RnoINT0029141 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57376114-57377577:+
Coord C1 exon
chr19:57376114-57376230
Coord A exon
chr19:57376231-57377518
Coord C2 exon
chr19:57377519-57377577
Length
1288 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
TTCTTCCTCCCTCCCACCAGGGG
3' ss Score
11.33
Exon sequences
Seq C1 exon
GCTTTCAGCTGGGTAGCCATCTCCTGCAGCTGATCGTCCTCAGGTATGCAGACGAGAACCTCCAGCTGGATTTCGATGACTACCTCAACTGCCTGGTGCGGCTGGAGAATGCGAGCC
Seq A exon
GTGAGTGTGCATGGGAGCCCTGAGTGTGCGGGCGAGCTGAGAGCATACGGGGGAGCCCTGAGTGTGCAGGGGAGCCAAGTGTGTCCTGGGGGGACCCCTGGGGACACAGAGTGCCCAGCTCAGGGTCTCCAGTCACCATCTAAGAGCACATAAGAAACAACCCAGGGAAAAGAAGGCAGATCTAGGACGCAGAGGGCCACTGTGGATGTCTGTGCAGACACCCGAGCCCTGTGGTCAGCTAAGAGACAGGGTATAGAGTGTGCAAACAATGTCCTGAGGTTGTCATTTGTTACACACCTACAGGCTGTGAAGGGCTGTGACTGGGCAGGGTTTGTGCCTCCTACTGGGAAAAGGCCAAGTCCCCTCACAAAATTCAGAGTGAGAAATCTCTGTCCCTCTGCTGTCTCCTGAAAGCCCCAGACACAGACACGGCCACTTAAGCAGGGTCTGCTATACAGGAAAGACGGAAGGCGTGTGTGCGGATACTCCACAGAGAGGTTCGTTGTCACACTCTCTCCCAAAATAGCCCAGAAGGGTGGCCAAATGCATCCAGGTCAGCTCAGTCATCCAGTGTCCTTTCAGCTGCAAACAAACATGTCCCACTGTCTTGTGGTTTTATAATTGACATGCATTCTACACACCTAGTAATTTTACACACCTGCACAACCATGGGATGCCCAGTTCATAGTGAAGTGTCCCAGTGTGATGACAGGATGTTGTCACCATTTCTTGGGGGACTCAGCATCTAAGAAGATCCATGCTACATTTATTTAACCCCCTGCCTGACTCTCTCTCTCTGTCTCTCTCTGTCTCTCTCTCTGTCTTGCTCTCTCTGTCTCTCTCTCTCTCTTACTCTCTCTCTGTCTGTTTCTCTCTCTTGCTCTCTCTCTCTGTCTCTCTGTCTCTGTCTCTGTCTCTCTGTCTCTCTCTGTCTCTCTCTGTCTCTCTCTGTCTCTCTCTGTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTTGCTCTCTCTCTCTCTCGCTCGCTCGCTCACTCACTCTGGGACAGCCCCTCCTCCACCTTGCTAATCAAGGTTTGGCTGTGTCTCTTCTGGAGGTGGGAACCTGAGGTCCAGAGAAGAAAGTCCCTTCTCATGTCATCCAGGCCAGGAGCTGAAGCCTTGAATTGGTCTCCACCCTGCCAGGCTGATCTCCACCAGAGGGAGCAGCTGCCCACAGGTTTCCCAGTGGTCCAAGAGCCCTGAAACCTACCCAAGGGTCTGGCTCTACTGTGACTCTTCTTCCTCCCTCCCACCAG
Seq C2 exon
GGGTGTTCCAGTGTCTCAGTGTGAAGAACAAGGACTTCATCCATCTCAACATAAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:18
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:
PF134051=EF-hand_6=PD(11.8=10.0)
A:
NA
C2:
NO
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]