DreINT0162304 @ danRer10
Intron Retention
Gene
ENSDARG00000019293 | tfdp1a
Description
transcription factor Dp-1, a [Source:ZFIN;Acc:ZDB-GENE-040426-2883]
Coordinates
chr9:35155592-35155943:+
Coord C1 exon
chr9:35155592-35155758
Coord A exon
chr9:35155759-35155861
Coord C2 exon
chr9:35155862-35155943
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ATGGTGACTTCTACATGCAGAAA
3' ss Score
6.03
Exon sequences
Seq C1 exon
GTTTGAGTACCTCTTCAACTTTGATAGCATGTTTGAGATTCACGATGACATTGAGGTATTGAAGCGCATGGGCATGGCTTGTGGTCTTGAGGTGGGCAAGTGCTCTGCTGAAGACCTGAAGACTGCTAGGAGCTTGGTGCCCAAAGCCCTGGAGCCTTATGTCACAG
Seq A exon
GTGAGAGCCACTGGTCACCACATCAGTTGATACTATATCTGATACAAAAGTTTAGTTTCAGCAGAAATCAAATGTTTCAATTGATGGTGACTTCTACATGCAG
Seq C2 exon
AAATGGCACAGGGACCTATCAGTAATGTCTACATGACGGGGGCTTCATCTGCAAATGGAGGTGGCCGCTATCATGTAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019293:ENSDART00000077800:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.393
Domain overlap (PFAM):
C1:
PF087815=DP=FE(38.6=100)
A:
NA
C2:
PF087815=DP=PD(5.5=28.6)
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:
TGAGTACCTCTTCAACTTTGATAGCA
R:
CCTCCTACATGATAGCGGCCA
Band lengths:
246-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]