ss Score
11.2
Exon sequences
Seq C1 exon
GCCACTGCTGCCAACACCTGGATGGCGGCGAGGGGGTCGTCTGCCTGACCCACAAACAG
Seq A exon
GTGAGCTGGCGTGAGGGACAGTGCAGCCTTAGTTGTATCCCAAAGCCTCTCTGCCTCAAGGCTGCCTTTTCTTTCTTTTCAG
Seq C2 exon
TGGTCGGAGGTGGCCACCTTCTCATAGGCTTGAAGCTGAGGGAGTCTGCCCTGCTGCCCTGCTGCCCTGCTTGGTGCCAGTGATGGAAGATGAACATGGATGAGCTCGGCTTGGGCCCAACTTGCTGTCACACAGGTGGAGGCTATGGTGTCTGTCTTCTGGCTATGTGGTCCTGGCTGGCCTCACAAGTGCTGGGATTACGAGCTGGAGCTGTCCCAAACAGAACTGTCTTCCTTTTACAACTTGTGCATGTCAGTCCCTGCATGGAGGCCCATAAACCACACACAGGCACTGGGCCAGTGAGCACTGCAAGCTCCCTGGGGAATGACGGGGACGCAGGGAGAAGATGACACCAGAGTCCTTCTTAAAAATATTACTTGTTTTATTCTCCCATCCCCAGAGGGTGGTTTATCCAGAAACCAAGAAAATAAAAATCAATCAGAATAAACTCAAGGGGGTGGGTGGAGAGAAACCCATTAACGACCAGGCAGGCAGGCCAGCGCCCACCTCCACCTCAGGAGGTCCCCGTAGACCCCTGCCCACCGCCATAAGGGGAAAATCAGGAGGGGGCTGGGAGGGCAGCGAATCAGCTATGTCTTCATTATGAGAGTGAGAGAGGTGGCAGAGATATGCAGCTAGATGGATATATATTTATATAATAAATCCGTAAGTTAATAAAGTAAATAGTAATTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGCCTGACCCACAAACAG
R:
ATAGCCTCCACCTGTGTGACA
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]