RnoINT0072130 @ rn6
Intron Retention
Gene
ENSRNOG00000015212 | Hspa14
Description
heat shock protein family A, member 14 [Source:RGD Symbol;Acc:1303296]
Coordinates
chr17:78747384-78748912:+
Coord C1 exon
chr17:78747384-78747488
Coord A exon
chr17:78747489-78748750
Coord C2 exon
chr17:78748751-78748912
Length
1262 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TTTTTCTCTCTCTCTTGAAGCAA
3' ss Score
10.27
Exon sequences
Seq C1 exon
AGAGGCAGCTGGAGCCGCCGGGTTTAATGTGTTGCGACTAATACATGAGCCGTCTGCAGCTCTCCTGGCCTATGGAATTGGACAAGACTGCCCTACCGGGAAGAG
Seq A exon
GTAAACATCACATCTCTAGTTTTCAGGAGGACTCCAGCAGCCCGTCAGCGCCTAGGAAATTCTCCCCGTGCTGAGCAGCTGTGAAGATGGGAAAGCAGGGAAAGGAGAAGCTGACCGTTTCCTGTCACCTCATCTTGTCGTGGAGATTAGCTAATTGTAGAGTGGTCCTGTTTCCAGCTGATACCGGAGCACTGTTGATCTCGCTGCTGCTTCAGTTTTTAGACACGTTTAGAAACAGCTGGTGTAATTTAACAGCGTTGATGGCCACACATGTCAGAGAAATTAATTTTGATACAGTGTTAACCTTTCCAAATAGTTGGACCCTGTCCAAATTTCTCATGGTCAAAGAAACTAATGTGTATAAACCACTAGGAAATTATTTTGAGGTAAAGCGGATTAATGTAAAAATATTAGAAATTATGAGTTGTTATATATTTAAATATATGAAGTGGGGAGCTGGTTTCTACTGCCCTGTGTTGGATCCATAGGCTATGTTGTAGTAACTTGTAAAATATATACAGGATCGCTGTATTTAATTCCACTCAGATTCATAATGATCATGAACCCCTTGTTTGATTTACTTTGAAAACTTAGTGTTTTGAGGTCTAGTGGCTCAAATAGATTCTTCAGTTAACTAACTGAAAGGAGTTTTGATTTGGTTTGCGACGATCATGAGTTCAAAGCTCAGTCCAGCACATGACAGGAGACGAGTGGATGAGACTTTCCTCATTGTGACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGTGTCTGTGTGTGTGTCTGTGTGTGTCTGTGTGTGTCTGTGTGTCTGTGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATATGTGAGCTATCTGCATGTACACCTGCATGCCAGAAGAGGGCAGCAGATCACATTACAAGTGGTCGTGAGGGGTTGGGGATTTAGCTCAGAGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCTGGAAAAAAAAGAACCAAAAAAAAAAAACAAAAACAAAAAAAACAAAAAAACAAGTGGTCGTGAGCTACCCTGTGTGTGGTTGCTGGCAATTGAACCCTGGTCCTCCGGAAGGGTAGCCAGTGCTCTTACCTGCTGAGTCACCTCTCCAGCCCTCTCTCATAAATAGATTCAAAGAATGACTTCAAAAGTAGTCTGGCTTTAAAATCTTGTGATTCTCCGATTAGTTACCCTTTTTTTCTCTCTCTCTTGAAG
Seq C2 exon
CAATGTTTTGGTGTTTAAGCTGGGAGGAACATCCTTGTCGCTCAGTATCATGGAAGTGAACAGCGGGATGTATCGGGTTCTTTCCACAAACACCAGTGACAACATCGGGGGTGTGCATTTCACAGACAGCTTAGCTCAGTACCTGGCTTCGGAGTTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015212:ENSRNOT00000020854:7
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=0.000
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(6.9=100)
A:
NA
C2:
PF0001215=HSP70=FE(10.7=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:
GAGCCGCCGGGTTTAATGTG
R:
CTGGAACTCCGAAGCCAGGTA
Band lengths:
254-1516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]