DreINT0079295 @ danRer10
Intron Retention
Gene
ENSDARG00000058030 | hspa14
Description
heat shock protein 14 [Source:ZFIN;Acc:ZDB-GENE-041210-73]
Coordinates
chr4:9592387-9592694:+
Coord C1 exon
chr4:9592387-9592469
Coord A exon
chr4:9592470-9592645
Coord C2 exon
chr4:9592646-9592694
Length
176 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
CAACGGCTTTTACTTGACAGCTA
3' ss Score
6.13
Exon sequences
Seq C1 exon
ATAGTGGGAATCGCTGCAAAGCAGGGCAGAATACGAAATGCTGCCAACACCGTTGTTAAAGTGAAGCAGATCCTGGGTAGACG
Seq A exon
GTAGGTGCATGTTTATGCTTGCTCCATAAAAACAATTGAGGATATTTTCATATTCACCAAAGCATGCAATAGTTGAGCTGTTTCATAATATGTTCTAGATAAATCACTGCATTACATAGTTAGAATCTAATTAATAGCAATTGATATATTATAAAACAACGGCTTTTACTTGACAG
Seq C2 exon
CTATGATGACCCAGATGCACAAGCACACAAAGAGGAAAGCAAATGCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058030:ENSDART00000080829:3
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=0.176
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(5.4=100)
A:
NA
C2:
PF0001215=HSP70=FE(3.2=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:
TAGTGGGAATCGCTGCAAAGC
R:
ATGCATTTGCTTTCCTCTTTGTGT
Band lengths:
130-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]