DreINT0177939 @ danRer10
Intron Retention
Gene
ENSDARG00000027109 | zfr
Description
zinc finger RNA binding protein [Source:ZFIN;Acc:ZDB-GENE-030131-378]
Coordinates
chr5:40537038-40537830:-
Coord C1 exon
chr5:40537606-40537830
Coord A exon
chr5:40537277-40537605
Coord C2 exon
chr5:40537038-40537276
Length
329 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
GCTCTTCTCTCTATGCTCAGGAA
3' ss Score
8.24
Exon sequences
Seq C1 exon
CACCTAAAACCGGATACAGCCAAGGCGCCACTCCGTACACCCAGACCCAGCAAACGCGTCAGGTTACAGTCGTAAAGCCAGCCACCCCCAGCCCTGCCACCTCAACCTTCTCCATTTACCCAGTGTCCTCTGCAGTACAGCCGGTCGCAGCTGCAGCGGCAGCCTCTGTAGTGCCCTCTTACTCTCAGAGTCCCACCTACAGCACCAATGCAGTCACGTACTCCG
Seq A exon
GTAAGAACATCAAAGTTGTATTATAAAACATCAGTTTCAGTTCCCATAAGTCATCAACAGCATTTATCTGATGCAATACTTTATTTAGAGTTGAAGTGAAACGTCTTTCCGTTATATCATGCTTTGTTATTGAGTGTAGAATTCATTAACATGGCTTTTTTGTTCTTGGTTTCTTTGAGTTTAATACAGAATCAAATCCATGAGGTTGGGATTAAAAGTTTAATACTGCACCAATTGAGCCAGTGAATCTAGGCTTATAGATTTACAGTACAATCCTGTCAGTCTCCATCTGTCCTAAAGCCAATAATTGCTCTTCTCTCTATGCTCAG
Seq C2 exon
GAACATCATACTCGGGCTATGAAGCGGCAGTGTATTCGGCTGCCTCCTCTTACTATCAGCAGCAGCAACAGCAGCAAAAACAGGCAGCCGTTGCAGCAGCAGCCACTGCCGCATGGACCGGCAGTACATTTACCAAGAAAACTCCCTTCCAGAACAAAACTCTGAAACCTAAACAGCCCCCTAAACCACCGCAGATACATTATTGTGATGTTTGCAAGATCAGTTGTGCTGGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027109:ENSDART00000074789:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.289 A=NA C2=0.150
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF128742=zf-met=PU(52.0=16.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACCGGATACAGCCAAGGC
R:
AAATGTACTGCCGGTCCATGC
Band lengths:
351-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]