DreINT0125615 @ danRer10
Intron Retention
Gene
ENSDARG00000062550 | rc3h1
Description
ring finger and CCCH-type domains 1 [Source:ZFIN;Acc:ZDB-GENE-050208-702]
Coordinates
chr22:15972726-15973198:+
Coord C1 exon
chr22:15972726-15972838
Coord A exon
chr22:15972839-15972916
Coord C2 exon
chr22:15972917-15973198
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
CTTCTCTTGTGTACCGACAGATA
3' ss Score
9.98
Exon sequences
Seq C1 exon
CCTCCTCAGCACAGCAAATACAAGACCTACATGTGCCGTGACATGAAGCAGAAGGGTGGCTGTCCCCGTGGAGCGAGCTGCACCTTTGCTCACTCTCAGGACGAGCTAGAAAA
Seq A exon
GTGAGCACCACATTAAACACATTCAGTACTGCAGAATCAGTGTTTGCATCAGCTTCACCTTCTCTTGTGTACCGACAG
Seq C2 exon
ATACCGTAAGATGAACAAGCGTGTGGGGATGCGCCGTCAGCTCAGTCAGTCTCTTACCCAGCTGAATGAGCTGGATCTGGGACTGTTATCTGACGACGGGCCGCCCATGGAGGGTCTGCCACGCAAATCCTCCTCTATCACCAACGGGATACTGGCAGCGGGACCTGGATCGGCTCTGGCTCATCTGGTTTCCCGAGGCTCGGACCCATCTTATGAGCCCACACACAAACCTACCAAGATGGATTCTGGGAGCCTTAGTGCACCTGGCTCACCTCCAGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062550:ENSDART00000144545:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.711 A=NA C2=0.937
Domain overlap (PFAM):
C1:
PF0064219=zf-CCCH=WD(100=71.1)
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:
GCTCACTCTCAGGACGAGCTA
R:
CCCGTTGGTGATAGAGGAGGA
Band lengths:
174-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]