DreINT0079299 @ danRer10
Intron Retention
Gene
ENSDARG00000058030 | hspa14
Description
heat shock protein 14 [Source:ZFIN;Acc:ZDB-GENE-041210-73]
Coordinates
chr4:9594183-9595793:+
Coord C1 exon
chr4:9594183-9594287
Coord A exon
chr4:9594288-9595631
Coord C2 exon
chr4:9595632-9595793
Length
1344 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TTTTACATCTTCCATCACAGTCA
3' ss Score
7.72
Exon sequences
Seq C1 exon
GCAAGCTGCAGAAAGTGCCGGCTTCAATGTGTTACGGCTGATTCACGAACCCTCCGCTGCTCTTCTAGCTTACGACATCGGCCAGGACTCACCGCTGGGGAAAAG
Seq A exon
GTAGAGTTTTTGTAATCTCTTGGATGAACTGTTTTTTTTTTTCGTCTTGATTAATTAAAAAAAAACTTTTAACATGTATTAACAAAAACTAAATAAAACTTGAAGAATTATATAAAAGTATATAAAGAAATGCATGTACATACAATATAAAGCAGGGGTCAACAAACTTGTTCCTAAAGGTCTGGTGTTCTGTAGATTTTAGCTGCAACCCTAATCAAACACACCTAACCAAGCTAATCAGGGACTTGGGTATACTTGAAACACCCAGGCAGGTGTGTTGAGACAAGTTGGAGCTAAAACCAGCAGGGACACCGGCCCTCCAGGACCAAGATTGGTGACTCCTGATATAAAGGAATCAAATCACTGGTAAATTAATAGCAGGTGATACAAGTAGGCTTGTCATGATATCTGTTTTTTGTTGTACGGTATTGACCTTATTTTAAAATGCGGAAGTGCGCCTGTTTTCGCGATTGTCTTAGAACTTCCATTTCAGTCGCCTATGGGAGAAATGACAAGGAATAATAAACAGAAAACGGTCAAACTACTTGCTCTACAAACAAATGTTTGCATGACTATAAAGACCAAGTAAAATAACATAACAAGGAAATATCAGTTTGCAACATCAAACAGCGAAACGAGCAGTTTTTAATGTCTAAAAATGAATGGAAGTGAATGAGACCGGAAGTCTCGTGCCAAAAAGATTCAAATGGCAGCGCCCCCTCGTCTGCGGAGAATAAGGTCAATACTGCACCAAAATATATTATGATAAACAAAATTATTGTCATTTTAAGACCATTTATAATATATAAAATGCCAGAATGACAATATAATAGCATCGTAATATAAGTACAATCTTCAGAGGAACCACATAAGAGTAAAGAGTATTTCATTTAATCATAGTCATTTAATAATGAGGCACTGGAATTACAATGTAAAGACGCATATCTTAAATAAATAATAATAAATGTTAACAAAAAAGTGTGATTCAAAATGTAACAGAGGCTGCGATATCTGCTACCAGATCTATTTTCAGCCGTAAGACACCCACATAAAAATATACTCTAGTATTATAGTGAATACTCGTGTTTTTTTTAAAACAATTCTGACACATCCAATAGAGATAGAGATGTTGCACATTCAGCCAAAATGTTGCTAGAATTGGTTTTTATGTGTGGGCGATATATATATTTCAAAAATGATTTGTCATGTCCATGTGTTGTGCGGTAAGTCGATATATGGATTATTTTAACAGGCCTAAATACAAGTTATATGGACAAAAGATTGGTAATGAGCTGTGCTTTAGCTCCTCCGAATCCTCATGCTCTTTTACATCTTCCATCACAG
Seq C2 exon
TCATGTTCTGGTGTATAAACTGGGAGGCACATCCCTCAGCGTCACCGTGCTGGAGGTGAACAGCGGAGTTTACCGTGTTCTCGCCACACAGACGGACCACCAGACTGGAGGAGAGAGCTTCACACAGGAGCTAGCTCAACACCTCGCCGCAGAGTTTAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058030:ENSDART00000080829:7
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=0.036
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(7.0=100)
A:
NA
C2:
PF0001215=HSP70=FE(10.8=100),PF0029717=Ribosomal_L3=PU(58.6=92.7)
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:
AGAAAGTGCCGGCTTCAATGT
R:
TTCTTAAACTCTGCGGCGAGG
Band lengths:
258-1602
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]