RnoINT0029148 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57358798-57362177:+
Coord C1 exon
chr19:57358798-57358883
Coord A exon
chr19:57358884-57362099
Coord C2 exon
chr19:57362100-57362177
Length
3216 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CTGTGGCTCTGTCCTCTCAGCTC
3' ss Score
8.48
Exon sequences
Seq C1 exon
GTAAACTTCCACGGCCAGAGAATCAAGCTCATCAGAGTCCGTAACCCTTGGGGCCAGGTGGAATGGAACGGGCCATGGAGCGACAG
Seq A exon
GTCAGTGGTTCCCCTCCATTCCTGCTCTGTGGCCAGTTCCCAGGCGCACATAGTCAGGGTGACCTGTGAGGACTGGCCTGTCCCAGAACTCTCTGCACTGCCTCTGCGTCCTACTTCATCACTTAGAACACCTATGTCAAACTTGATCCTTGACAAACAACTCTCAGGATGGCTCTTTCCCTGTCACGTGATCACGTTGCTGATGGATGTGTTGTTGTCACTGGGGTAACAGGAAGGAATATGGCTCCAGTTATAACTGACTGTGTGTGCATGTGTGTATGTATGTGTACATGTGTGTTGGGTATGTGCATGCATGTGTGTGTGCGCCTGTGTGCACATGTATGTGTGTGTTAGGGTATGTGTGTGCAAGTGTGTGTACACCTGTGTGCACATATGTGTATGTGTCTGTTAGGGTATGTGTGAATGTACATGTGTGCATGTGTGCCCATGTATATATGTGTGTTAGGGTATATGTGTGCATGTGCACATGCACATACATGTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGGGTGTACATGTGTATTTTGAGGCCAAGAATCCCTGAAACACTGCAGGTCACTCTTAGGTTCTCTATCAGCCATTGATCACTGGCTAAAAGCCCACAGTCTAACACAGAAACAGAAGGAGAACAGGAAGTTGGCCCCTTACTGGGCTCTGCTAATATGGGAAGGCTGTGCTTTCAGGGCTGTGCCCACCTGTCCTTTGGACAGTGATCCAGGTGACAGGGAATTGAGAAGCTGTGGCCTTTCCACCCTCTTGCAACTTTCTTGTCCTGCTGGTCTGCACTGCCCTGTCCAGATCTCAAGGGGAATGGCTGGGAAGGACTCTGACCAGGACGGCAAGGGAAGGGCAAGACTGGCTTCCCTCTGCCTGTGGAAATGGGAAGAACTGAGGGAGAGAAAACCTGAAGTAATAAGACTGACATTGAGACCAGAGCTGGTGTCCAGTGCCGCCCATCAAAGACATAGCTTAGTCACTCTGTCTGATCACTGGGTGTGACCCACTTAGAAGAAAATGGTTCAGTGAGCAAACCGAGGCCCTCAGCTCTCTTCTCTGTCCTGCCGGGCCCTCTCTGGATTCCATGAACCCTGCCCAAGTGAACACAGACCTGTTACACCATCACAGCACCACCACAGAAGTGAAGAGATTGAAATGATGGCAACACCCTTTACCTGAAGTTTCGCCACCCATAGTTTCTGTTGAATATGGTCGACTGAGGTCTGAAAATATAGTATCATGTGGAAAATTCTAGAAATAAATGTTAACTGTCACACCATTCTTTGTGGGGTGGTGAATCCTACACTGTATTATAGACCAGTACAAGTGTGTTCAAGTAACCTTATTCCACTTAATGACAACCCCAAGTGTGAGAAAAGTGACACTGGCTGCTTAGACAGTCAGAGAAACCAGAAAATTCACCCCTGGAGTAAAAACATAAAAGTGTTCAGCTTACTTAGGAAAGAAAAGCATTGTATGTTGGGTTTTCTAAGATCTTCAGGATAATTAGAGCAATAGATGACAGATGTAGATTGATAAATGATAGATGCATACATACATGATACATATATACACAGATGTTACATACATACATGATACATATGTAAATACATAGATGCATAGGCAGATATATAGATATATACATACATGGATAGATACATAGATGATACATAGATGCATAGATAGATACATACATACATGACACATATATAGATACATAGATGCATTGACAGATACATAGATATATGCGTAGATACATACATAGATACATAGATACATAGATGATACACAGATGCATACACAGATACATAGATATATACATACGTAGATGCATAGATGAATGGTAGATAAAAGAAGCATCAGTGTATGTCAAATGAGTCGATGGATAGGTGATGGATGAACAGGTGATGGGTAAATTGATGGATAGACAATAGGCTGGTGACAGATGGACAAATGCACAGATGATGGAAAGATGGATGCATGGATGATGGACAATAAAGGATGGGTGGATACATTAATGAATGGATGCTTAGACAGTGATAAGTTGGGATGGTGAACTGAAACGAGTGTCAGATGATGGATGAATGCATAGTTAGATAATGGATTGGATGGATAGATGGAAAATGATGGGCTGATGAAGGTGTAGATAGGCAACAGGTGGGTGAATGGATACGTTAATGGGTGAACAGATAGATGACGTTTGAAGGATGGGTATGTAGATGAGGGATGAGTAGAAAATGGTTGAATGGATGCTGGGTTAACGGATGGGTGGATGGATGCTGGATTAATGGATGGATAGATGGATGAGTGAGTAGATGGATGGTGGGTGAATGCATGGACAGATATATCACAAAATGATATAGATGGATATGAGTGATAGGTATAGTTGGAGAGTAAATAGAAAACAGATAACACACTCATGTAACTTTTGCCACATCGTTGCTCTGATTGTCCCTCTTAAGTAGGCATTATTGCTAAACTCTTCCTGTGTATCTATAAACCAAACTTCACTATCTGTGAATATATAAGAAAACATGAACAGGACTCTGTTCTTGTGGATTTAGCATCCCCTGGGGCACCTAGAACCGACCCAGAAGACTCCTGGGTCAGAAGGCAGCAAGGAAATCACAACACGCAGCACTGAGACTGCAAGGCCAAGCTTGAGCTGGCGAAGGTGTCAGCGTTTCTCCTTCACGGCTCTCCTTGAGAGTGAGTTCTACGCCTGCTTGAGCCTTCGGTGGGACCTGAATTTGGACTCACCCATGGCAGACCCTTTCTGAGCTTCTGGTCACATAAACAGGGCACTCCATATTTCAAATGGCCACCACAAGCATTAGAAGCACTACCCAAGGGTCAGTTTATAAACCAGAAGGACCTTGGCATGCTCCAGGTCACAGGCAGGCTGTGAGTTAGGGACATTCATGAACTGTAACCTCCAGCTGGGCTACTGCGTTCACAGTTCCTTGTGACTGTCCCATAATGACCTATGAAAGGACCGCTTACCCACAGCACTTGGAAGTACACCTCCTAGCCACCATCTTGCCGGAGCCAGTGGTGAGCTGGCTTCATGTCCCTGGGCCCAGTGAACCTCACTAAAGAGAGTAATGAACCCCACACCATGCATATTTAGTTGGTGTGGTCCTGGAGAGGTGGAGCACCCAGGCTGAACTGTGGCTCTGTCCTCTCAG
Seq C2 exon
CTCTCCTGAGTGGCGCTCCATGAGCCTGGAGGAGCAGAAGCGCCTAGGTCACACCGCCCTTGACGATGGAGAATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.148
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.8=100)
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]