DreINT0181259 @ danRer10
Intron Retention
Gene
ENSDARG00000077013 | znf280d
Description
zinc finger protein 280D [Source:ZFIN;Acc:ZDB-GENE-030131-2260]
Coordinates
chr7:52453954-52456163:+
Coord C1 exon
chr7:52453954-52454036
Coord A exon
chr7:52454037-52455936
Coord C2 exon
chr7:52455937-52456163
Length
1900 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
TTTTATTTTATTTTTTTAAGTTG
3' ss Score
7.34
Exon sequences
Seq C1 exon
GAGAGAAAAATTTAATAGGCACAAGGAAATGCCCCAGATGTCAGAATGTGTTTCCTTTGGAGCCTTTAAAGATTCATATGAAG
Seq A exon
GTGGGATGTTTAACGTAGATTGTTTTATGATTTATGTGGGGAGAAATGGACTCCTGTCTGAACCAAGTTAACCTGGTGCTGGACGATAAATAGGAAATTAATGAAAACTGAAATTCAGATATAACATATCATTTAACGTATTTTCCCCATGTTATTTTTACCATTTTAAATATTAACATGTATGTTTGTTGCACTTGCTGTTTTTTGCAAGGTCAATGGCTAATAAACTGTTCATCTCAGTCAGAGGTGTGTGAAATCTAAGGTGTAGACTAAAAGTGTAAAAGTTTCTGACGGTATGGTAAGCTTGAATAAAATATCACAAAATCCATTTAACAATGTATATTTTACCAAAATAAAACAAAATACATTTTATTTTTGGAAACATTTATAATATTTTGGAACAGTATACATGACAGAATTGACAGATATAGGTATAACAGAAAATTTTAGCAGTTTCAAAACCTTGACTTTTCCAAACCACGGTAAACCTTGAAACCGGTTATCATCCCCTGCCTAGAAGACTATATGTGCATCTTGAGGTAGACAGATCGAGCACTTTGTTTCATGGACAGAGGAGCAATCACATTCTTCCTGTTTATATCAGTAAATGCACAGTGTATTTGATGCTCTGTAAAATCATTCTCTGTGTTTCTCTCATACATGTCAATAGAGTCTTTTATAGCTCTGGTAATCGAAAAGCTGTATGTAAATCATGTTTTTTTGTCGCTGGTTTCTTATATATTGGGAAGGTCAAGAAGTTAGAGTTTAAAGTAAGAAGTAGAAGACTAGAAGTAGGACTAGATGTAATTTAAAGGCCAGCCCTTATGTATTGCCATCCGATGACCTCTAATGTGTCAAGCGTAACTAACTTTATTAATAATAAAAAAAATAGCAATGGATTAATTGATTGTTTCGTTAAGTTTTTATGTTTTCATATTGTATCACATATTAATGTATAGAGCAGTCTTTTTGTGAAGAGAAATAGTAAATGCATTAAAACAATTAAAGGTGAAAGTAAACATTTCTTTAAAAGAGATCTAAGTTGTTTGATCCATTTTAAATGCTGAATATTTTTGACATTTGAAATGTCAGCATTTATTTATTTTGTGTGCAAAAAAAAAGTTATTAAGATGTTAGCGTTTAAGAACCTTGCTTTGTACATTTAAACTGAAATTTAATGCTTCGTTCACAAGACATCTTTATTTTAGGAAATGTGTGCTTTGATTTCAGCTCAAGGTATTCAACCAGTAACCTTAAATAATTATTTTCTTTATTTCTTTTCTTTTATTAGTAAAACACTAAAACAATGTGCTCTTTGATTAGGAAAATAAATCCCACTTTTAAAAGTTGAGTATATCTATATGACAAATCTTTAATGAACTGCATAGCAAAAAAGTTAAAGTTCATAAACATTCAATTTAAATTGAAATAAAATAACTGTCAATAATGACAATGAAGGTAAAATGATCTAAAACATTGTCCAGCCCTACATGGTGAATTAAGGTGGTTTACTGGTGTTCGATTGCAAATTGTCTTGTTCAGTGTTTTAAAATAATTTGAATGGATTTAGACTTGTTTGCACCACTTTCCAGGCTCATACATGTAACACTTGAAATATGAGGTTTGCTTCCTGACGTCACACATTTTTAAGCTTCCAATGACTGATTAACTAGAAAAATTAAGAAGTGCAATAGGCAAGTAAAATATATTGACAGACACCCCTAATATAGTACTGAGACTAATGACACTTGTATTATATGAACGTTGGCATGTTTAATGTAGATTGTTTCATGAATAGTGTGGGGAGAAAAACACTCCTGAATGAAATTAAGTTAACCCGAGGTTATGGCTGCACAAATAGTATACAATAATGAAAACTTTTTTATTTTATTTTTTTAAG
Seq C2 exon
TTGTGCTGCCCTGAATTGTGGGACTCTGTGTTTCCCTCAACATCGAGGCCTGACAAGCAAATCATCACACCAAAAGTCGTTGAGTCCGATAAGGGCAAGCTCATCATGCTGGTTTCAGACTTCTACTATGGAAAAAGCGATGGGGATCCATCTCTGATGCCCAAAATCAAGTCCAACACTACCTTCAAGTGCAACAGCTGTTTAAAAATGCTCAAGAACAATATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077013:ENSDART00000110906:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.053
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGAGAAAAATTTAATAGGCACAAGGA
R:
TGTTCTTGAGCATTTTTAAACAGCTG
Band lengths:
302-2202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]