DreINT0142748 @ danRer10
Intron Retention
Gene
ENSDARG00000004386 | si:dkey-153k10.9
Description
si:dkey-153k10.9 [Source:ZFIN;Acc:ZDB-GENE-030131-3893]
Coordinates
chr4:9681273-9681740:+
Coord C1 exon
chr4:9681273-9681410
Coord A exon
chr4:9681411-9681476
Coord C2 exon
chr4:9681477-9681740
Length
66 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CTGATAATGTTTTCTCCCAGGTG
3' ss Score
9.67
Exon sequences
Seq C1 exon
GATGTAAACAGGAAGAGCACAAACGTTGTGGAATCATGGGTAGGAAATATAGTCAGACGAGCGTACACCCACATCATGACTAAAAATGCTTCGGTTTCCTACACATGGGCTTTCCAACGTACCAACAAAGCCACTGAT
Seq A exon
GTAAGTATTAACCTGAATAAAAAATTTTAAGTACCTTCTTGTTGCACTGATAATGTTTTCTCCCAG
Seq C2 exon
GTGCGTCAGTATGTGAATGACATCGCAAAGATCTACTCGATCACGGTGACTAATGCGATGGATGGTTCAGCGTCTGGTTGCCATGCTTGTGCAATGATGAGTCAGCAGGACGGCTCTTCCTGCGTCCCCTGTCCTGCTGGACACTTCATCAACAAAGACACCAACCAGTGCCAGGAGTGCCCGCCAAACACATTCCTCTACGGGCATCACATTTACGGGCACGAGGCCTGTCAGCCATGTGGTCCTGGAAGCAAGAGCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004386:ENSDART00000004604:13
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:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=56.8),PF075629=NCD3G=WD(100=47.7),PF076998=GCC2_GCC3=PU(80.4=46.6)
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:
TAGTCAGACGAGCGTACACCC
R:
CAACCAGACGCTGAACCATCC
Band lengths:
169-235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]