DreINT0041104 @ danRer10
Intron Retention
Gene
ENSDARG00000052702 | capn1a
Description
calpain 1, (mu/I) large subunit a [Source:ZFIN;Acc:ZDB-GENE-040426-1263]
Coordinates
chr13:42576685-42577280:-
Coord C1 exon
chr13:42577147-42577280
Coord A exon
chr13:42576854-42577146
Coord C2 exon
chr13:42576685-42576853
Length
293 bp
Sequences
Splice sites
5' ss Seq
TAAGTACGT
5' ss Score
5.1
3' ss Seq
GTTTGTTTGTTTTGTGGCAGGCT
3' ss Score
7.3
Exon sequences
Seq C1 exon
TTCTGGCAGTTCGGTGAATGGGTGGACGTTGTGATCGATGATCGGCTCCCGGTCAAAGACGGAGAGCTCATGTTTGTCCATTCAGCAGAGGGAAATGAGTTCTGGAGTGCCTTGGTGGAAAAAGCCTATGCTAA
Seq A exon
GTACGTCCTGATAGACATTTTGGTAAAGGCCAGCAACATTTGTGCTTGCTAAATCATTTACAAAATCGGTTTTGTCCCAGTCTTATTAAAGAGTTTACCGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGCGTGCGTGCGCGCGCGCGCGCGTGCGTGCGTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTCGGTTTGTTTGTTTGTTTTGTGGCAG
Seq C2 exon
GCTAAATGGCTCTTATGAAGCTCTTTCTGGAGGCTCTACCACTGAGGGTTTTGAGGATTTTACTGGAGGCGTTTCAGAAATGTACGAGCTCCGGAAAGCTCCAAGAGACTTGTACCGAATCATCAGCAAAGCCCTGGACAGAGGCTCCCTGCTGGGCTGCTCTATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052702:ENSDART00000046066:5
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(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
TTCTGGCAGTTCGGTGAATGG
R:
ATCAATAGAGCAGCCCAGCAG
Band lengths:
303-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]