RnoINT0029011 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24595641-24597270:-
Coord C1 exon
chr6:24597212-24597270
Coord A exon
chr6:24595710-24597211
Coord C2 exon
chr6:24595641-24595709
Length
1502 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
GCTCTTAACTTGTCCTCCAGCTG
3' ss Score
7.21
Exon sequences
Seq C1 exon
GGCCCCCAGGGGACACTTTCTCCTTGGACCAGTGCCAAAGCATCATGGCACTGATGGAT
Seq A exon
GTATCCTTTGTAATCACCCTCTCCTACAGCCCTAGAAACCCCCCAACCCCTGTGGGCTTCCCTGGGATTTGAATTATATACCAGTTCACTCCGGAATCGCGCTTATCATTGTAGCCATAGTATTAGTCACTACTCACTGGGAATCATAACGAAGTGTATTTGCAATGCTTACAACAGCCCAGCAACTGCTGTTATCCCATTGAACCACGGAAGACCCAGGGGCAGCAGAGGTGAAGTATTTTCACCCAGCTTACACTGCTAGTTGGGGGCTATGCATGGGTTTGAAATAGAAGTCTAAGCCTCCAAGTTCCACATTCTAACCTCAACCTATGCTACCTTCTCCAGTCGGAGCAATTTTCCCTTCACCCTTTCCTTCAACACTGAGGTAATCTTCACTGCTGGGATTCCTTATTCAAAGGACTCTTAATTTTAAAAGCTAACCACAGAGAACTCAAAAGCCTTCTTGGTCTGCAGTGCACAGTAGTGGAACCCCTTTTGGCTCACATGGCATTTTTATACCTCTAGGCAATGGTCTTGAGACAATTCAGTGGCTAGCCTAGTTTCATGGACATAAGGAACAGGACCAAAAATCAAACTTTCATTGCTTTTGCTCTCATATCAACACCCTCTCTCCTAGGAGCCTCCTTCTTCTATCTGACCTCTCTCCCTCCGGGCAGGAGAAACACTGGCCACATAGGAGGGATCCCAAGCCTGGCAGCTCCTTCTCGGGCTGTAGCTGTCTCCAGAGAGAGACAGATCACCCCTCTTTCACACGGTTAACAAGGCTCGATTGTGAATTCGAAGCCAGCCATTGTAGAACAAGAAGGCTTCTTGATGGAATCATAAATCAGCCCTGTCTCAGCTGGCTGTGGCCTGGAGTCACTTGAAGACACAGAAGAATCCAAATGGCCCTTGCAGCCATGTGGCCGGGCACCCAACTGAGGAGGAGGAGAAAGAGGTAGAAAAGACCTGTGCCTTATACTGGGGGACTGAAAATAGAGCCTCCCCTGGGGTCCAGAGCTACAGTGCTGTGGTAGCTCTCAGAGTTCAATTATTTTCCCCTGAATTAGTTGCCAGTCAAAAGGGGTGGCAGGGGAAGCATTTATACACAGGAAACATTCCAGGGACACAGGGCCCAGGGATGGCACATTTACCTCTCCACACTATTTCTGCATTTTCAAGGCTCCTGCATATTCCTCCCTCCCTTCCCCTGCCAGGGAGCCCAGCCAACTGATGGTTGAGGGGACGCTCTCTCTTCTGCTGGATATAACTGAAATTGATGCCTTGTTCTCAGAGATCTTTCCTTCTAACAATACATTTTGTTTTTGGAAAACAATTCCAAACCAGGTCACCTTCAGATAGAGTGGGAGCCAGCTGGCAAGGGGCCAACATGGCACTGGGTTACCAGCTGAAGGCTGAAGCTGCTCTGGCTTCATTAGCAGGACAAACAGCTCCCCTTCCCATTGCCCCCTGGACTGCTTTGCTCTTAACTTGTCCTCCAG
Seq C2 exon
CTGAAAGTGAATGGGCGGCTGGATCGGGAGGAGTTTGCAAGACTACAGAGTCGCCTGATCCACTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:17
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:
PF138331=EF-hand_8=FE(27.9=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(26.5=78.3)
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:
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]