DreINT0026402 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65238876-65239208:-
Coord C1 exon
chr5:65239106-65239208
Coord A exon
chr5:65239022-65239105
Coord C2 exon
chr5:65238876-65239021
Length
84 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTA
5' ss Score
2.14
3' ss Seq
CCCTGTTTATGTTCCTGTAGACG
3' ss Score
9.1
Exon sequences
Seq C1 exon
GAATGTCCTTCTACAGGGAGGAGTTTCAGAGAAGAGCAGTGCTGGTCCTTCAACTCTCAGGTTTACAATGGAAAGAATTACCACTGGAAACCTCTCTATCCTG
Seq A exon
GTATTAACTGCTTTATTTGATTAAGCCATGCTGCGAAGGTCCAATGTATGTTTAAACCAAGAGTCCCTGTTTATGTTCCTGTAG
Seq C2 exon
ACGACTACGTTCATATCTCCAGTAATCCGTGTGACCTACACTGCACCACCTCTGATGGTCAAAGACAGCTGATGGTTCCTGCACGTGATGGGACGTCCTGCAAGTACAGCAACTACAGAGGCGTGTGTGTCGACGGCAAATGTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:3
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=PD(1.8=2.9)
A:
NA
C2:
NO
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:
TCAGAGAAGAGCAGTGCTGGT
R:
CATCACGTGCAGGAACCATCA
Band lengths:
168-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]