DreINT0041083 @ danRer10
Intron Retention
Gene
ENSDARG00000010758 | capn12
Description
calpain 12 [Source:ZFIN;Acc:ZDB-GENE-050419-245]
Coordinates
chr18:36705907-36707999:+
Coord C1 exon
chr18:36705907-36706078
Coord A exon
chr18:36706079-36707915
Coord C2 exon
chr18:36707916-36707999
Length
1837 bp
Sequences
Splice sites
5' ss Seq
CATGTATGG
5' ss Score
3.93
3' ss Seq
ATGCTGTATTTTGTGTGCAGGCC
3' ss Score
7.89
Exon sequences
Seq C1 exon
GCTGATTGGTTCTTATGGCAGTCTAAAGGGCGGGATTATCTCAGAAGGAATGGAGGATTTTACAGGAGGAATTGCGTACTCTCTTCCGGTGTCTTCGCGACCCCCGCGCATGCTCTGGAAAGCCATCACCGCAGCCCTGGCCCGGAACAGCCTGCTAAGCTGCTTCATTCAT
Seq A exon
GTATGGACTCTTATACACACACAGTGACTCTCACAGCAACCGTCCTTCATTTTTTCAGATAAAATTATTTTATGTTTTTAATTAATTGTCAAAAATGTCAGGTTTTACTATCCTTATATTATATTCAGTTCTCACAAAGCAGGCAAAACAGGAGCCACGTAAGCATATGCACACCTCTATGATGCACACACATAAACAAAGGGATATTCAATAGATTTTTATACTGTACAGACTATGCATTATATTCCCTAATCCTAACCGTAAAATACACAAACACCAAGAATCTGTATATTTTTGATTTGACACAGTTTCTTTAAGATAAACCAGACTATGAATGTTTGTCATGAAGATCATCAAGTTTCTGGTTTTGGAAAATTGTTTTACTGAAACAAAGTGGTAAATTCTTAATAGGTGACTATCAGAGCAGCTCTTAACATTATGTTCATCTTTAAAAGCTAGTAGCTTTATAATGTCAGATGACAGATGAGCACTGAGTATGCGTAGTAGCTGGAATCGTCCATTTAACTAATTAAAGGGATAGTTCATCCAAAGCTGAAAATTATGTCTTAACATAATTAACATAATGTTTAAGATTCTTTCTTTTATTGAATATAAAAGCAGATACTTTGAAGAAAGCTGAAAACCTGTAACTATTGACTTTCATAGTATTTGTTTTCCCACCATTGGATGTCCATTGGATTAAGTATGTTTCCAATAGTGTGTATATATATATACAGTTGAAGACTGTTGAATTATTAGCCCCTCTGAATTATTCGCCACCCTGTTTAATTTTTTCCCCCAATTTTTGTTTAATGGAGAGATTTATTCAACACATTTCTAAACATATTGGTTTTAATAACTCAATTCTAATAACTGATTTATTTTATCTTTACCATGATGACAGTAAATAATATTGTACTAGATATTTTTTCAAGACATTTCTATACAGCTTAAAGTGACATTTAAAGGCTTAACTAGATTAATTAGGTTAACTAGACAGTTTAGTGTAATTAGGCAAGTTATTGTAAAACGATAGTTTGTTCTGTAGACTATCGGGAAAAAAACATTAGCTTAAAGGGTCTAATAATTTTGTCCCTAAAATGGTTTTAAAAAAATTAAAAACTGCTTTTATTCTAGCCGAAATAAAACAAATAAGACTTTCTCCAGAAGAAAAAAATACTATCAGACACACTGTGAAAATATCCTTGCTCTGTTTATCATCATTTAGGAAATATAAAAAATAAAAAAAAATCAAAGATCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGTGTGTGCGTGTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATTATGTATGTATGTGTGTATGTATATATATATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATTATGTATGTATGTGTGTATGTATATATATATATATATATATATATTCAACATAAGAAATTAAAATATTCTTGAAAAGAGTGTATAAATAATGAGTACATTTAAATTTTTTAGGTGAACTATAACTTTAATTCTTTTAATATGCAGATCTGTAAAAGATTTCTGAAGTGTAATATAAATACAGACATTAGACCATATGTCCATTTACTGTAGTGTACAAGCATGCCTCATCCAGAGTTTTTGTGTGTGTTTGTAACTTGTATTCCTTACACTACAGGGACCCCACAAAATGTCCCCACAAGTATAGCAGTTTCAGTCATATGCTGTATTTTGTGTGCAG
Seq C2 exon
GCCACCACTGTGAAGGACATTGGCACTGTGACCCCAGAGGGTCTCATCAAAGGTCATGCCTATGCCATCACTGAAACAGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010758:ENSDART00000098972:5
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(19.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATTGGTTCTTATGGCAGT
R:
TTGCCTGTTTCAGTGATGGCA
Band lengths:
255-2092
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]