RnoINT0029144 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57351547-57354014:+
Coord C1 exon
chr19:57351547-57351665
Coord A exon
chr19:57351666-57353880
Coord C2 exon
chr19:57353881-57354014
Length
2215 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTTGCCCTGGGCACTAGTTC
3' ss Score
2.75
Exon sequences
Seq C1 exon
GAGACTGCTGGCTCCTGGCCGCCATTGCCTCCCTAACCCTCAATCAGAAAGCACTGGCCAGAGTGGTACCCCAGGACCAAGGATTTGGTTCTGGCTATGCTGGGATATTTCACTTCCAG
Seq A exon
GTGAGGGAAACCTTGGGTTTGCTTGCGATGGGAGGTGGCCCAGGAGACAGTGTGTACAGCTGTGTGCTGTTGACAACCCGGAAGCTCAATGACAGTGTATGAGTCGTGGTGCCAATCCACATGGGATCTCCCTGGGGGACTTCCAGAGGAAGCAAGCACAGGGAGAGGGAAGTATACAGTATACTTTCCAGAGCTCTTCTCATAAGCAAAGAAGTCAAACATAGAACTGAAAAACAGCCATGAGCTCGTATGACTGAGCTGCACAGGGAGGCTTGTCCCTGCTGTGCTCCTGCTTCCTTTGCCCATCTCTTTCCACCTACGTAAACACACACAGTACATAGATGAGCACAAACACATGTTCATTTGTGTATACACCCACACACATGGGCACATATACCTGTACTCACAAACACACACATGCATGTAAGCAATGCACATTCTTAACAAAACTATAGACTCACACACAGTACACATAATAAATGTGCTAAGTCACATATATGCACACACATATATATGCATATGTATGTCTATGTGTATGTATATGCATATATGTATAGAATATATGTATGTGTATGTATAGTATGTGTAAGTATAATATATTGTGTATATATGGATATTATATGTATATGTGTATATATGTGTAGTATATGTATGTATATAGCATGTGTATGTGTGTATGTGGATATAGTATATGTATGTGTATGTGTAGTATATATGTATATAGTATATGTATGTGTATATAGTATGTGTGTATGTGTCTGTATGTGTATAGTATATGTATAGTATATGTATGTATAGTATAGTATGGTATATGTATGTGTATATGCATATATATAATATGTATATATGTTTATGTATGTGTATAGTATGTTTAGTATGTTATGCATGTGTATACTCTGTATAAGTGTAATATATGTGTAGTATTGTATATGTATATGTGTAGTATATGTATAGTACATGTAGGTGTATGTGTAATATATATATATATATATATATATATATAGTCACCCACATATTCACATACACACATTCTGTCCCATACCTGCATATTCACAGATAAACTCACCCACTGTTGTAGTTTCCTTCTTTCTGTCTCTGTGGTAAAACACTTGGATGAGAAGTAACTTAGGGAAGGAAAAGGTTTATTTGGCTTACAGTTTCATAAGGCTGTCCTTAATTCATAAAGAACTCATATTCCTTATTCATAACCCATAACTCATCACTGAGAGGAAGTCAGGCCAGGAACTTAAACAAAAACCATGAAGGAGTGCCGCTTACTGTTTGCGCACCAGTTCACTAGCTTTCTCATATTATCCAGGACTCTCTGTTGAAGACAGTGCTGTCCACAGTGTACGGAGCTCTCCCCCGTCAGTCACAGTCCAACATGGCCACGGGTCATCCGATCTGAACAATTCCCCTATGAAGATGCTCCTAGATGACTCTAAGCTTTGTCAGGTTGACAGCTGATACTGGCTAGGACACCTACACAATGCACTTTTAAATGTACACACTCACATGTGCATGTGCATACATGTGCATGCACACGGACACATATCTCATACATGCACATGAACACATATCTCATGCATGTACATGAACATAGACATTCAGGTTCATAACTACATGTATGTATATAGGTACTCACGCCCCCACACACATGTGCTCACATATGCAAACTCTCAGGTGCATTACCCATATGCCCCTCATGTCTATAATCACGGCACACAGGAAAACCAAATCCAAACACATTCGTGTTGGGGCTCCACCTACGTGGGCGGGAAAATGTGGGTTGGTGAAAGGCAAAAGCAGAGTGGAAGCGTGAATGGAGACTGGACTGGGTGTGAACAGAACTAATCTCACATCTTACATCCTCTCTCTCACATCTGCCCACCAGCATTAGCTCAGAGCACAGGCATGTGTGTCTACTTTGACTTCTCCCTTACCCACCTCCATGGTGACACAGTCCTGGAATTGATTTTCATGGTGGGTGAAGGCCCAGTATATGCTGAGTGAACAAAGCCCAGGTTACCCTGCTGTGAGACCCAGATGGCCTTGTCACAACATCCATGCAGCTCTGATGTGGCAGCAGATGAGATCTTCCTTGGAACACTAGGGCAGTTTGCTCAGGGGGAAGAACCATGGAGTTAGCATTTGCTGCTGGGCCCACACCTCAGTGTGACTCACCCTTGTCACCATGTCTTGCCCTGGGCACTAG
Seq C2 exon
TTCTGGCAGCACAGTGAGTGGCTGGACGTGGTGATTGATGACCGCCTGCCTACCTTTCGGGATCGCCTGGTCTTCCTCCACTCTGCCGACCACAATGAGTTCTGGAGCGCACTGCTGGAGAAAGCCTATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:3
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:
PF0064816=Peptidase_C2=FE(13.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.9=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]