DreINT0024949 @ danRer10
Intron Retention
Gene
ENSDARG00000045799 | acanb
Description
aggrecan b [Source:ZFIN;Acc:ZDB-GENE-100422-16]
Coordinates
chr25:19117003-19117595:-
Coord C1 exon
chr25:19117482-19117595
Coord A exon
chr25:19117162-19117481
Coord C2 exon
chr25:19117003-19117161
Length
320 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
TTTCTCTTCTGTGTTTTCAGTGG
3' ss Score
9.99
Exon sequences
Seq C1 exon
CTCCATCTGACCCCTGTGATCCAAACCCCTGTGGTCAAGGTCTATGCTCTTTACAAGATGGAGTTGCTTTATGTCAGTGTCATTCAGGATTCAGTGGAGAAAACTGCTCAGTGT
Seq A exon
GTAAGTGAAAAGTCATTTATAGAACATGTAAAAGGTAACCATTCAAATATGCCATGATTTTCAAACCACACATCTTCATTTCCTTTGTTTTTTTACTGTCTTGTTACTTCCTATGAGTAAGGGTATAATTCAAAGCCATTTAATTACATTAAATTCTAAGCTTTTAGAGTGAATATATGTTGACTATTTACTACGACATTTAATGTGGACAAATTTTTTCTTACAAATACAGAGTGCAGAGCAGTGAAACGCATAGGAAATGTGTGAATTGAGATGCAAGCCACCCCTTTAAAAATACCTTTTCTCTTCTGTGTTTTCAG
Seq C2 exon
TGGTACAGGGATGTGCTGAAGGGTGGATGGAGTTCATGGGCAGCTGTTACATTCATTTTGATGAGCGTGAGACTTGGACCAGTGCTGAGCAACACTGTCAAGAGCTAAACTCTCACCTAGTTAGCATATCCTCCCAACAAGAACAAGAGTTTGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045799:ENSDART00000149917:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF048638=EGF_alliinase=PU(84.4=69.2)
A:
NA
C2:
PF048638=EGF_alliinase=PD(12.5=7.4),PF0005916=Lectin_C=PU(30.2=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATCTGACCCCTGTGATCC
R:
TTTACAAACTCTTGTTCTTGTTGGGA
Band lengths:
270-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]