RnoINT0029143 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57349417-57351665:+
Coord C1 exon
chr19:57349417-57349486
Coord A exon
chr19:57349487-57351546
Coord C2 exon
chr19:57351547-57351665
Length
2060 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
ACGTGACCTTCTCTCTGCAGGAG
3' ss Score
10.98
Exon sequences
Seq C1 exon
GAAATTGTGGAAAACCCAGAATTCATTCTGGGAGGGGCCACCAGGACCGACATCTGCCAAGGGGAACTGG
Seq A exon
GTAAGTAGAGAGGAGAGGGATGCCCGGGGATCACACTTAAGTGCCACCAGAGCCAGAGTCACTCAGGCCCCTGAGGATCAGGATACAGGGCTGGCAGAACAAGGCCCAACCTGGGCCTCTCCCTCCCTGGTTTGCAGGTGCCTTCCCTGCATAGAGTCCAGAGGCTTCTCTAGCCCCCGCACTCCTGCTTTTCTGGTAGCATTGTGTTTGGGCTCTGGGCCTGTCTAAAAGTTCCCAGAGAGGTGAGTCTCCCCAGAGAGCACCTGATTCAGAGGCTCCTGACCCTTTGGCCCCACAATGGTGGCTCATGGTTTTATAGCTCAGTGTCGCCCACACTGTAAGCCTGTTCCCTGTCATGTTCTCTCCCTAAGATTGCACACTTCTGCCCCTTTTCCCAGCTGCCTTCCCAATGTTGCATATGAGGAACTGAGGCAAGGGAACCAAGGAGTATGTCCAAGGTCACTAGTGACAGATGGGCAGTCAGATTGCAAAACCGTGTTGGCCACAGAGACCGTGATTCTAGCCAGCAGCTTCCATGCTCACAATATTCCTCCTACAGGGGACCCTGGTGACCCTCACAGCAGCATCAGGAATTAGGGTGAACTGGGCAAAGTGGGGCTGGAGAGATGGCTCAGCGGTTAGGAGCGCTGACTGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCGACGGTGTGCTCGTATAAGTAAAATGAATAAATCTTTAAAAAAAAATAGGTGAAGCTTATTCTTGCTGACTCTGCCAAACAAAGACTGCACGGTATGTGCTGAAGAAGGAAGGGTGTTGTTTAGATCGAGCTACCCAGAGCCCAGGCTAACACTGTGGTCACTGTAGTGAGAACAGATCGTCCGGAATCTCAAGGAGAATCTGAGTTGTCTCCATAGAGAATCCCAAAGCCAGCTTCCCAAACTAGCGACAGCTAACTAGACGGAAGGGAGGGAGGAAGGAGATATGCAGATGATGGATTGAAGACAGACAATAGCTAATAGTCAATAGATAGATGATATATAGATGATAGAAGACAGATAAATTGAAAGCATAATATATAGAGATAGATTGTAAAAGACAGATCACATGTAATAAGTAGATAATTAGATGATAAATGACAATAAATGGTAGATAGTAAATATGTATGATTGATAATACAGATGAATGGTTGATAGATTGATAGATAGACCATAAAAAGTCAGTAGAGCATACCAATTAGACAGATATGACATATGGTTGACAGGTGGTAGATAGTACAATTGATGCATAAATGGTACATGCATGGTCAGTGGATGGATGGAAGAAGTGGGCAGGTGGATGATGCGTGGGTAGATTAGTGATGGCTGGGTGGGTGGATGGATGGATGGATGGATGGATGGATGGATGGATAGATGGATGATGGATGGGTTGATGGGCAGATAAAAAATTGCTACTAGTCCAAGCCCAGTCTAGGCTATAGGCTGGTGTCCAGGCCAGCCTGTCTATTGAATGAGACCCTGTCACAAAAGAGGAGAATGAAAGAAGGGAGAAAGGGAGGAAAGGGAAGAGAGATGGAGGGACGGAGGAAGGGAGGAAGAAGAAGGAAAGAAAGAAAGAAGGAGGAAAGCCAAGAAGGGGTAAAGGAAGGCAAAGGAGCCACCTTGGAGCTGTTGCTGCTCACAGCTCAGGATTGCAACAGGCACCACTAGGTCATTTCTGAGACCCTTTCCCCACCCACTGCCACAGAGCTACTGTGACACATCGCGTAACCCTAGTCCTCTGAGACCTTATGATGATGAGATGCAGTGGCTCCTGTGTCTGAAACAAGTTAGCAAACGTCGCCACAGTATCCAGGAGGCAACCACAGAACAGGGTGGAAGAGCAGGCTGGGCAGGCAGAGGGACAGAGATATTTGCTATCACAGAGGAGGCTCCACACCCCTCGGACATCGCTTTTTCTTGACTCCTGGGAATCAGAGTGATGTTACGTGACCTTCTCTCTGCAG
Seq C2 exon
GAGACTGCTGGCTCCTGGCCGCCATTGCCTCCCTAACCCTCAATCAGAAAGCACTGGCCAGAGTGGTACCCCAGGACCAAGGATTTGGTTCTGGCTATGCTGGGATATTTCACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:2
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(7.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
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]