DreINT0057761 @ danRer10
Intron Retention
Gene
ENSDARG00000014626 | dlx3b
Description
distal-less homeobox 3b [Source:ZFIN;Acc:ZDB-GENE-980526-280]
Coordinates
chr12:5673443-5674825:+
Coord C1 exon
chr12:5673443-5673924
Coord A exon
chr12:5673925-5674640
Coord C2 exon
chr12:5674641-5674825
Length
716 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTGTATTTTATTATTTCCAGTCA
3' ss Score
6.45
Exon sequences
Seq C1 exon
CTCTGCCATTACCTTCAGTGCTTCAACAGAGGGAGTGTGAGAAAGCAGTTCATCGAGGATTTTGTGTTACAGGCATCGTCCCAAACCCAACGTCTGCATGACTTGCTTCGGTCTGCCTTGGAAATAAAGTGGACGATCGTTGTTTTTTCCTTCCTTATTAAGGATGAGTGGACCGACATATGACAGGAAGATACCCGGTATTTCGACCGATCTTTCAGGCTCTATGAGTTGCCATCCGACTTCTAAGGACTCTCCGACTCTCCCAGAGTCATCGGCTACAGACATGGGTTATTACAGCAGCCATCACGAATACTACCAGAGCCCTCCATATCCTCAACAGATGAACTCATATCATCAGTTTAATCTGTCAGGGATGGGGGCAACACCCGGAGCGTATCCCACCAAGACAGAGTATCCTTACAATACTTATAGACAATACGGACATTACAACAGAGACCTGCAGACGCCACCACAAAGTGCAG
Seq A exon
GTGAGATACTTATAAAATTGCATTCGGATATATATGCACTAATACATTTATCTTTCTGCGCAATTTCAGCATTACTTTTTCCTCTAAATAAAAACTGCAATTGCCTTTGTGTCAGGCTCAAGTTAGGAACTAAAGTTTGCTTTCGTCTTGAGAAAAAATATTGTAAATTATTCATACTTATTTAACCTACTTCTTGGGTTGATTTTGTAACATTTAAATCTATATTGTCCAAATAAACTTACAATTTATAGGACTAGTAAAGTTTATTTGTTTCAGCAGGTTAGAAAGTTGTCTCTATCACAACAGACTTGCGGTCGCTATAAAACAATTATGACATTTTTATTGCATCTGTAACGCGATTAATCATTATTAATCGATGCTCGGTGTAGGCTAGATGTCACGATGTATTTCATTCTTAGGGTAGGCCTACAAAAAATTGCTACAAGATACAGCCGTTCTTTACCTTTTGGTCAAGTTTGTGGTTTTAATTCATACTTCCTGATGCTTTCTAGACTAGATATATCATTTTACTCTATGTTGATTATTTAGCTTTCAGGAAGCAGAATTATTTAGCTTTTTAAGACATTATTATTTATATAAATAAAGGTTATACGATGCCAAAATGAGGCTAGGCCATCCATTTTCTATTTTTATTTATTTATTTGTCTGTAAAATGTTACTGAAATATAACGTGCTCTGTATTTTATTATTTCCAG
Seq C2 exon
TCAAAGAGGAACCAGAGACTGAAGTGCGGATGGTAAACGGAAAACCCAAGAAAATTCGCAAGCCGCGCACCATTTACTCGAGTTACCAGCTCGCCGCGCTCCAGCGCCGCTTCCAGAAAGCGCAGTATCTGGCGCTGCCGGAGAGAGCTGAACTCGCCGCACAGCTGGGGCTCACACAGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014626:ENSDART00000017191:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.850 A=NA C2=0.323
Domain overlap (PFAM):
C1:
PF124133=DLL_N=WD(100=72.9)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=67.7)
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:
TCGACCGATCTTTCAGGCTCT
R:
CGGCTTGCGAATTTTCTTGGG
Band lengths:
345-1061
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]