DreINT0079300 @ danRer10
Intron Retention
Gene
ENSDARG00000058030 | hspa14
Description
heat shock protein 14 [Source:ZFIN;Acc:ZDB-GENE-041210-73]
Coordinates
chr4:9595632-9596273:+
Coord C1 exon
chr4:9595632-9595793
Coord A exon
chr4:9595794-9596117
Coord C2 exon
chr4:9596118-9596273
Length
324 bp
Sequences
Splice sites
5' ss Seq
GAAGTCAGT
5' ss Score
1.02
3' ss Seq
GCGCCTCTTTCGCCTTGCAGGAC
3' ss Score
11.49
Exon sequences
Seq C1 exon
TCATGTTCTGGTGTATAAACTGGGAGGCACATCCCTCAGCGTCACCGTGCTGGAGGTGAACAGCGGAGTTTACCGTGTTCTCGCCACACAGACGGACCACCAGACTGGAGGAGAGAGCTTCACACAGGAGCTAGCTCAACACCTCGCCGCAGAGTTTAAGAA
Seq A exon
GTCAGTGTGTTATTAAATGTTGTAAATGTGTTATTGTTCATTTTAAATTTGTTAGTTTGTTCCTCATATTTGACAAACAAGTTTCCTTTGAAATGTGCTTTTTTATTCAATGTTTGACTCTACCGAAACACAAAGAGAGAGTGTTTCATAATGTAAAATGATTGTTTTGCTGTTTCTTATTGATATTTCTTGTATTGTTTTTGCATCATTTGCTCTTTAGTTGTGTTGTATTTTTGGTTTTGACTGGTTTAAAGCACTTTGGTTGTAGTAAGGTGCTGTATAAATAAAGGTTGTTTGATTGTGAGCGCCTCTTTCGCCTTGCAG
Seq C2 exon
GACTTTTAAGCAGGATGTGAGTGGTAACGCGCGGGCGATGATGAAGCTGATGAACAGCGCGGATGTGGCCAAACACACACTCTCAACGCTAGGCAGCGCAAACTGTTTCGTGGACTCGCTTTACGATGGCATGGACTTTGAGTGCAATGTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058030:ENSDART00000080829:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(10.8=100),PF0029717=Ribosomal_L3=PU(58.6=92.7)
A:
NA
C2:
PF0001215=HSP70=FE(10.4=100),PF0029717=Ribosomal_L3=PD(40.2=66.0)
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:
TCATGTTCTGGTGTATAAACTGGGA
R:
CTGGAAACATTGCACTCAAAGTCC
Band lengths:
318-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]