DreINT0024953 @ danRer10
Intron Retention
Gene
ENSDARG00000045799 | acanb
Description
aggrecan b [Source:ZFIN;Acc:ZDB-GENE-100422-16]
Coordinates
chr25:19115921-19116409:-
Coord C1 exon
chr25:19116227-19116409
Coord A exon
chr25:19116007-19116226
Coord C2 exon
chr25:19115921-19116006
Length
220 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TGTTTTACCTCCCTCAACAGGCA
3' ss Score
10.45
Exon sequences
Seq C1 exon
TCACATGTTCAACACCTCCTGAGGTGCAGAATGCACGGATGCTTGGGAACAGCAAAGATCGCTACCCAGTTAATTCTTTCATTCGATACCAGTGTAACAGTGGGTTTACACAGCGCCACCTTTCTGTGGTGCGCTGTTTACCAGATGGTCAGTGGGAAAAGCCTCGAGTTGAATGCATAAGGG
Seq A exon
GTAAGTATTTACCACACAAACTAAAATACAAAGTTTTAGGAGAGTTGTGACCTAATGCACCCGAGTACTGCAAGGACCCATAATTCCCAGTACTGAAAGGAGTCATGGCAGGAGTAGGTGGGGGTGGGAAATCACTGCTTAAAGTTATGCTTTGTGGAGTGAAGTTCCATTTCAAATATCTAAAAAGTCATCTGTGCAAATGTTTTACCTCCCTCAACAG
Seq C2 exon
GCATAGAAAACAACAGGCTAAGGAAAAGATCCCTGTATATACGTCCCAAGGCAGTCAACAGTCGGACGTGGAGGAAGGTCCTGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045799:ENSDART00000149917:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.9)
A:
NA
C2:
NO
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:
TCACATGTTCAACACCTCCTGA
R:
CTTCCTCCACGTCCGACTGTT
Band lengths:
260-480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]