RnoINT0029054 @ rn6
Intron Retention
Gene
ENSRNOG00000034015 | Capn2
Description
calpain 2 [Source:RGD Symbol;Acc:2268]
Coordinates
chr13:100898291-100899615:-
Coord C1 exon
chr13:100899541-100899615
Coord A exon
chr13:100898452-100899540
Coord C2 exon
chr13:100898291-100898451
Length
1089 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CCTTGTCTCTGCTTTGCTAGGAT
3' ss Score
8
Exon sequences
Seq C1 exon
CTGCCCCAGCTGGAACACGGTTGACCCAGAAGTAAGGGCAAATCTAACAGAACGGCAGGAGGACGGAGAATTCTG
Seq A exon
GTAAGTCAGCGGAGGCTCCAGGGAAGTCAATAGGCAGGGAACCAGTCAGAAATGCATCCACTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAGGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAGGAAAAAAAAAAAAAGGAAATGCATCCATCACGCTGAGGCATGTGGTAGGGCACTGTGGCTTTGCTGCTTTTAATGCATCTAAGTGCCAAGCAGATGGTACACCTCTATGCTCTCTAGAAATTGAGGAAGAGGGCTCACACATCAGAGACCAAGCTGCACAGCCTCAGCTATCCAGAAAAAACCTGTCTCCAACAAAGGAAAAAAATCTCTTTATGATTCTAAACAACTCTTAAATCTCTTCAATGTGTCCATCTCAACTGTGGGGTTGACACCCTGGGCAACCTCACCAAGGCTGAAAGAAATTCCTTCAGAAATGTTCAGACCCCAAGAGAAAGCACAGAGAAAGATGGGACCTTTCCTCCCACCAGTCTCTAAATAGACATCTTGGCTCATTAAAAAACCAACACCAAGGAAGGGATGGCTCAGTGGTTAAGGGTGCTCTCTGCTCATGCAAGTCTGAGTTCAGTTCCCAACCCCACATGGTAGCTCATAGTTGCCTGTAACTCTAATTCCAGGGGATCTGGCTTCCTCAGGCTCCTGCTTGTATGCAGGGCACAAAAACTTACTGACGCAAACACACAATTTTAATAAAATAAATAGAAAGAGACTGGCTCCTTAGTGAGCAGAGAGGGTCCCTCATGTATGCACTGCCCCACAGAACACCTACATTGGTCATTGTTTGCTCTGTGAGCCCAGATGTTGTCTCTGTTCATATCTATTCATGGCTTTCATTTCACATATGAGAACTCTGGGGTGCAAAGAGAACTCATCAATTTGCCTAAAATCACCCCTTAGAAAGTGGCTGTTACAGAACTACATTTAGGGCCCTCTGAGTCTGGCCATAGTGCCCACTCCTGGGTCTTAGGCGGTCCCAAACCTGACCAGGTAGAAGTTTAAGGATGACCCTGTGTCATCTGTAACTCAGGACGCCTTGTCTCTGCTTTGCTAG
Seq C2 exon
GATGTCCTTCAGTGACTTCCTGAGGCACTACTCTCGTCTAGAAATCTGCAACCTGACCCCGGACACCCTCACCTGTGACTCCTACAAGAAGTGGAAACTCACCAAGATGGATGGGAACTGGAGGCGAGGCTCCACTGCAGGGGGCTGCAGGAATTACCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034015:ENSRNOT00000045326:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.4=43.6)
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:
CAGCTGGAACACGGTTGACC
R:
TTGGGTAATTCCTGCAGCCC
Band lengths:
230-1319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]