DreINT0041185 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45334807-45336473:+
Coord C1 exon
chr17:45334807-45334986
Coord A exon
chr17:45334987-45336389
Coord C2 exon
chr17:45336390-45336473
Length
1403 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGC
5' ss Score
4.72
3' ss Seq
GATTCAATGTGTACCCACAGTCT
3' ss Score
6.43
Exon sequences
Seq C1 exon
TTCCTCTTCAGGCTTCATGGGTCCTATGAGGCCCTGAAGGGTGGAAACACAGCCGAGGGAATGGAGGACTTCACTGGTGGAGTGACTGAATTCTACGAGATGAAGGAGGCGCCCAAAGAGCTGTATAAGATCATGCAGAAAGCTCTAGAGAGAGGCTCACTCATGGGCTGCTCCATTGAT
Seq A exon
GTGAGCTTCCTCAATCTACTACATTTATCATTCACTTCCTGCTGTTTCATTTTGCTGGCTTGAGATAGCTATTATACTCTTATGCACCTTAAACTTCTTCTAGACAATTTGCTAAATTATACTTAAAAATTAAATTTAAATGAATTTAAAATCCTGCTAGAAACATGCTAGCAAAGAGTTACATCATACTAGAAAGATGTTGGAAAATTGTTAAATCATGCTAGGAACATGTTAACAAAGTGTTACATCATGCTACAATCATGCTAACAAAGTGTTAAGTCATGCCAAAACATGCTAACTAAGTTTTAAATCATGCCAAAACATGCAAGCAAAGTATTAAATCATAAAGAAACATTAAATTGTTGAATCATTTCCAGCGTCGTCTTAGCTGGTCAGGCTGGGAGATGAACAGCTAAAACCAGCTTGACTTTCCTAACCAGGCTGGGAGCCCAGCCAAAACCAGCTGTGTCCAGCTTAAACTTGGCTGGTCAAGCTGGTTTTAGTTTGTCTTAGATGGTAATTTTCAAGCCTGACCAGCTAAGACCAGGCAGGAAATGGCTGGAAACCAGCCTGGAAATGGCCAAAACCCCTCTATAATCAGGCTTGTCAAGCAACTTAAACCAGCCAACCAGCTTAGGCTGGTTTAAGCTAGATTTTTCAGCAGGGAAATATTAGCAAAATGTTAAATCAAGCTAAAATCACCCTAACAAAGTGTTAAGTCATAATAAAACCATGCTAGCAAAGTGATAAATTATGCTAGAAACATGTTAGCAGAGTATTAAATCATGATACAAATATTAGCAAAGTGTTAAATCAGGCTAAAATCAACTAACAAATTATTAAGGCATTTTAAAAACATGCTAGCTAAGTGATAAATCATACTAGAAACATACTTGCATGCTTCATGGTAATGCTGGGTTAGCGAGTTGTAATTGCCATGTCAGTCTTTTTTAGTTAGAGCAAGATGGTAATGTGACTTCTTATCATAAAATGTACAACTTAATGGTTATGTATGGAAATGTCATATATTCTGTCATAAATGTACAATACTGTTGTAGTTTGTAGATGCAATTTAGTTTTATTGTAACTAACAAACAAGAACCATTGAAACATCTAATTCATACCTTAGACACACATTCATTAAATTTACCTTATAATTTAAAAGCCTAAAAACAATTTTGAGTTTCTCTGTCATAGTTACATACGGCTTTATGGTGGTTTTTATGTGCTTTCAACTTATAATTATAATCCTTTCACCATGACTTACACCACAATAGCAATGTGTCAAAAACATGCTGCTAGCTTGAAACTACTTCAAATTGGAAAAAAAAATTATAATCTTTTTAAACTTTACATTTTAATTTTAGTACACTAACATAAAGTGATTCAATGTGTACCCACAG
Seq C2 exon
TCTCTGGTTCCAGCCCGCTTTGAAACTCGTACTGCGACAGGTCTTGTGAAGGGTCATGCCTACTCTGTGACCGCTGTTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(35.4=96.7)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(16.5=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:
TCCTCTTCAGGCTTCATGGGT
R:
TCCTCAACAGCGGTCACAGAG
Band lengths:
262-1665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]