RnoINT0029040 @ rn6
Intron Retention
Gene
ENSRNOG00000034015 | Capn2
Description
calpain 2 [Source:RGD Symbol;Acc:2268]
Coordinates
chr13:100890393-100891767:-
Coord C1 exon
chr13:100891731-100891767
Coord A exon
chr13:100890459-100891730
Coord C2 exon
chr13:100890393-100890458
Length
1272 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTCTATGTCTCACCTTCTAGATT
3' ss Score
10.3
Exon sequences
Seq C1 exon
AACTGTCGATGATGAAATCGAGGCCAACATTGAAGAG
Seq A exon
GTATTTCTTCCTTAACTCTCTAACTCTGCTCATTGATGGGTGGACACACAGGATGTTGACAGAGCAAAACCACTGTGGGGGCCTGGGCACCCCTTGGGCTGTGTGAAGACATTTTGAAAGCCAGGCTACAGCCAGTCAGACTCTTGCTCATTAAAGCCCAATTATTCGTGTGCAGGGGGGTCGGGGTGAGGTTGGAGGGTGGGAATAGGGAAGGACAAATCACTAATGCTGCCCTAAACAGGCTGGGCTCTGGTCATTCCCCTTGCTCAACCTCACTTTTTTTTTTCTATTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAACCCTCAACCTCACTTTTATCATTTAGAAAATGGACTCAAAGGATGAGGAGATTCCTCATTTTCTGAGAGTTCTAAGAATGGTTCAGTGGTAAATCCCGAAGGGCTTTAGAGGTGTAATTCAGGAATTTCACCCAAGGCCCAGTCTTAGCAGAACTGAGTAAAAGTACCATAGGCTAGAGAAAGGAAGGGGGTCTTGCTTCCTCTCTCAGAGTCCCCAAGGTGACTCTGATTGGATCATAGTTGCTGAAATCCTGTGCCTCTCATACGTACCCAGTGGAACACCAAATGGTTTGTAATTGACTAAACTTTCCACAACATTCCACTGGGCTCCTGTTGGAGTAGACCATACAAGGTCATTTTAGTTAAATATTAAAGATACTTGGGATTACAAGAAGTTAAAGGGTAACCTCCCTGCCATGTGGTTTCCACCCCCTCTCATGGGCTTTAGCTAAAACAAAACAAAACACCTTACCTGGGCATGGTGGTACACACCTGTGATCTCAGCACACAAGAGGTAGAGGCAGGAGGATGAAGAGTTCAAAGCATCTTTGGCTCTACAGTGAGTTCAAGGCCACCCTGGACTACTTGAGACCCTGTCTCGAGAAGGAAAAAAATTCTCAAAAGACAGGTGTGGTGACGCACACCTGTAATCCCAGCACACAGGAGAAGGATCAGGAACTCATAGCCATCCTCAGCTACATAAAGAGTTTGGGGCCAGCCTGTGTTATATGAGTCCTTGTCTCAAAACAAAACAAAATCATTAATTCCTCATAGTGACATTCATTGTAAGCCCAGGAGCCTTAGAATTCTGGCCTGAGGGACAGGAAGACTGGAAATTGGGGGGTTGGGGATCTTGCTGTCAATCTCCCCTTTAACCCATTTCCTGTTTCTATGTCTCACCTTCTAG
Seq C2 exon
ATTGAAGCCAATGAGGAGGACATTGGAGATGGATTCAGAAGGCTGTTTGCTCAGCTGGCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034015:ENSRNOT00000045326:13
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=0.045
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
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]