RnoINT0013673 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197804826-197805303:-
Coord C1 exon
chr2:197805106-197805303
Coord A exon
chr2:197805006-197805105
Coord C2 exon
chr2:197804826-197805005
Length
100 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
TCTTCCCCTCCTTTACACAGTGC
3' ss Score
8.33
Exon sequences
Seq C1 exon
TGCTCAGCCGAGTGTGGGACAGGCATCCAGAGACGCGCTGTGGTCTGCCTTAGGAGTGGGGAGACCCTTCAGGGGGACCCAGAAGCAGGAAGCACTGAGCAGGGTTGCCCTCTCAGAAGCCGCCCTCCTGACATGCGTGCTTGCAGTTTAGGGCCCTGTGAAAAGACATGGCGCTGGTACACCGGGCCCTGGAGTGAG
Seq A exon
GTCAGCTGAGGGCCCTGAGATGGGGGACAGGAGGGAAACCAGCCCTGGTGAGCTCCCATTGTTAACTGAAGAGTGGTCTCTCTTCCCCTCCTTTACACAG
Seq C2 exon
TGCTCCTCTGAGTGTGGGTCTGGCACACAGCACAGAGACATTATCTGTGTATCCAAACTGGGGACCAAATTCAATGTGACTTCTCCCAGCAACTGCTCCCACCTACCCAGGCCTCCTGCCCTGCAGCCCTGTCAGGGCCAGGCCTGTGAGGACCAATGGTTCTCTACTCTCTGGAGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PU(10.7=9.1)
A:
NA
C2:
PF0009014=TSP_1=PD(85.7=80.0),PF0009014=TSP_1=PU(11.8=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGTCTGCCTTAGGAGTGG
R:
GCAGTTGCTGGGAGAAGTCAC
Band lengths:
256-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]