DreINT0079297 @ danRer10
Intron Retention
Gene
ENSDARG00000058030 | hspa14
Description
heat shock protein 14 [Source:ZFIN;Acc:ZDB-GENE-041210-73]
Coordinates
chr4:9592851-9593124:+
Coord C1 exon
chr4:9592851-9592956
Coord A exon
chr4:9592957-9593033
Coord C2 exon
chr4:9593034-9593124
Length
77 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
TCATTTCATGTTCCCTGCAGAAA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTTGTCAACAAGAGTGGCCTTCCCAGATATGAAATCGACACCGGAGAGACGACCAAATATGTGTCCCCTGAAGACGTCGCTAAATTGATCTTCCATAAAATGAAAG
Seq A exon
GTACCGTCTGAATCCTTTATTCCTTTTCATAGTTTGCCTGACGTGAGCCACTGATGATCATTTCATGTTCCCTGCAG
Seq C2 exon
AAACGGCCCAGTCAGCCTTGGGTTCGGACGTGAAAGATGCTGTCATAACTGTGCCTTTTGAGTTTGACGAGATGCAGAAGAATGCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058030:ENSDART00000080829:5
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:
PF0001215=HSP70=FE(7.0=100)
A:
NA
C2:
PF0001215=HSP70=FE(6.0=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:
ACAAGAGTGGCCTTCCCAGAT
R:
TCTCGTCAAACTCAAAAGGCACA
Band lengths:
171-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]