RnoINT0029135 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57367001-57368944:+
Coord C1 exon
chr19:57367001-57367037
Coord A exon
chr19:57367038-57368863
Coord C2 exon
chr19:57368864-57368944
Length
1826 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ACCTTCTTTGGTTCTTTCAGCTT
3' ss Score
9.74
Exon sequences
Seq C1 exon
GGACCTGGATGAGAACATAGACATTGACCTTCCTGAG
Seq A exon
GTGAGTCCTCTGCTGTGGCTCTAGGGGAATGGGGTTCCGCTGAAGGTTCTAGAACTCTTCTTCACACCAATTCAAAACTGAACTCAGGGTTGGGCAGTGGTAACTCATACCTTTAATCCCAGCACTTGGGAGGCAGGGGCAGGTGGATCTCTAAATGTTTTAGGCTAGCCTGGTTTACAGAGTGAGTGCCAGGACAGCCAAGGCTACACAAAGAAACCCTGCCTCAAAAATAAAGCAAAAGGTAGGGGATCGAATCCAAGAGACGACAACTGGGTAAGCACCCTGGCTGATTCTAACCTGCAGCCCAGAGCTTCTGTTTCTCAGCCCACACAAACCATGGGGCTGGACAGTGGCCAGGTGGATGCTTGGGATAAAGTTCTCTTGAGGGGCTTCCCTCTCTCCTAAGAGACCCCTTGCTAATTGTGATGGCGATGAAACACCTTCACATTTACTTCACTTAAGAAGATAACCACAGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAGCCACATGGTGGCTCACAACCATGTGTAATGGGATACAACACCCTCATACTCATATACATTAAACACACAAACACATAATTAATAAAAATGTTTAAAAAAATAAAAGAAGATAACCACAGTGGAACACACTTGTAATTCCAGCCCATCAGAGGTGGGGGGCAGGAGGATCAGCTAGGACAGTCTGGGCTACTGGGTGAATGTAAATAAGACCTACAGGGGATTAGAGACCCTGTCTCAGAATATACACACCGAAAGGGGACGATAAAGGAAAGGGGAAGGGATAGGAGGGGGATGAAGAGAAGAAGAAGGTAAGACAAATGAGGTGGATTGATTTGGGGAACCCAGGAGTCATGGCAGGAGGGCTGTGAGGATCGTGAAGATGTGCTTACGTTCTATCTACAGACATGTATATGTCCATGTGCCGTATATACGTCATGAAGTTAGACGTGGGGCTAACCGGAAAGAGGAAGGGGTCTAGACGTTACTACAGGAGAGGCTAAAGGAGGAAATAATAAGGTCAAAACATATATGATATGCTTGGCTCAAAACGTCACTGTGAAATCCAAAGCTGTACGATGAATATTGAATATCCGAGGGGTGAGGGAGACACGATCAGCACTTCTGAAACAGTCAGAACTTCCTGGGCTGCAGAGCCTGCTGCTCTGTGCTGCCCCCTAGGGCCGCAGTTTATAAATGGGCCGAAATCTACAGAAACCCTTTGCCAGCTCTGGGTGCTGGAGAGACTCTTGAAAGGCTCTTCTCTACCGAGAGAGATAATGGATCAGGTGATGAGGCTGGAGCATGGCAGCCCTGTGCCTGTCAGGCCTAGACACCCTTAGCCTTCACCTCCATGTCAAATGTTCCCACTCTGGCCAACATGTGGTCACTCAAACTGAACCTCACGTCCCCAAGATGAAAGCAAGTTGTTCATCTAGCTTTGAGAAGTCAGGAGATGCCGAATGAGCCTGACAGGCTAGCTCTATCCGTGCCACTCGGAAGGCCCCCTGCCTTAACCCCCGAGTTAAATCTCCGGAGCAGTTTGCTGCTCACCTGCATGTTCCCTGCCGGGTATGTCCCATTCCTTTCTTCTGTTGTGTGGGAATTGAACCAGGCGGGTCCTTCCACGTGCTAGGGAAGACCTCTCTGGCTTTTCCTTCAGTGACAGCGTGGTGTCCAGTGTGGGCTCTTCTCTTCTGTTATTTATGTGAGAAGGCGTGTGTCAGACTTCTCTCTGTGAGCCCGTCTCTGCCCTTTACACAACCTTCTTTGGTTCTTTCAG
Seq C2 exon
CTTCCAAAGCCGACACCACAGGAGGAGGAAACCGAAGAGGAGCGGCAGTTCCGGGCCCTGTTCCGTCGAATTGCTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.308 A=NA C2=0.481
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
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]