RnoINT0029140 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57374028-57376230:+
Coord C1 exon
chr19:57374028-57374106
Coord A exon
chr19:57374107-57376113
Coord C2 exon
chr19:57376114-57376230
Length
2007 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTCCTCCTGTTGCTCTGCAGGCT
3' ss Score
10.6
Exon sequences
Seq C1 exon
GACCTGTTTCTCCAGTTCGATGTGGACAAGTCCGGCACCATGTCTTCCTATGAGTTGCGGACAGCACTGAAAGCTGCAG
Seq A exon
GTAAAGAAACAAGTCGGGTGTGTATTCCCGCAGACATTTTCATGTTTGTATGTAAGTGGGGGCAGCACGTTATAAAGCTGGAAAGACCATAGAGGGGAAGAGGAGGAGTCAAGGCTGGTGGGGAGGCCAGGTGAACAGGTGACGGTTGTGGGGAAAGGAGTCTGGGTGGGATGGGGGAGGGGAAAGGGGAAATGGGGGAGGGGAGAAGGTATGGAAGGAGAATCAACATCAAAAACCTGAACTGGGCTCAGTGGGGACTGAGGTTGGCCCACCATGCTGCATTCTAAACAGTCATTTCCCACTGTCCATAGCAGAAGGCACAACACAGGGTGACACCTCAGGTCCTTTGGGAAGAACAAACAGTGTCATACACACAAGACAGTGCCTGATTCTCTTAGGGACTTGTGACCCCATCTTCAGGGCAGACTGGATTGAGCAGGGAACTACAGAACCTAACCGAGTCTTTGCAGTCCTAAATTGGTACGGAGAGAGCTGCTCAGGCTCCCTCAGTCCCATAGATGCAGATCCAGGGTTTAGGAATAGCTGAGGCCAGGCCTGATGTGTGTGTTCCAAAGACAGTGCCCTGAGCCAGAGCAGCCTCCACCCCTGGTGGACTTCCAAATGCTCCCGTGGATAGACATGCACCCAGAGTTAGTGTGGGGACACAATACCACCCTCAAACCACAGATTGGGAGGCAGAGTGATGAAAAGTCAGACCCAGATGAAATTCCCACTCATCCAAACTGTCTGACTGTCTTAGTTAGGGTTCTCATTGCTGTGAAGAGACACCATGACCAAAGCAACTCTTTTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTCCAAAGCAACTCTTATAAAGGACATTTCATTGGGCCTAGCTTACAGGTTCAGAGGTTCAGTCCATTATCATCGGGGCAGGAACATGGCAGCATCCAGGCAGGCATGGTGCAGGAGGAGCTGAGAGTTCTGCATCTTGTTCCAAAGGCAGACAGAAGACTGACTTCTAGGTGGCTAGAACAAAGGTCTTAAAGCCCATGCCTACAGTGACACACTTCCTCCAACAAGGCCACACCCACCCCAACAAGGCCACACCCACCCCAACAAGGCCACACCCACCCAACAAGGCCACACCCACTCCAACAAGGCCACACCCATTCCAACAAGACCACACCCACTCCAACAAGGCCACACCTCCAAAGAGTGCACCCCACCCCCCCCAGGCCAAACATATTCAAACCACCACACCGATGAATGAGGAAAATGAGGCTGCAGAAGTGGAGCCATGGCCTGTGGTGGCCAGGCCATCTCCAGAGCCACACTGGCCTCCAGTGTGCACAGTTCCAGCATGATGTGAGGAATGAGTCCCTACACAGCACCGCTCACTGAAGGCAGCAGCAGTCCCTTACAAGATGTCTCCAATACCTTGGATCTTAAGGCTCTTTTTATTATTATTATTACTTGTATTCTTTTACAGTCTAGTCGTTTACTCCCCCTCTGGTCTGCCCACCCACAGTTCCTCATCCCATTCCTCCTCCCTCCTGTCTCCAAGAGGATGCCCCCACCCCTTCCACCCCCTGCTCTTAAGAATCTTAAGAAATACCAGTGGGCTTGACCACTAGCCCAAGGACCTGGATACAATCCCAGAACTCATGTAAGATAAGTAAGGCATGGTAGCCTGTACCTGTAATCCCAGCACTGGAGAGGTGGAGGCAGGAGGATTCCTGAAGTTTGCTAGTCAGCTAGCCTAGCCTACTTGGCGAGTTTTAGACCAGTAAGGGGGGTGACCCTGAGGAATGAGAGCTGCCTTTGACCTCTGACCGCCGCCCACACTTTTGCACATGGACATCCACATGAACACATGCACACGGGCTTTGTACATTGAAGAGTTCTGTGCCTCTGGGGGGGTCCCAGAGATGTTGGCTCACTGCGGGGCTCAGTCAAGGCAGGTCCTGAGTCTCCTCCTGTTGCTCTGCAG
Seq C2 exon
GCTTTCAGCTGGGTAGCCATCTCCTGCAGCTGATCGTCCTCAGGTATGCAGACGAGAACCTCCAGCTGGATTTCGATGACTACCTCAACTGCCTGGTGCGGCTGGAGAATGCGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:17
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=FE(76.5=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(11.8=10.0)
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]