DreINT0179309 @ danRer10
Intron Retention
Gene
ENSDARG00000071233 | zgc:158254
Description
zgc:158254 [Source:ZFIN;Acc:ZDB-GENE-070112-2222]
Coordinates
chr23:6849935-6850301:+
Coord C1 exon
chr23:6849935-6850025
Coord A exon
chr23:6850026-6850195
Coord C2 exon
chr23:6850196-6850301
Length
170 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGTGTGTGTGTGTGTTTCAGGTC
3' ss Score
13.56
Exon sequences
Seq C1 exon
ATATCTGACGGTCTTGCTGTATCTGAACTCTGCGGATAGCGGAGGAGAAACCAGCTTCCCCGTCGCTGACAACCGGACTTATGAGGAGGAG
Seq A exon
GTGAGCCGTGCCCTGTTTCTGTGGCAACAGAGGGTGGTGAGCTCTGTTGCCGTAGCGACCAGGCAGGAACAGGAAGAGGGTCCTGAAATATGATGTCTATCTTGGGCATTTGATGTTGCTGCAGCTTCACCTGAAAACTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCAG
Seq C2 exon
GTCTTGGGCGATCTCTCCCAGCAATATTGTGATAAAGGCAATCTGAAGGTCAAACCCGTAGCCGGAACTGCTCTGCTGTGGTACAACCACCTCTCAGATGGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071233:ENSDART00000105179:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=FE(21.1=100)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(24.6=100)
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:
TCTGACGGTCTTGCTGTATCTGA
R:
CATTGCCATCTGAGAGGTGGT
Band lengths:
194-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]