DreINT0024952 @ danRer10
Intron Retention
Gene
ENSDARG00000045799 | acanb
Description
aggrecan b [Source:ZFIN;Acc:ZDB-GENE-100422-16]
Coordinates
chr25:19116227-19116730:-
Coord C1 exon
chr25:19116586-19116730
Coord A exon
chr25:19116410-19116585
Coord C2 exon
chr25:19116227-19116409
Length
176 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTATTATGTTTTTATTGTAGTCA
3' ss Score
7.37
Exon sequences
Seq C1 exon
GAATATGAAAACTGGAGACCCAATCAGCCAGATAATTACTTTAGCACAGGAGAAGATTGTGTTGTAATGATATGGCATGAGAATGGCCAGTGGAATGATGTACCTTGCAACTACCATCTTCCTTTCACTTGCAAGAGTGAACCTG
Seq A exon
GTAAGAAGAGGTGATAGATAAGAACTTCACCGCCAACTCGATTAGCTATGCTAGCCATTAGCCTATCAAACCAGCTACATGCCAAGTCATTATTTCAATCATTATGTTGTATTGTTATTATAGTGGAGCTACATTACTATTTCCAAATTTATTTTGCTATTATGTTTTTATTGTAG
Seq C2 exon
TCACATGTTCAACACCTCCTGAGGTGCAGAATGCACGGATGCTTGGGAACAGCAAAGATCGCTACCCAGTTAATTCTTTCATTCGATACCAGTGTAACAGTGGGTTTACACAGCGCCACCTTTCTGTGGTGCGCTGTTTACCAGATGGTCAGTGGGAAAAGCCTCGAGTTGAATGCATAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045799:ENSDART00000149917:16
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=0.129
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCATGAGAATGGCCAGTG
R:
CTCGAGGCTTTTCCCACTGAC
Band lengths:
242-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]