DreINT0026393 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65241841-65242421:-
Coord C1 exon
chr5:65242294-65242421
Coord A exon
chr5:65241917-65242293
Coord C2 exon
chr5:65241841-65241916
Length
377 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTGCAACACCTTTTTCAAAGGAA
3' ss Score
3.7
Exon sequences
Seq C1 exon
TCTAACAGTCTGGAGGACGGGCTGGAAGTGATCACATACTGGTGGGGTGAATGGACAAAGTGGACAGCCTGCACTCGTACCTGCGGAGGAGGCGTCATGTCACAGGAGAGACACTGTCTGAAGCAAAG
Seq A exon
GTAATTATTATGCACATCACACAACTACTATAAAAGCGATCTGTTAACTGAGCTGGTAATATTTAAAGAATATTTAAAGAGCATTGTGTAGCTCAAAAAGAGTACACAGCGGCCTCTGGTGGAAAACTGCAAAAAACGTAGCTCCTGGGACATATTTGGCACTCTCCATAAATATATATAGGGGTACGTATTCATAATGAGCCTCGATTGCAAAATAATGTGGTACCAAGTCATATTTATGAGCAATAAAAAGTTACAAGAGATATGAGAGAAATTTTGGAAAATTACTTAAAACGCAGGAGTAACAAATACTTTTGTCTTCAACTGTGTATCCTGTTGTATTCAACTGCTGCTAAACTGCAACACCTTTTTCAAAG
Seq C2 exon
GAAGAAAACAACAACCGGTAAAGACAACATGACATGCACAGGCAATGCAAAAAAGTATCATCTCTGCAATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:1
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=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PU(49.1=62.8)
A:
NA
C2:
PF0009014=TSP_1=FE(45.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACGGGCTGGAAGTGATC
R:
CTTTGCATTGCAGAGATGATACT
Band lengths:
192-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]