DreINT0079301 @ danRer10
Intron Retention
Gene
ENSDARG00000058030 | hspa14
Description
heat shock protein 14 [Source:ZFIN;Acc:ZDB-GENE-041210-73]
Coordinates
chr4:9596118-9596975:+
Coord C1 exon
chr4:9596118-9596273
Coord A exon
chr4:9596274-9596872
Coord C2 exon
chr4:9596873-9596975
Length
599 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TATTTATGCTTGTGTTCTAGAGC
3' ss Score
8.57
Exon sequences
Seq C1 exon
GACTTTTAAGCAGGATGTGAGTGGTAACGCGCGGGCGATGATGAAGCTGATGAACAGCGCGGATGTGGCCAAACACACACTCTCAACGCTAGGCAGCGCAAACTGTTTCGTGGACTCGCTTTACGATGGCATGGACTTTGAGTGCAATGTTTCCAG
Seq A exon
GTGAGCCGAAGCTTCAGGTTTATCGGTATTGTAAGGGAGACTTGTTGCTCTTCTGTGTGTTATATATATACAGTTGAAGTCAAAATGATTAGCCTACGGTGAATTTTCTTCTTAAGATATTTTATAAATGTTTAACAGCAAAGAATTTTTAAAAGTATTTCCTAAAACATTTTTTCTTCCTTAAGAAAGTCTGATTTGTTTTATTTGGGGTAGAATAAAAGCAGTTTTGAATCTTTAAAAACATTTTTTTTTTACATTCTAAGGTCAATATTAGTCCTTTTAAGCAATATTTTTTTCAGATTGTATACAGAACAAATCATCGTTATACAATGACTTTCCTAGTAAACCTAATTACCCAGTTAAGCTTTTAAATGTCACTTTAAGCTGAAGACTAGCATCTTGAAAAATATCTAGTTAAATATTATTTACTGTCATCAAGGCAAAGATAAAATAAATCAGTTATTAGAAATGAGTTATTAAAACTATCATGTTTAGAAATGTGTTGAAAAAAATCTTCTTTCCATTAAAGGAGGGCTAATAATTTATGATAGTGAATAATTCAGACTTCAGCTGTATGTTTATTTATGCTTGTGTTCTAG
Seq C2 exon
AGCCCGTTTTGAGCTCATCTGCTCCAGCCTGTTTAATAAATGCATCCAGCCAATTAAAAGTCTCCTGGAGCAAGTCAACCTGTCCACCTCTGACGTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058030:ENSDART00000080829:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(10.4=100),PF0029717=Ribosomal_L3=PD(40.2=66.0)
A:
NA
C2:
PF0001215=HSP70=FE(6.8=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:
ACTTTTAAGCAGGATGTGAGTGGT
R:
TGTTGACGTCAGAGGTGGACA
Band lengths:
256-855
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]