RnoINT0013688 @ rn6
Intron Retention
Gene
ENSRNOG00000033787 | Adamtsl5
Description
ADAMTS-like 5 [Source:RGD Symbol;Acc:1305607]
Coordinates
chr7:12232154-12232429:+
Coord C1 exon
chr7:12232154-12232214
Coord A exon
chr7:12232215-12232320
Coord C2 exon
chr7:12232321-12232429
Length
106 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGC
5' ss Score
7.85
3' ss Seq
CCACCTTTATGCTCACCCAGGAC
3' ss Score
6.73
Exon sequences
Seq C1 exon
ACTTCCTGAGGAGGAACTTTGCTGGGGGGACAGTCATGAATACCGGGTGTGCCAGCTGCCG
Seq A exon
GTAGGCCCTCGAATCTGCCCTGAATCCCTCTTACTTGGTTTTGCCCACTCCAAATACCCCTTGTTGGTTTGCCCAGTTTTACCCATCCACCTTTATGCTCACCCAG
Seq C2 exon
GACTGCCCCCCAGGGGCCATACCATTCCGAGACCTGCAGTGTTCTCTCTACAATGGCCACCCCGTCCTGGGCACCCAGAAAACCTATCAATGGGTGCCCTTCCACGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033787:ENSRNOT00000060811:5
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=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=FE(41.7=100)
A:
NA
C2:
PF0009014=TSP_1=PD(2.1=2.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGAGGAACTTTGCTGGG
R:
GGCACCCATTGATAGGTTTTCTG
Band lengths:
154-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]