DreINT0162306 @ danRer10
Intron Retention
Gene
ENSDARG00000019293 | tfdp1a
Description
transcription factor Dp-1, a [Source:ZFIN;Acc:ZDB-GENE-040426-2883]
Coordinates
chr9:35145799-35146024:+
Coord C1 exon
chr9:35145799-35145883
Coord A exon
chr9:35145884-35145957
Coord C2 exon
chr9:35145958-35146024
Length
74 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GGTTATCTCGTTCTCCGCAGGCT
3' ss Score
9.98
Exon sequences
Seq C1 exon
TGACGTTTTGTTGTGGAAATTTGGCTCAGGTTTTTAAGCTAGACCAAGCATCAATTCCTCAGCCCCAGGGATCATGGCCAAAGAT
Seq A exon
GTGAGTATTTTCTGTTGCTCTATTAGATGTCATCTACTAAGAATGATCATTGAGGGTTATCTCGTTCTCCGCAG
Seq C2 exon
GCTGGTCTGATTGAGGCCAATGGGGAGTTGAAGGTTTTCATTGATCAAAACTTGAGCCCTGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019293:ENSDART00000077800:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGTTTTGTTGTGGAAATTTGGC
R:
CTTTGCCAGGGCTCAAGTTTTG
Band lengths:
151-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]