MmuINT0079339 @ mm10
Intron Retention
Gene
ENSMUSG00000109865 | Hspa14
Description
heat shock protein 14 [Source:MGI Symbol;Acc:MGI:1354164]
Coordinates
chr2:3498022-3499311:-
Coord C1 exon
chr2:3499207-3499311
Coord A exon
chr2:3498184-3499206
Coord C2 exon
chr2:3498022-3498183
Length
1023 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
CATTTTTTTCTCTCTTGAAGCAA
3' ss Score
8.84
Exon sequences
Seq C1 exon
GGAGGCGGCTGGAGCTGCTGGATTTAACGTGCTGCGGCTGATCCATGAGCCGTCTGCAGCTCTCCTTGCTTATGGGATTGGACAAGACCACCCTACCGGGAAGAG
Seq A exon
GTAAACCCCAGATCTCCGGCTTTCAGTAGGACTCTGGCAGCCCAGCCACGTGGTGCCAACCTTCACACAGGAAATTCTCGCCTCCCGTCATGCTGAGCAGCGGAGATGGGAAAGCAGGGAAGGAGAGGCTGAGTGTCTCCTGTCATCTCATTTCGTTGTGGAGATTGGCTAATTGTGGAGTACTCCCACCATTGATTTCACTCCCAGTGTTTAGACATGTTGTTTAGAGACAGCTGGTGTTACGTTAACAGAGTTGATGACCACACGTTAGAGAAATTCATTTAGATACAGTGTTAACCTTTCCAAATAGTTAGACCCTGTCCAAATATCTCATGGTCAAAGAAACTAATGTGTATAAATCACTAGGAAATTATTTTGAGGTAAACAGATTAATGTAAAAATATTAGAAATTATGAGTCCTGATATATATTTAAATACATGATGGGGGAGCTGGTTTCTACTGTCCTGGGTTGGATCCATAAGCTATGTTGTATTAACTTATAAAATATTTACAGGATAGCTGTATTTAATTCCTTTCAGATTTATAATAATCATGAAATCCTTGTTTGATTTACTTTGAAAACTTAGTGTTTTCAAACCTAGTCACTCAGAAAAATAGATTCTCCAGTTAACTGACTGAAAGGAGCTTTCATTTAGTTTCAGAAGATTGTAAGTTCAAGGCTTGGTCCAGCACGGGTGACTGGAGACAAGCCGATGACTCATCTGGGCTGTAGACTTTCTTCATTATCATTTAATTTATTTTTTCATGTATATGAGCACTTTTTCTGCATGTACACCTGCATGCCTGAAGATAGCATCTGATCCCATTACAGATAGTTGTGAGCCACACTGCGGTTGCTGGGAATTGAACCCTGGTCCTCTGGAAAAGCAGCCAGTGCTCTTACCTGCTGAGCCACCTCTCCAGCCCTCATAAACAATTCAAACGAATGGCTTCAAAAGTACAGTCTGGCTTTAAGATGATGTGATTCTCAGATGCTTTACCCATTTTTTTCTCTCTTGAAG
Seq C2 exon
CAATGTTTTGGTGTTTAAGCTTGGAGGAACGTCCTTATCGCTCAGTGTCATGGAAGTTAACAGTGGGATGTATCGGGTCCTTTCCACAAACACCAGTGACAACATAGGGGGCGCACATTTCACAGACACCTTAGCACAGTACCTGGCTTCGGAGTTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109865:ENSMUST00000027961:7
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCTGGAGCTGCTGGATTTA
R:
CTCTGGAACTCCGAAGCCAGG
Band lengths:
262-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types