DreINT0040928 @ danRer10
Intron Retention
Gene
ENSDARG00000035122 | camsap1b
Description
calmodulin regulated spectrin-associated protein 1b [Source:ZFIN;Acc:ZDB-GENE-070705-301]
Coordinates
chr5:64949388-64949712:-
Coord C1 exon
chr5:64949573-64949712
Coord A exon
chr5:64949485-64949572
Coord C2 exon
chr5:64949388-64949484
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CTGTTCATTGTCGTCCGCAGCAC
3' ss Score
10.29
Exon sequences
Seq C1 exon
ATATCTGCTTGAAAGAGGTGACCTCAATAGCAGACAGCCTTTATAATATCCAGCTGCTGAAAGAGTTTGCCAATGAGTACCTTAACAAAAGCTTCTATTTGACTCTTGAAGACCTGTTATATGCACCACCTGTGCTCAAG
Seq A exon
GTAAGCTACTCAGCTGTGCATAATGCATCTCAGGATGTTTGATTTGGCACGGGCTTGTTCTTGACTTGCTGTTCATTGTCGTCCGCAG
Seq C2 exon
CACAATGTCATGGTATTTATAGCGGAGCTCTTCTGGTGGTTTGAGATCGTCAAGCCTGAGTTTGTCCAGCCGAGAGATGTTCAAGAGTTCAAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035122:ENSDART00000147707:8
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=0.030
Domain overlap (PFAM):
C1:
PF0030726=CH=FE(29.3=100)
A:
NA
C2:
PF0030726=CH=PD(8.9=42.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGCTGAAAGAGTTTGCCA
R:
TGAACATCTCTCGGCTGGACA
Band lengths:
172-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]