RnoINT0013681 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197808664-197809391:-
Coord C1 exon
chr2:197809255-197809391
Coord A exon
chr2:197808869-197809254
Coord C2 exon
chr2:197808664-197808868
Length
386 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CCTCACCTCACTCTCCTCAGAGC
3' ss Score
8.88
Exon sequences
Seq C1 exon
TTCAAGGCTCCCAGCGCTGTGAACTGAACTGCCGCCCCCGTGGCTTCCGATTTTATGTCCGTCACACTGAAAAGGTGCAGGATGGGACCCTGTGTCAGCCTGGATCCCTAGACATTTGTGTGGCTGGACACTGCCTG
Seq A exon
GTAAGGGAGGGCAGGGTGTTGGTGAGGGAGGGCAGGGTGTTGGTGAGGGAGGGCAGGGTGTTGGTGAGGGAGGGCAGGTTTGTATATGTGCACCTTCCCTCACACACTCTCGAGATCGCCCCTCCCCCCAATTTGTTACAAGAGTGAAAACACCTGACTGAGGTGGCCAGAGGGAACATCTCTGCTGCCAGTAAGGGTGGGTCATAGGCAGGATCCTACCAGACTCGGCTAAAACTACTCCAAAAGTGCTTGGGGGCCCAAAGAACACTCTCACCCAAAGCACAAAGAGCCGAGCAGGGGCCGAGCTGAGGGCCCTGAGTGGAGTAGGCCAGGTGTGAGGTGTGCCTGGCTTCTGTGTGGCCCCTGCCTCACCTCACTCTCCTCAG
Seq C2 exon
AGCCCCGGCTGTGATGGGATCCTTGGCTCTGGCAGGCGTCCGGATGGCTGTGGAGTCTGTGGGGGTGACGGCTCTACCTGCCGTCTCGTTTCGGGGAATCTCACTGACCGAGGGGGCCCCTTGGGCTATCAGAAGATCCTGTGGATTCCTGCGGGAGCCTCCCATCTTCGCATTTCCCAGTTCCGACCCAGTTCCAATTACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:7
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:
NO
A:
NA
C2:
PF059869=ADAM_spacer1=PU(35.3=59.4)
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:
TTCAAGGCTCCCAGCGCT
R:
CAAGGTAATTGGAACTGGGTCGG
Band lengths:
342-728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]