RnoINT0029050 @ rn6
Intron Retention
Gene
ENSRNOG00000034015 | Capn2
Description
calpain 2 [Source:RGD Symbol;Acc:2268]
Coordinates
chr13:100902824-100904102:-
Coord C1 exon
chr13:100903969-100904102
Coord A exon
chr13:100902993-100903968
Coord C2 exon
chr13:100902824-100902992
Length
976 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTGTGAATTCCCTCCTTCAGGAT
3' ss Score
9.79
Exon sequences
Seq C1 exon
TTCTGGCAATATGGCGAATGGGTGGAGGTGGTGGTGGACGACAGACTGCCCACTAAGGACGGGGAGCTGCTCTTTGTTCATTCAGCTGAGGGGAGCGAGTTCTGGAGTGCCCTTCTGGAGAAGGCCTATGCCAA
Seq A exon
GTAAGTAACCACGCCCTTCCCCAACACCCCATCTTGCCCCTGCTGCCCTGGACTCTAAAACAGGAGCTATTTTGGGGACTGTTTTGAGTAGACATTCTGTTCTATAAAAGGATGACTTTGGCCCAAATTGGGCTCTCAGTTCAAGGAGGCAATGTGGGCATGGGAGTTGTTCACATGATACACTGGTACAGGACGGTCATTGTTTTTGAGCAAGGGAACTGGAACATGCTGAGGCTAATTGCTCTGGCCTTAAGAACTCTGCTTCTTTGGTGGGCCCCGTTGCCTCTTAACCAAAAAGACCAAAACCTTCTTCCAATGGCAAATCTGCCCATTGCAAAGGTAGGAAAATAGTGGAAACTCACCCAGAATAAATCATGCGGCTGGTAAGAATGGTTTCCCAGTTCTAATCCTAGCTGGGCCTCACTCAGATGGCCCGAAGTTGTGCCAGGTCCACCCAGGATGTCAGCCCTCTGAAGTGGAGGTCTCAGGTGCTGGTGCTCTCGCTGCATTAAGATCGGAGTGAGTGGGTTTAGGATCCCTACAGCCCCAGGCTAGAAATGGGGCGTAGGGACTCCCTGTCCTTAGCCAAGAGAATTTGGAGCATAGAGCTCAGGGCATGACCACAGGAACCTGCTGTGTGCTTCTCAGGAAGCTGGATTCATTACTTTAGTGTCAACCTCTGTGTCAAGGCTAGAGTCAACACCAGAGGCTGGATCAGAACTAAGTCTTTCCAGCTCCAGGGTTCGGTACAAATTCTAAAACATGTCATAGCCGCAGAGGAAAAGTAACTACAGAGATAGTGCCTTGCCTTCCTGGGTACCCCAAGTTGGAGACAAAGACAAAGAGAATGAAAGCAGGGGACCCCATGAGCTCCCATGGGGGGGATCTGAGTTGGAGTGGGGTGGCATTTTCAGGGATGAAGGTGCACCCCGCAGCATCCAGGGCACTGAGTGGCAGTGTGAATTCCCTCCTTCAG
Seq C2 exon
GATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACTGAGGGCTTTGAAGACTTCACAGGAGGCATTGCCGAGTGGTATGAGCTGAGGAAGCCTCCTCCCAATTTGTTCAAGATCATCCAGAAGGCTTTGGAGAAAGGTTCTCTGCTTGGCTGCTCTATCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034015:ENSRNOT00000045326:4
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:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
GCAATATGGCGAATGGGTGGA
R:
CGATAGAGCAGCCAAGCAGAG
Band lengths:
296-1272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]