DreINT0177940 @ danRer10
Intron Retention
Gene
ENSDARG00000027109 | zfr
Description
zinc finger RNA binding protein [Source:ZFIN;Acc:ZDB-GENE-030131-378]
Coordinates
chr5:40536492-40537276:-
Coord C1 exon
chr5:40537038-40537276
Coord A exon
chr5:40536693-40537037
Coord C2 exon
chr5:40536492-40536692
Length
345 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TACCGGCATGTTTATTTCAGACC
3' ss Score
7.1
Exon sequences
Seq C1 exon
GAACATCATACTCGGGCTATGAAGCGGCAGTGTATTCGGCTGCCTCCTCTTACTATCAGCAGCAGCAACAGCAGCAAAAACAGGCAGCCGTTGCAGCAGCAGCCACTGCCGCATGGACCGGCAGTACATTTACCAAGAAAACTCCCTTCCAGAACAAAACTCTGAAACCTAAACAGCCCCCTAAACCACCGCAGATACATTATTGTGATGTTTGCAAGATCAGTTGTGCTGGACCCCAG
Seq A exon
GTATTTTATTTTATTAAAGTTATTACTTTTCATTTTTAAGTATTGGTGTCATGTGTAAATGGATGCACTGTACTAAAATATTGTCGGAATATGCTCCGTACAGTGTAGAAGGCCAAAATAATATGCAGCTACATTAAGTGTATATCCATAAGAACACAGGAGAATACTTGTCAATAACAGATGTACCATACCCAAATGTTATTTATAATATTCACTTTCATACTATGTAGAACCTAGTAGGACAACTACCTTGTACATGTATCACCTATTCTGCAGTATATGATTACTGGCTCAGTGATGCGAGTCAGGTGAACTTCAACTGTAATACCGGCATGTTTATTTCAG
Seq C2 exon
ACCTATAAAGAGCATCTCGAGGGTCAGAAGCACAAAAAGAAGGAAGCTGCACTGAAGGTGTCACAGAGCAGCAGTAGCAGCAGTGGAGGCGGGAGCTCTGCCCGTGGGACACAAAATCAGTTGCGCTGCGAGCTCTGCGATGTCTCCTGTACTGGGGCTGATGCCTACGCTGCGCACATCAGAGGAGCCAAACACCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027109:ENSDART00000074789:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.582
Domain overlap (PFAM):
C1:
PF128742=zf-met=PU(52.0=16.2)
A:
NA
C2:
PF128742=zf-met=PD(40.0=14.9),PF128742=zf-met=WD(100=37.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGCAACAGCAGCAAAAA
R:
ATCAGCCCCAGTACAGGAGAC
Band lengths:
342-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]