DreINT0041160 @ danRer10
Intron Retention
Gene
ENSDARG00000055592 | capn2b
Description
calpain 2, (m/II) large subunit b [Source:ZFIN;Acc:ZDB-GENE-050522-84]
Coordinates
chr22:26321768-26322232:-
Coord C1 exon
chr22:26322064-26322232
Coord A exon
chr22:26321852-26322063
Coord C2 exon
chr22:26321768-26321851
Length
212 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGA
5' ss Score
4.22
3' ss Seq
CACTCTATTTTTATCTGTAGATC
3' ss Score
9.56
Exon sequences
Seq C1 exon
GGTGAACGGCTGTTATGAAGCCCTGTCTGGAGGATCCACTAGCGAGGGTTTTGAGGACTTCACTGGAGGCATCGCTGAGAGCTACGAGATCAGAAAAGCACCGACCAATTTGTTTCAGATCATCCAGAAAGCCCTGGAGGCTGGAGCTTTGCTGGGCTGCTCCATCGAC
Seq A exon
GTGAGATTTCTATATTTATGACATCCACAAATTACTAGACTGCATGTTTGTAGAATGTTTGGATGCAAAACGAATAGCTGTTTATGGAACAATTATCAATAGAAAAACGACTGAAATTTTTTTATAATATTTGAAATTTTGTTGAAGTAGTTTCTGCCCAATCAGATGTAATTTTGAGTCATAAGCCCCACCCACTCTATTTTTATCTGTAG
Seq C2 exon
ATCACAAGTGCTGCTGATTCAGAAGCCATCACTCGTCAGAAGCTGGTCAAAGGCCACGCCTACTCACTCACAGGGGCAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055592:ENSDART00000077958:5
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(18.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.1=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:
GTGAACGGCTGTTATGAAGCC
R:
CTCTGTTGCCCCTGTGAGTGA
Band lengths:
252-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]