DreINT0179672 @ danRer10
Intron Retention
Gene
ENSDARG00000055370 | zgc:163121
Description
zgc:163121 [Source:ZFIN;Acc:ZDB-GENE-070424-80]
Coordinates
chr2:28236745-28237091:-
Coord C1 exon
chr2:28236979-28237091
Coord A exon
chr2:28236861-28236978
Coord C2 exon
chr2:28236745-28236860
Length
118 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACA
5' ss Score
4.6
3' ss Seq
ACTAATGGCTTCCTCCGCAGGAG
3' ss Score
8.43
Exon sequences
Seq C1 exon
GTTTACTTATGAAATATCCCCAGTCTTCATCCTAATGGAGGAGGTAGTTCTCAGAAAAATGCACACAATTATTGGATGGCCAGAGGAAGATGGAGATGGCATCTTTTGTCCTG
Seq A exon
GTAACAAGCTGAAAGCTCAAAAATACAGGAAGCATTATTATTTGTGTTTTGAAAAATGAACATTGGAACATTTCCATCATTAGTTTTTTCATTAACAAACTAATGGCTTCCTCCGCAG
Seq C2 exon
GAGGCTCCATGTCCAATCTCTACAGTGTGTTGTTGGCTAGGTTTCATCTCTTTCCGGCAGTGAAGACCCACGGGATGTGTGCGATCCCTCGCCTAGCGATGTTCACCTCCGCGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055370:ENSDART00000077720:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=PU(12.4=97.4)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTTATGAAATATCCCCAGTCTTCA
R:
GTGCGCGGAGGTGAACATC
Band lengths:
226-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]