DreINT0125606 @ danRer10
Intron Retention
Gene
ENSDARG00000062550 | rc3h1
Description
ring finger and CCCH-type domains 1 [Source:ZFIN;Acc:ZDB-GENE-050208-702]
Coordinates
chr22:15986686-15987182:+
Coord C1 exon
chr22:15986686-15986811
Coord A exon
chr22:15986812-15987090
Coord C2 exon
chr22:15987091-15987182
Length
279 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGT
5' ss Score
7.07
3' ss Seq
TTTTTTTTTTTCACCTTCAGGAG
3' ss Score
11.94
Exon sequences
Seq C1 exon
AACTCCAGCTCAGTGATGTCCCAAGCATCTCGGGTGGACTGGAGCTCTGGGAATTTGTCCAGCGAACAGCTGAGTTTCGAGCTGCACCAGGTGGAGAAAGAGATCAACAAGAGGTCACAGGAGATG
Seq A exon
GTTAGTGAGACACAGAATTTTTAGACCTCCTATTAATTATTCATAATTAATATATTATATTACCTGTGAATAATCCATGAGCCCATGGCCCTATTCCATTCCTATTCTATTTCCAGTACATTTTTTGGCAAGGTCATCGATTCAAAAAGCAGTTTAATTTGGTATAATTTTAGGGACTTATCTTATGTTACTTGTTTGCTTAAAATAAGTATAATAAATGTTAAAATGATGGCAATTTGCATCATTGCGCTTAAGTTTTTTTTTTTTTTTCACCTTCAG
Seq C2 exon
GAGAACCATGATGGCAAATACAAGCGCATCTCAGTTGAAAATGGACCAGATGAACATCTTCTGCAGAGAGATGAGCATCAACTGAGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062550:ENSDART00000144545:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=1.000
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:
TCCAGCTCAGTGATGTCCCAA
R:
CTCAGACTCAGTTGATGCTCA
Band lengths:
215-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]