DreINT0041152 @ danRer10
Intron Retention
Gene
ENSDARG00000055592 | capn2b
Description
calpain 2, (m/II) large subunit b [Source:ZFIN;Acc:ZDB-GENE-050522-84]
Coordinates
chr22:26312779-26313033:-
Coord C1 exon
chr22:26312969-26313033
Coord A exon
chr22:26312848-26312968
Coord C2 exon
chr22:26312779-26312847
Length
121 bp
Sequences
Splice sites
5' ss Seq
GACGTATCC
5' ss Score
0.98
3' ss Seq
CTTCCCTTAACTGATCTCAGGAC
3' ss Score
6.08
Exon sequences
Seq C1 exon
GCACTGACATTAAGTCGAGCACCTTCACTTTGGATACGTGTCGTGTCATGGTGAACCTCATGGAC
Seq A exon
GTATCCTTCCAGCTGCAGCTGAATTTATTGTGTTTGCATTAACTTGACGTAAGCACTCAAGTCAGGAATTGACAGTATTTGATGTGTTGTTCTATTGTCAGCTTCCCTTAACTGATCTCAG
Seq C2 exon
GACAGTGGGAATGGAAAACTGGGGCTGGGAGAGTTTGCTACTCTGTGGAAGAAAGTGCAGAGATACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055592:ENSDART00000077958:16
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:
PF138331=EF-hand_8=FE(35.0=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(28.3=73.9),PF0003627=EF-hand_1=PU(6.9=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCGAGCACCTTCACTTTGG
R:
AAGGTATCTCTGCACTTTCTTCCAC
Band lengths:
122-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]