DreINT0000456 @ danRer10
Intron Retention
Gene
ENSDARG00000063407 | ADAMTSL4
Description
ADAMTS-like 4 [Source:HGNC Symbol;Acc:HGNC:19706]
Coordinates
chr16:1279400-1280172:+
Coord C1 exon
chr16:1279400-1279588
Coord A exon
chr16:1279589-1280020
Coord C2 exon
chr16:1280021-1280172
Length
432 bp
Sequences
Splice sites
5' ss Seq
TACGTGAGC
5' ss Score
4.3
3' ss Seq
TCCCCTTTCTCTCGCTGTAGATT
3' ss Score
11.82
Exon sequences
Seq C1 exon
GCTCTGCGCAGTGGGACAGGTCAGTCAGTGGTGAACGGCCGCTGGGCTGTGGATCCTCCAGGAGAGTATCAGGCAGGAGGAGCCGCTTTCCTCTACACCCGACCCAAAGCGGAGCCTCAGGAGCCGGGAGAGGACAGAGGAGAGACCCTCACTGCTGCTGGACCCACTACTGCACTGCTGCAGCTATAC
Seq A exon
GTGAGCATGCACACACACACATATAGAGATATATCCCGGCTGGGCCAGTTGGTGTTTCTGTGTGGAGTTTGCATGTTCTCCCCGTGTTGGTGTGGGTTTCCTCTGGGTGCTCTGGTTTCCCCCACAGTCCAAACACATGCGCTATAGGGGAACTGATCAACTGCATTGAACATAGTGTATGAGTGTGTGTGTGTGAATGAGTGTGTATGGGTGTTTCCCAGTACTGGGTGGAAAGGGAAGGGTCAGAATCTTTAAGTCAGAGTGGAATAATGATCTTTCAGCTTTAGGTTGATTTAGAAGTGAAGGTAAAGACTGTGCGAGTGTGTTGTGTGTGAAATATGGCTGACACTGACTGGAATGCGGTCGTGGAGTGAGATGTTTCCATATGCTGGAGTTTATTAACCTGTTTTTTTCCCCTTTCTCTCGCTGTAG
Seq C2 exon
ATTATTTTCCACAGGCAGAATCCAGGCATCGACTATGAATATTACATCCCAGTGGATAAACGGAGAGACGGAGAGAGAGAAGTGCTCAGAGAGAGAGAGAGAGGGAGATCGGCACTCAGAGAGACCAGTGAGTTTAACTACACTCCAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063407:ENSDART00000092627:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.540 A=NA C2=0.510
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=FE(51.2=100)
A:
NA
C2:
PF059869=ADAM_spacer1=PD(13.2=31.4)
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:
CTCTGCGCAGTGGGACAG
R:
TGGAGTGTAGTTAAACTCACTGGT
Band lengths:
335-767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]