RnoINT0072123 @ rn6
Intron Retention
Gene
ENSRNOG00000015212 | Hspa14
Description
heat shock protein family A, member 14 [Source:RGD Symbol;Acc:1303296]
Coordinates
chr17:78754017-78755561:+
Coord C1 exon
chr17:78754017-78754190
Coord A exon
chr17:78754191-78755490
Coord C2 exon
chr17:78755491-78755561
Length
1300 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TTTTGCTTTTACACAAACAGGTT
3' ss Score
8.7
Exon sequences
Seq C1 exon
GGAGTCGATGAATCAGGTGCCAACAGATTCACAGTGCTGTTCCCCTCTGGGACTCCTCTGCCAGCGCGAAGACAGCACACGCTACAAGCCCCTGGCAGTATATCTTCTGTTTGCCTTGAACTCTATGAGTCTGAGGGCAAGAACTCTGTTAAAGAGGAGACCAAGTTTGCACAG
Seq A exon
GTAAATATATAAACCTGGATATTACAACTTTGTCTCAGGCAAATATTTCTTCCACTTTTCCTCCTGAAGTTAATTCCGTTCCCATCTCCATTAATACAAATAATATGTACCCTGGGAACTCCTAAGACTAAGCTGCTTCTACTTACTCAACTTTCCAAAGTGAGAAGGGATCACTGGTCAGCGTTGTGAAACAAGAAGAATAAAACCATTTTGTGTTTGCTTCTCTGTGCTCTTGGCTCATCTTAGTGATTTGGCAACTAGCAGAAGAAGAAAAGATTTTTCTGTTTGGTAAATACCAGATGCCGTACGAGGTAATGTTCAAACAGAACCGCCTGCCTCAAGTTGCTCTCTGACCTTTACACACCCATCAAGGCCCATGCACATATGCACACAAAATAACCAAGATAAAATAGTTTTGTGAAAGAAAATTGCAGGCTGGGCAGTAGTGGGTAGTGTGCACCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCAGATCTCAGGAGATCTGAGGACAGCCAGGGCTACACGCAGAAACCCTGTCTTAGAAAAAGAAAAAGAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAACCGCAAGGCCCTGGGTTCGGTCCCCAGCTCTGAAAAAAAAAGAAAAGAAAAAAAAAAAAAAAGAAAAAGGAAATTTAGAAGGTATGTGGAAGGAGGGAGGAGAAGGTTTCTGTGCTCCCGTATGTTCACACCCTTGCCAAGTGAGTCACAGGAGAGCGACTTGTAAAATCATTAAACTTGATTCTGGCAGAGTCCAGGGCGCAAAGCCGAACTTCTAACTGGGTGTATTGGAACACCTATCTTTCAGAAACTAAGAAATGACAGACTTCCATAACACCTCTTGCTGACAAATGTCACCCAAAAATTCTGTATATTTCTTTTAAATGGATAGCATTCCAAGTATACACAGAAAGTATGCTTGAAGGGTAATCTGTGTTACTACGGGCAATGACTTACTTCCAAAAGTAGTCTGGGTTCTTTTGAGGACAATACTTCCTAACAACAATCATGTTAATCAGATATGACATAAAAGAGGGACAGATACAGTAATTGTCTTATATCTTTCTAAAGGAGATATAAGCCTCTTAACAAGGCTTAACTCCTTAATTTCTGAATTCTCTCTAAATGGTAAGATAGTTGAAAACTGTCCCACTTTAAAAGGTTTGTTTTGGTTAGAACTTTGATCCTTTACAATGAGAAAGTACTGAATTGCCTTTATTTTTTTGTTGTTTATCTGTTTTGCTTTTACACAAACAG
Seq C2 exon
GTTGTGCTCCAGGACTTAGATAAAAAAGAAAATGGATTACGTGATATATTAGCTGTCCTTACTATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015212:ENSRNOT00000020854:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(11.2=100)
A:
NA
C2:
PF0001215=HSP70=FE(4.5=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:
GGAGTCGATGAATCAGGTGCC
R:
TAGTAAGGACAGCTAATATATCACGT
Band lengths:
238-1538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]