RnoINT0072129 @ rn6
Intron Retention
Gene
ENSRNOG00000015212 | Hspa14
Description
heat shock protein family A, member 14 [Source:RGD Symbol;Acc:1303296]
Coordinates
chr17:78746424-78747488:+
Coord C1 exon
chr17:78746424-78746514
Coord A exon
chr17:78746515-78747383
Coord C2 exon
chr17:78747384-78747488
Length
869 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
ATTGACCGCACTCTTCACAGAGA
3' ss Score
6.79
Exon sequences
Seq C1 exon
AAACAGCACATTCTGTCCTGGGCTCAGATGCAAACGATGTCGTTGTTACCGTCCCATTTGACTTCGGAGAAAAGCAGAAGTCTGCTCTGGG
Seq A exon
GTGAGTGTTAACCATCTTAACATAGTCAGTTAAAAGAGATACAGATTACACTCGGGAATAAAATGTAAAGTTGTCTCTGGAACAGCTCAGGGAGCACAGTATCTCACGGTAATGTCATTAGATGGTGCGTGCCCTCGCTGTTGTGATGGGAGCTGTTTTAACCACCAGGGTAAATGGTGTTTGTGCATCATTTTGCCTGTCTTATGTAGTTGAGGCTTCTGTGGGAAATACATAAAAATAATGAAAAAAAAAGTAATTGCTGAATGAGATGGTTACTGTAAAGAAACCAGAATAGCTGCTTCCTGGGTAAAGGGAAGTTTATTCAGAACCATTGGGGTTGTCCCTGGGAAAAGCAGAGGGAAGGAGGGGATTCCCAGGGCTTTAAGGGAAACGTGACTGGAGAGGGAGGGAACCGGTAAGCCAGGGTGGGGGGCTTTGAAGTGTGTGACAGATACTTGACTAGACACTGACAGCCTAGAAGCTGGCATAGACCTTGATGTGCTATTAGGCACCACAGGCGTGTGTCGGTGGAAGAACCAGGGGTCCCTCTTGCTAGAGATAAGGAGCCACTTCTTTCTAGCAGGTAGAAGGTGCCAGAGACTCAAACCCGGACCCCTCATGCTTGTGTGGCACCCTATAGCCCTAGAGAAAGCCCATAGGTTTTCTTTTTCTTATTCAGTATAAGCACAAACTATTGTCAAAAACCAGTGCATTTTAAAACAGAAAGCTCCGGCCCTTCCTTCCCATGGGCTCTGCTTTCCCACTGTGTCTTCTGGGGCATCACTTGCCAGAGCCTGAACCTTTCAGCCCAGCTGCGTGTAGGACTGAGGGTGTCGTGATACAAAATTCATTGACCGCACTCTTCACAG
Seq C2 exon
AGAGGCAGCTGGAGCCGCCGGGTTTAATGTGTTGCGACTAATACATGAGCCGTCTGCAGCTCTCCTGGCCTATGGAATTGGACAAGACTGCCCTACCGGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015212:ENSRNOT00000020854:6
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(5.9=100)
A:
NA
C2:
PF0001215=HSP70=FE(6.9=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:
AAACAGCACATTCTGTCCTGGG
R:
CCGGTAGGGCAGTCTTGTC
Band lengths:
190-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]