DreINT0000460 @ danRer10
Intron Retention
Gene
ENSDARG00000063407 | ADAMTSL4
Description
ADAMTS-like 4 [Source:HGNC Symbol;Acc:HGNC:19706]
Coordinates
chr16:1286731-1287408:+
Coord C1 exon
chr16:1286731-1286860
Coord A exon
chr16:1286861-1287203
Coord C2 exon
chr16:1287204-1287408
Length
343 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
GTGTGTGTGTGTGTGTGTAGCTG
3' ss Score
8.3
Exon sequences
Seq C1 exon
GCTCTCAGTACAGAGAGATTGTGTGTGTGAACAGACACACAGAACAGGAGGTTCACGAGAGGAGGTGTGACTCTGCAACCAAACCCACGCTAGAGGAGGAACCATGTAATGTTCATCCATGTCCACCATT
Seq A exon
GTGAGTAGGCTAACTGTGAATTAATTTTTCTTTAAAAAACTAACATGTTTATTTGACAAAGATGCATTCAATTGATCAACAGTTAGTTTGCAATGCTAAAACATGTTAAACATGCTAGAAAAATGCTAGCATTATGCTAATTTATTCTCGCAAGAGTATTAAAACATTATAGCTTCAGGATAAACATGCTAGAAAGAAGTAAACAACATGCTATATGCTACATGGCATAATATTAATTCACAACAGGAAAATGCTAAACTTGTTAGCAACATCCCAGATTCAAATACTGTAGATGTGTTACATCTATCTCAGTTAACCTGTGTGTGTGTGTGTGTGTGTGTAG
Seq C2 exon
CTGGGATATGGGGGCGTGGTCAGAGTGCAGTGTTTCCTGTGGTTGGGGTGTTCAGCAGCGTCAGATACAGTGCAGGCAGAGCTTTGGGAACCGCTCAACGATGGTCCACCCTCAGCGCTGCGCTGGTCTGAGCCGTCCCAACGCCACGCAGCCCTGCCACCCGCGCGTCTGTTCACACTGGGAGATCAGCACCAACTGGAGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063407:ENSDART00000092627:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(74.1=90.9)
A:
NA
C2:
PF0009014=TSP_1=WD(100=81.2),PF0009014=TSP_1=PU(13.0=10.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTACAGAGAGATTGTGTGTGTGA
R:
CTCCAGTTGGTGCTGATCTCC
Band lengths:
326-669
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]