DreINT0081280 @ danRer10
Intron Retention
Gene
ENSDARG00000105177 | ilf3b
Description
interleukin enhancer binding factor 3b [Source:ZFIN;Acc:ZDB-GENE-030131-587]
Coordinates
chr3:13705783-13707384:+
Coord C1 exon
chr3:13705783-13705874
Coord A exon
chr3:13705875-13707288
Coord C2 exon
chr3:13707289-13707384
Length
1414 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
CCTCCTGCTTTTGTCTCTAGGCC
3' ss Score
11.69
Exon sequences
Seq C1 exon
AAACGCTATCAGTCATCGATCCTCCGGATGTACTGGACAGGCAGAAATGCCTGACTGCCTTGGCGTCCCTCCGCCACGCCAAGTGGTTCCAG
Seq A exon
GTTTGCATCTTGTCTTTATTTGTCTTCTAGTAGTTGAGTTTGTTTTCATTTTGTTTCTGTGTTAACCTTATTTCTTTATGCAGTCTTTTTTTCAGTTGTTTGTGTGGGTTCTTTTTCAGTGTGTCCGTGTAGATTTTATTTGTGGGGGTGTATTTGCCTCTAGTAGAATGTCATATTTCTTGCTGGACTGTTTTGAATTGCGTTTGCCAAGCACATCTTTTGTCAGTGTTGTCTGACATCTGCTTGGCTAAATTAACTTTTGTGCATTATCACATCAGTAAAGCTGGTTAACTTTAGGACGCATTACCTGCACATTTTTACAGTACAGTTTAATGCTTTACAACGACTTAATTTGAAATACAATGAGGTGCAATATTTCTGCAGCCAGCAGTGCTGTTTTTATTACATACTTGATTTTTCAGCGCTTTGTAGTTGTATAGTTATATCCAATGTTGCAAGTTCATCATCAGCCTTTGGGTTGTTATATTGATTGCCACAATTTATTTTTGAAAACTTTAGTGTAGAATTGAAATTCAGACTGAATTATGTTACTCTATTGAAACTGGTTTGTTTCAGAGAATTGCTGTTCATTTGAGAATATAAGAAAGCACATTAGACTAATATTAAGCTCCAAAAACGGGAATGATTTCAAACATTCTATATAAAAATATGAATATTTTGATCAAATAAGTGCAAGTGTGGCGATCGTAAGAAAACAAAGACAAAAGTTGGAAGAGGTTAAAATCATTTAAGGTTTTAGTTTTATTTTTTGCAGATGGATGTCATGCATTTTTTACCTCCAAAAAAAAACAACATAAAATTTAATTATTTAAAATTTGTTTTATTTGTCAAGATGTTGCCTTTACATCTTGTATAGAACCCATGCTATTAATTACATTATAAAATATTAATTTTTTGAGCGGCTTGCAAAATGTTCACTTTTATTGTCGTTGCTGGTTTCATTTTTATTTTTTCAAAGGAATATTGCACCTGTTCCGCCATCTTAATGCTTTCTTGCTTTCATTTGAGGCCCTGTAGATCTTTAAAAGTCCTTTTAAAGCTGCTTTTCTCATATTTTATCTAGATCTTTGTCATATTCTCGTATAAATCAACTGACATATTTAGTATAGCCACAAACACAAGCCACGTTATGTTCCTCTTCCCTAACCTAATGTTTTTAATCTGGTCTCCTAATGTCATTAATATAGTTCTCACTCGAGTAATATGCTTTTACATTTTTTTTTAAAGGCCTCTAAACCATTTGCCACTCTTTACATTGCTAATGCTTTTTGATGCACATTTCGTATCAGTAAATGTCACCCGTTATTTATTTGTTTACTGCTTTGGTGTTGTGCCACATTATGAATCCTTGAGCTAAACTGCTGGATTGTGTCCCTCCTGCTTTTGTCTCTAG
Seq C2 exon
GCCAGGGCTAACGGACTGCGCTCCTGTGTGATCGTCATCCGCATCCTAAGGGACCTCTGTGCTCGTGTGCCCACTTGGTCTCCTCTGAGAGGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000105177:ENSDART00000162317:6
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=0.086
Domain overlap (PFAM):
C1:
PF075289=DZF=PD(24.2=93.8)
A:
PF075289=DZF=PD(24.2=93.8)
C2:
PF075289=DZF=FE(12.4=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACGCTATCAGTCATCGATCCT
R:
TCTCAGAGGAGACCAAGTGGG
Band lengths:
182-1596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]