BtaINT0073702 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016451 | HSPA14
Description
Bos taurus heat shock 70kDa protein 14 (HSPA14), mRNA. [Source:RefSeq mRNA;Acc:NM_001046388]
Coordinates
chr13:29792096-29793999:+
Coord C1 exon
chr13:29792096-29792257
Coord A exon
chr13:29792258-29793843
Coord C2 exon
chr13:29793844-29793999
Length
1586 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
AAACTGTATTTCTTGTTTAGATC
3' ss Score
7.71
Exon sequences
Seq C1 exon
CAACATTTTGGTGTTCAAACTTGGAGGAACATCCTTATCTATCAGTGTCATGGAAGTTAACAGTGGAATATACCGTGTTCTTTCAACAAACACTGATAATAACATTGGAGGTACCCACTTCACAGAAACCTTAGCACAGTACCTAGCCTCTGAGTTTCAGAG
Seq A exon
GTGAGTATTAATGGACTTGATACGTTTGGTGATAAACCTGAAATTTAGCTTCAGGTTTAATTTTTTTCACCGAATTTATTTGAAATTGTTCTTTCAAAGGAGGGCATGGTTTTTCCAGGGCACTGGATATTTTCATGTCTGAAATTATACAATCTATCCTGGCAAACAGGTGAAAGCAGAGACCCAGCTGCCTAGTGCAGTATACTTAGAGTTTTCACTCGGTGTAAGGGACCACCAGACACTGAACTGCATGAACTTGGATCTCAAGTTCAACTTCCTAATTCGTCAGTGGTTGCTTTTATGTTTGGGTGAAGGAGGGTAAAGGCAGTAAGGTTTCACTACCTTCTGAACAGTTTTTACAGGTGTAAAAGATTATGTTGTAGTTAGATTCCAATGAACCAGTCTTATGTGCTGTCTATTACCACAAGGAATATTTTAGTTTTGTTGCGGGATGTAATTATTCCATTCAAAATTCTAATCCTGTTTGGCACATCATGAGTCAAATGTATAAAGGTTATATTTGGGACATCACTGCTCTAAAAAGTAGTGTTTTCATCAGTTTGACTACACTGGGTTAAAAAAAAGTCCTGAAAAAGTGGTAATTTCTCATTTGTTCAATAAAGACCTATGATGCTTTTTGTTATAAAGGTGTTCCAACTCAAGCAAAGTGAAAGAAAGTGAAAGTCACTCAGTCGTGTTTGAGTCTTTGCGACTCCATGGATTATACAGTCCATGGAATTCTGCAGGCCTGAATACTGGAGTGGGTAGCCTTTCACTTCTCCAGGGGATCTTCCCAACCCAGGGATCGAACCCAGGTCTCCCGCATTGCAGGTGGATTCTTTACCAGCTGAACCGCAAGGGAAGCCCCTCCCACTCAAGGAAGGGCACTGTTAATTTTATTATGGGTTTTAAACCTGTTTAAAAGCAGAGCCATCAGTCACCACTTAGCAAGCAGTTTTAACAGTTAACTCACCTTGGAGGTAGAAGAACTGTAATTTTACATATTTTATAGGTTTCAAATTTCTTTGAAGAAGCACTTTTAGTTTTTTTTTTTTTTAATGCTGGACAGATAATTCTATGCCATTCAACAAGAATCATGCTATGGTTGTAAAGGGTGAAGTATGAGACTTGACCGAATTGCATGAATCTCCTTCAACGTCCTTTTGTCTCATCTGCAAAAAGATGATGGCTCCTCTACCTCTTCAGTGCAGTCCATAACTGTGGTTAAACAATCCAGCAATTCAGAGTCTTAAGGATATTGGTTATTCATTTTTCCTGAGACCCCTCTTCAAATTCTCTTTCTTTATATATTCTGAAAAAATAAAATCTGGTATTAATATTGATTCTTGAGCTTATTTATTTATTTTTTTACTGGCCATATGGCACAGCATCCAGGATCTTCCCGACCAGGGATGGAACCTGCACCCCCTGCAGTGGAAGCACAGAGTCTTAACTACTGGACACCAGGGAAGTCCCTGATTCATGAGCTTACAATTATCCTAATGGGGATTATCCAGATTTTAATTACAATAAATTCTAAATGACCTAGTAATTTTTAAACTTCAAAAACTGTATTTCTTGTTTAG
Seq C2 exon
ATCCTTCAGACATGATGTGAGAGGAAATGCCCGCGCCATGATGAAGCTGATGAACGGTGCTGACACTGCAAAACATTCTTTGTCAACCTTGGGAAGCGCCAATTGCTTCCTTGACTCATTGTATGAAGGTCAGGATTTTGACTGCAACGTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016451:ENSBTAT00000021872:8
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(10.7=100)
A:
NA
C2:
PF0001215=HSP70=FE(10.3=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:
CAACATTTTGGTGTTCAAACTTGGA
R:
CTGGACACGTTGCAGTCAAAA
Band lengths:
318-1904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development