DreINT0162313 @ danRer10
Intron Retention
Gene
ENSDARG00000019293 | tfdp1a
Description
transcription factor Dp-1, a [Source:ZFIN;Acc:ZDB-GENE-040426-2883]
Coordinates
chr9:35153861-35155758:+
Coord C1 exon
chr9:35153861-35154012
Coord A exon
chr9:35154013-35155591
Coord C2 exon
chr9:35155592-35155758
Length
1579 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGA
5' ss Score
4.72
3' ss Seq
TTGCTTCCTTTTGTGGTTAGGTT
3' ss Score
8.53
Exon sequences
Seq C1 exon
CAAATTGCTTTTAAGAACCTTGTACAGAGAAACCGCCAGAGAGAACAACAGACAAAAAGGCCCCCACCTGCCAACTCAGTCATTCACCTGCCATTTATTATCGTCAACACCAGCAAGAAAACAGTCATTGACTGCAGCATTTCCAATGACAA
Seq A exon
GTATGACTTCAAGTCAAGCCATGTAGATTGTAGGTGGATAAGGGTGTGCGATATTGGGGAGAAAATATGTCTTGATGTTTGTTTGTTTTGTTTTTTTTTTGTCATAGTTTTTGGCCATGTATAAAGGAAAATTACTCTAAACCTTTCAGTAGGTGAATAATTGACTCACTTGTTCAGACGATTAGTTTAAAGCATGTATAGTTTTCAAGATTGCATGTTTTGCTACTCTATAGTTGGCGAAAAGATTGTATTTAATATGTCCAAATTCACATTACTCCACAAACTGATACTGATGACCTACTACTTGTGGGGAGATACTCAAGCATGGTTCTTAAGCTTTACCATACCAAGAATGGCAACATTTATGAATGGAAAAAAAACAGCACAAATGATGTTTCTAGTTCAAATTACATGATAAAATGTTCGTTTTTATGCTTTATTCATACCACATAAATTATTATTATTTAGAACATGCCTTTTTAGCATTCATAGTTACATTTCATATATAAAAAGCATATAAAAAACAACAATATTGTCATCGGAAATGTAACCCATTCATTGATGAAATTATTTATGTTAAAAGTTTTTTTTATATAGACTTGGGGGATCATTTGAATTTGATCACTTTCAGCCCAGATTCTTGCTGATTCCCAGTTTGAGATGAATTAACTTCAAGCTGTCATGCACTCAAATAAGCAGCATGACAGAAGTAAAACTTGTGCATAAAGTTTAGTGCAGTGTTACTGGTGCAGTTGCTGTATGCTGCATAGCTCAATGTAGATCAAAGGTTAATGGTTTGCTGGTACTGTTCACTAGCCAATGTTAATTTTTGCACATTTAAATTGTATTTAATGGGTTAGTTCACCCAAGAATAATTTTATTTAATGTTTTCATACCCTTTAATTTATTTTAAACCTTTATAAACTCCTTTATTCTGTTGAATATGAAGATATTCTGATGAATATGAAGATATTCTGAAGATCAGTGGTTACAGGATGTCCGCATTCCTTAAGATATCTTTGTGTCAATAGTTACAGGTTTACAACTTTTTTCAGAATATTTTTGGATGAACTATCTCTTTAAAGCTCATAATAGGTTTTGTGATACATAGAAGAAGAAATTGTCTTAATGTATATTAGAATCCATAGTCAAATGCTTATTTCATTTTTTTCTCTATTGCTTCCATACTAGTGATTAAATTAACATGTTAAGTCCTGACAGATCACAAAGTAAAAAAGTATTGTGCGTATATGAATCAATCAGCGAAGTCGAGTGCTATCCTTAAGTATTCTATTCCAGAATGTAAAGCAATTTTTGCTTCCCAACACAAGCAATATCACAGTTGTTTGGATTACAGGGCCATGCAAATTTTAATTCAGCATTTTTTCCGACTTTATGAAGACTTGTTTTTTTATATATATATTTTTTTCCAAGTTGGCAACTTTCTATATCATCAGCTCATGATTAAAACAATTATGATTGTAGATTATAAATATTGCACATTCTTATTTGTGGGATGAATTAAATCTCGAAGATCTTCACTTCATGCACTTCACTCATTGCTTCCTTTTGTGGTTAG
Seq C2 exon
GTTTGAGTACCTCTTCAACTTTGATAGCATGTTTGAGATTCACGATGACATTGAGGTATTGAAGCGCATGGGCATGGCTTGTGGTCTTGAGGTGGGCAAGTGCTCTGCTGAAGACCTGAAGACTGCTAGGAGCTTGGTGCCCAAAGCCCTGGAGCCTTATGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019293:ENSDART00000077800:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.275 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF087815=DP=FE(34.5=100)
A:
NA
C2:
PF087815=DP=FE(38.6=100)
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:
CAAATTGCTTTTAAGAACCTTGTACA
R:
CTGTGACATAAGGCTCCAGGG
Band lengths:
319-1898
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]