DreINT0041098 @ danRer10
Intron Retention
Gene
ENSDARG00000052702 | capn1a
Description
calpain 1, (mu/I) large subunit a [Source:ZFIN;Acc:ZDB-GENE-040426-1263]
Coordinates
chr13:42558001-42558721:-
Coord C1 exon
chr13:42558643-42558721
Coord A exon
chr13:42558115-42558642
Coord C2 exon
chr13:42558001-42558114
Length
528 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CCTATTTGCTTTCTCTACAGGCT
3' ss Score
9.56
Exon sequences
Seq C1 exon
GGGATCTTCAGAGAGTTTGATATTGATAAGTCAGGAACTATGAGCTCTTATGAGATGCGTCTCGCTGTAGAATCAGCAG
Seq A exon
GTAAATTCATTTCACTGAATGCTCCATTAATAAACTAAAACTTTACGTAATATTATAAGCAAGGATATAGTAAGTAAACTAATGACCAGACAATCAGTGCACTATATTGTAGTAAAAAAAATCTCTCTTTTTATCTCTTTGTTTACTGTTTTTACTCTATTTTTGATCAAATAAATACATCCTTCACTGAAAAAAATGATTCACTGGATTTACTAAATTTGTTAAGGTAAGTGGTTGCAAACAATTTAGTTTGGATTGAATTTAAACAAATTAAATTTAGTAATGTTCATCTTAATTTGTTTAAATTCAGCTTATATAAATTGTTTGCAACCACTTACCTTAGTAAGTAAATTTAGTAAATACAATAAATCCTTTTTCAGTGTTCGAGAATCTACATGTAATGTTTTCAAAAAAAAAATTTCTAAATCTTAACCAACTCTACAATTTTGCATGATATTTATATTATGTAATAATTATTGTTACTTTGAGGTCCTCTCTGAAACACCATCCTATTTGCTTTCTCTACAG
Seq C2 exon
GCTTTAAACTCAATAACAGACTCAACCAGATCCTGGTAGCCAGATATGCAGAGAACGAGGCCATTGATTTTGATAACTTCGTCTGCTGCTTGATCAAACTAGAGGCCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052702:ENSDART00000046066:19
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:
PF0003627=EF-hand_1=PD(86.2=92.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATCTTCAGAGAGTTTGATATTGA
R:
ACATGGCCTCTAGTTTGATCAAGC
Band lengths:
190-718
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]