RnoINT0029024 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24609964-24611551:-
Coord C1 exon
chr6:24611477-24611551
Coord A exon
chr6:24610110-24611476
Coord C2 exon
chr6:24609964-24610109
Length
1367 bp
Sequences
Splice sites
5' ss Seq
TTGGTATTT
5' ss Score
2.39
3' ss Seq
TGTGTGTCTATTTTCCACAGGAT
3' ss Score
11.11
Exon sequences
Seq C1 exon
GTCCCAGGAGTGGTGGGAAACCCATGGCTCACGGAAAAGCCAGCTGTACGAGAATAAGGATGACGGCGAGTTTTG
Seq A exon
GTATTTACCCCTCTTTAAGGATGTTTGGAGTACTTATTTCCCAAGCCCTCCAACCCACCTGCTTCCCTTAAACGTTTATGAGGATGGAAATTAATGTTGCAAAGACCCACATAGAGGGAACCTATACTCTTTACCAAGTCACAAAAGTTTTGAATGGCAGGCATTATGTCCCCTCTTCTTGATGTGAAGGTTATCTTGGAGATGAGATACTGGGCTCTCCTGGACATTTTGATGGGAAGGTGTAGTTGATGAGAAGTTTTAATTTGGAGATATGATTGTCACCCTGTCTTCCATCATCTGGGGACTCGGCAGCTCCACTTTGCTTTGATAACACGCTCCAAAAGCATAACCAAAAGTGCATCTACCAGCCTGACCTTGGGCAGGACAGTAGTGTCCTTAGCTAGAAGCTATGCATTATTCTATGTCTTGAAAGCACATGCCATGCCTTATGTGCACATCTGAGAGAAGATGGACATGTCTTGGAGGGTCCTCTGTTTTGCTTAGTGACGTATTACAGGGAAAGTTAGTATGTGTATATAAAAAAGAAGAGAAACCCTTAGGACAGATCTGTAGAATAAGTATGGCAGGGACCTCAGCCACTCCCTGAAGAACAGGGGAGAGAAAGAAAAGAACTTGAGAATGCATGGCTATGGCAGCACACGCAGGACCAACAAAGGTTCAAACCAGACAAAATTCCGGCACTGAGAAGAGGATGCGGACACAAAGTCCCACCCTCAACCAAGAAGCTGTTTTTTCCAATGGAGTGTCGCTGGGTATATCAACCATATGCCAGGGCAGGCCCCATGCCAAAAAGTAGTAGGCCACCATAAAATAAAATGAGAACATGGTCAAATATACTGTATGAAAACAAATTTAAATAATTTAAAAAAGAAGACATTTATCATGAGTGAGATAAGGAAAGAAAGCCTGGCTCTGAGTCGCTCAGGATCAGAGACATGTGTCAATTAGAAGGGCAAATCTTCCCCTATATCTCTATTTTAATCCTAGCATAAGGCCAGATTTTCACTGTGGCATCCCTGTGTTCCCTTAAAGACCTCAGCCATGAATTTGCAATGAGCAAAGGCAGGATTGCTAACAGCTGAAAGGACCAAGAGCAGAGAAAAATGGCTTTTGCCCCAGTGACCCTAAAAAGACTTGGATTAATGCGTTTGGAAAGTGGTTTTGCCAGGTGGACACACAATACCCAGACTTGTCTCTACCACTGTCCTCTCTAACAGTGGAGGAAAGTCTCAGGGCAGAAAGGCATGACACTGAATGTGCCACAGATAGACTTTGGCGAAGTGATGGGAAGCTGGAACTGAGGACACGGCCAGAGGTGACTTGGACTGTGTGTCTATTTTCCACAG
Seq C2 exon
GATGTCCTGTCGAGATTTCCATGAGAACTTCTCGTGCCTGTACATATGTAGCCAGTTCCCGATCACTATGGATCCTGGAGTCACACCCAATGAGAGCTGGCGACAAATGAGGTTTAAGAACCAAGTGATCTCAGGAAACACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.1=36.0),PF0106717=Calpain_III=PU(12.4=34.0)
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:
CCAGGAGTGGTGGGAAAC
R:
TGCTGTGTTTCCTGAGATCACT
Band lengths:
217-1584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]