RnoINT0048268 @ rn6
Intron Retention
Gene
ENSRNOG00000001520 | Dlx1
Description
distal-less homeobox 1 [Source:RGD Symbol;Acc:1309593]
Coordinates
chr3:58164931-58166646:+
Coord C1 exon
chr3:58164931-58165792
Coord A exon
chr3:58165793-58166446
Coord C2 exon
chr3:58166447-58166646
Length
654 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TGCTTCTGTTGTCTCTCCAGGGG
3' ss Score
11.22
Exon sequences
Seq C1 exon
CAGGCGTTGGGGGCGGGCGAAGGGTGGGGACAGCAAGGGGGAGGGCGACGGCAGGGCGCGGCTGGTTGGTTTCTGGGGCGGGAAGCGCGCGAGGGAGGCGGGAGGCTGGAGTCGCGCGCCTTCGAGGTCCCAGCGCGGACGCCGCAGCCCATTGTGCGTCCCGTTCCGCGCGCTCTGTTGCAGAGGAGCCCCGGCCGGGACGTGTGGACCCGACTCTCCCCAGGCCCGGCCGCGTCGCCCGCTCTAGTCCAGCAGAGCCGGAGCTTCTCGGACCAATCCCCGGTGATTATGCAAGAGAGCCGACCAATCAGCTCCACCAGCTCATGAATATTTATGACCTTGGCTGAGTCAAAGCTTTGAACCGAGTTTGGGGAGCTCGGCAGCATCATGCTTAGACTTTTCAAAGAGACAAACTCCATTTTCTTATGAATGGAAAGTGAAAACCCCTGTTCCGCTTAAATTGGGTTCCTTCCTGTCCTGAGAAACATAGAGACCCCCAAAAGGGAAGCAGAGGAGAAAAAGACCCACACCCAGACCCCGCGAGAAGAGATGACCATGACCACCATGCCAGAAAGTCTCAACAGCCCGGTGTCGGGCAAGGCTGTGTTTATGGAGTTTGGGCCGCCCAACCAGCAAATGTCTCCTTCTCCCATGTCCCACGGGCACTACTCCATGCACTGTTTACACTCGGCGGGCCATTCGCAGCCCGACGGTGCCTACAGTTCGGCCTCATCCTTCTCCCGACCGCTGGGCTACCCCTACGTCAACTCGGTCAGCAGCCACGCGTCCAGCCCCTACATCAGTTCCGTGCAGTCCTACCCCGGCAGCGCCAGCCTCGCCCAGAGCCGCCTGGAGGACCCAG
Seq A exon
GTACGTGCGCTTGCCAGGGACAAGGAGAGAAGGGAAGGAGAATGGGAAAGAGGGGGAGAAGGGGAGGGGGAAAGAGAGAAGACAAGAGAGTGTGGGGTAGAGAGAGGTGGGTGGGGGTGGGGAAAGCGCGGAAGTAGTAGAGGTTTCGGATATCAATCTGTGGATCCTTGTCACTGAAAAGAAAAAAAAATATAAGTCAATTCAATTTACAACTGTCCAGCAAAGGATAAATCCGAGCGCGTCTCCTGGCACTGTCTGGGCCTCTGGGCCGCTCGGTGCGTCGAGCACACAATGCCCTGCTGGAAAACAGAAAACCACATGTGCACGTATTAGTCTCGGTAATTATTTATTGCGTAGCGCTATAAACAATGTATGCAATTAAGGGTAATTAAACCTCAACTACCGCCTGCAAAAAATAGCGAACTTTCTCTGCAAAGGCAATAGCTGCGCTCTTGGGAACGACCCAATTCTGTCTGCAGCAGCTAGGGACCTGCGCTCGGACCTTGAGGAACACTTCGCAGTGTTTCAGGGTTTCTTGAACGTTCTTTTTCAGACTCTGACTCTGCCAACCCATCCATAGACATTCACTCTCGTCTCTCCGCACTCAAGGCAGTGCAACATTAACAAGGGTCTCTGCTTCTGTTGTCTCTCCAG
Seq C2 exon
GGGCGGACTCCGAGAAGAGCACCGTGGTGGAAGGCGGAGAAGTGCGCTTTAACGGCAAAGGGAAAAAGATCCGTAAACCCAGGACAATTTATTCCAGTTTGCAGTTGCAGGCTTTGAACCGGAGGTTCCAACAAACTCAGTACCTAGCTCTGCCTGAGAGGGCGGAGCTGGCGGCCTCCTTGGGACTCACACAGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001520:ENSRNOT00000002078:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.610 A=NA C2=0.358
Domain overlap (PFAM):
C1:
PF043607=Serglycin=PU(14.5=22.9)
A:
NA
C2:
PF043607=Serglycin=FE(39.8=100),PF0004624=Homeobox=PU(73.7=62.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACAGTTCGGCCTCATCCT
R:
TCTGTGTGAGTCCCAAGGAGG
Band lengths:
342-996
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]