RnoINT0029007 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24600669-24601793:-
Coord C1 exon
chr6:24601591-24601793
Coord A exon
chr6:24600706-24601590
Coord C2 exon
chr6:24600669-24600705
Length
885 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
CCGTTTCCCTGGTTTTCTAGGAA
3' ss Score
10.49
Exon sequences
Seq C1 exon
TTCCAGAAGTTCCAGAAAAGACTGCCACCTGCATTTTTCTCCCAATTCAGAGATGCTGCCCAGGGAATAGACTATGTAACCAAACGCAACTTCACAAAGTCCTTCCACCTGAGTCCTGGGACCTATGTAGTGGTTGCCTCAGCACACGGGAAAGAAGTGGAGTTCCTGCTCCGAATATTCCTCAAAATGCCACACAAGGACAG
Seq A exon
GTATAGAAGCACTAGGGTCCTGAGTGTTTTAGTCTACTTCAGTGTGTCTTTATGAGCAGTGGTTTGTTAGACCATGGTGTGCCAGGGACACAGGATGAGACTTGCTCTTGAGATGCTAACAACAATAGGGAATGAGAAACTCCATGAACCAGTAACGTGACCTCAACAGCGATGTAAAACCATACAAAAGGACAGAGTGGAGGGACTGCTTCTGGCCACAAGGACTAGGAAAGGCTTCTCAGAGTAAACAGCGCTTGAGCTGGTCCTTGAAGGTAATCAGAAGTTAATAACTTCAAGGAGAAGACCATACTCATGGGAAGAAAGAGCCCAGGAAGAAGCAGGGACATAGTGGAGCCTTGGGTTTGTTGAATACGTGCTGTCAGTCATGTGCACAGGAAAATCATACCATGTGTTATGTTCACTTGTTTGTAATATGGCCAGAATTCAGGGTAGACCAGGAAGATGGACTGACCTGAAAACAAGCCTTGATTCTAGACGGCCTTGAATGTTGTCATGGGACAGATTGGGGTCAACAAGTCCTGTCCCCCTGAGCCTGAAGCAAGTGTTACTATAGTCATAGAGGTCTTCACAGCAATGTGTAAGGGCCATCACTGCCAATTCAAGATGGACCATGAGTCAAAGGTCATCTGCACCCTGGCAGTAAAAGTCACCACCTGTGTGCATCTCAGTATGAGCAAGTCAACGGTGAGAAACTTAGACCATGCCCACCCCAAATGAACATATGATTATCGTGTGTCTGCTGATGTGGCTGCCTTCTTCTCATCCTTGCAGAAGATAATAGGTGTCATTGAGTGCCCTCCACAGGTAGACTTCTGGGAATACAGTGCAGGTCATTTTTGTCACACCGTTTCCCTGGTTTTCTAG
Seq C2 exon
GAATCCAAACAGCAGTTTCAACCTCAAAGCCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:13
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=0.154
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(48.9=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAAGTTCCAGAAAAGACTGC
R:
TTGAGGGCTTTGAGGTTGAAACT
Band lengths:
238-1123
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]