RnoINT0048272 @ rn6
Intron Retention
Gene
ENSRNOG00000004278 | Dlx3
Description
distal-less homeobox 3 [Source:RGD Symbol;Acc:1304875]
Coordinates
chr10:82937971-82939715:+
Coord C1 exon
chr10:82937971-82938480
Coord A exon
chr10:82938481-82939524
Coord C2 exon
chr10:82939525-82939715
Length
1044 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGGTGTTTTCCCCTTACAGTGT
3' ss Score
10.58
Exon sequences
Seq C1 exon
GGACGCTGAGAGAGGCACGCAGCTACTGACCGACGACCGGCGATGGTCTAGGCGCCCCTTGGCCACCCCCACCCCCGACGCGACCGCGTCCTGCCCTCGCCCTCTGGACACACACCCCACCTGGGCTCCTCCGTCCGTTCGGCGCTCCTCGGAGGAAGCCCGGGGGTGTTGCGGCGCTCGCCAGCATGAGCGGCTCCTTCGATCGCAAGCTCAGCAGCATCCTCACCGACATCTCCAGCTCGCTTAGCTGCCATGCGGGCTCCAAGGACTCGCCCACCCTGCCCGAGTCTTCGGTCACTGACCTGGGCTATTACAGCGCTCCCCAACATGACTACTACTCGGGCCAGCCCTACGGCCAGACGGTGAACCCCTATACCTACCACCACCAGTTCAATCTCAATGGGCTCGCAGGCACCGGCGCTTACTCGCCCAAGTCGGAATATACCTACGGGGGATCCTACCGACAGTATGGAGCGTACCGGGAGCAGCCTTTGCCTGCCCAGGACCCAG
Seq A exon
GTGAGGAAACCGGGTTGTGGAGAGGGTGCGAGGGATTATAAGGTTCCCAAGCGAGAGGATGTCTGGCAATGGATGCTGAAACCTAGGGCACCTCAAGGTTAAGAAATGGAAGAGTTGAAGATTAGAGGAGACCCGGTTAGATGACTTCCAGAGGGGCGAACCACACTCGGAAGAGACTCGAACTGTGCGCTGCGGTCTCCTGGAGATTCCGGGGCAGCCGGGGCCATCGGGAGTGCTCTCTGGTTGATCAAGGGAACCTTCAGTGTCGCGATCCCTCTGGCATTAGAGCCGGTAACCCAAGAGGGTCGCCAAGGGCTTGAGCGGGGGCAGCGAGGGCTGGAGGTTCCAGGGCCCTTCTTCTGGACGCCCGTCCCGGGAAACCCGTAGTAGTGAAAGGCACGTGGAGAAAGACCCAAAGAAGTCCCAGAAGTGGAGGAAGGAAAGACTGAGAAGTAGAGATGTGGAGAGAGAAGTGGGGACAGTGAGAAAGAAATGGGGTGGGATGAGAAAAAGCACAGCAGAAAGCAACAGAGGAAAGGAAAAGGGAGAGAGGGAAGTAAGAAAAAGAAGAGAACGGAGGAAAGGAAGGAGAGGGAAGGAAAAGAAAACAGAGAGAAAGGAAAGAGACTGAGAAAACAATGGTACTGCCCTTGAAACAAATTAACCTGAACTAGGAAGTTTATTAAAAGGGGATGGGGAGTGGGGACCAGGAGTGGGAGACGCCACCGCGGTTAGGTGGGTCACTAAAGAAGAGTGGCTGAGCCGGGAAGGCGTCTGGAGCGAGCTGCGCGGTCCTCGCCCAGTCGGTTGCTGGCGCCGGGGCCGGCGCTTCGGGGGCCCCGGGTGCCGAGCTGGGAGCGCCGCGTCGTGGGCGGCCGCCGGTCCGGCTGGGTCGCTGCGGTTCCCTCCCTGGGCGCGGGCGGCACAACGCTCCTCCAAGAAGTCTCGGGGAGATCAGTGGGCCGGAGGGTGCGGCCTCGGTGGGAACTCATGGAAAACACGGGGGTCGCAGGCTGAGACTAAACTGGTGTTTTCCCCTTACAG
Seq C2 exon
TGTCGGTGAAAGAGGAGCCGGAAGCCGAGGTACGCATGGTGAACGGCAAGCCCAAGAAGGTCCGAAAGCCGCGAACGATCTACTCCAGCTATCAGCTGGCTGCCCTGCAGCGCCGTTTCCAGAAAGCCCAGTATCTGGCCTTGCCTGAGCGCGCCGAGCTAGCTGCACAGCTGGGCCTCACACAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004278:ENSRNOT00000005797:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF124133=DLL_N=WD(100=74.3)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=65.6)
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:
CGACATCTCCAGCTCGCTTAG
R:
TTTCGGACCTTCTTGGGCTTG
Band lengths:
351-1395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]