DreINT0024954 @ danRer10
Intron Retention
Gene
ENSDARG00000045799 | acanb
Description
aggrecan b [Source:ZFIN;Acc:ZDB-GENE-100422-16]
Coordinates
chr25:19121739-19122289:-
Coord C1 exon
chr25:19122207-19122289
Coord A exon
chr25:19122132-19122206
Coord C2 exon
chr25:19121739-19122131
Length
75 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
GTTTAAATTATGTTGTACAGATC
3' ss Score
4.46
Exon sequences
Seq C1 exon
GTGAAACATGTCTTTGATTTGGCTCCTGCTGTATATATGCACCCATGGCATTTCTGGCATGATATTATTTGGAGACATGGCTG
Seq A exon
GTAGGTAAAATATTGGTTATTTTTGTATTGCATTTTTTATTGCTTTAATAATTTAGTTTAAATTATGTTGTACAG
Seq C2 exon
ATCAAGACAGCACCCTCAGTGTGAGCATCCCTGTGGAACAGCCATTGCGTCCCCTACTTGGGGGGAGCATGGTTATCCCCTGCTACTTTCAGGACATCACCCTCCAGGACCCTGGCACCCTGACCTCCCCTACCAATGCCCCATTGTCCCAGCGCATTAAATGGAGTCATATCCACAAGGGCAAAATATCCCTTATACTGGTTGCCACTGAGGGTCAGGTGCAGGTTGAGACAGAGTACTTGGACAGGGTTCATCTGGTAAACTACCCCATGGTGCCAAGTGATGCTACCATTGAAATCTCAGAACTCCGTTCCCATGATTCTGGCACCTACCGATGTGAGGTCATGCAGGGGATTGACGATAACTATGATTCGGTGGAAATGCAAATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045799:ENSDART00000149917:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=PU(93.0=95.2),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTGATTTGGCTCCTGCTGT
R:
CCTGGAGGGTGATGTCCTGAA
Band lengths:
181-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]