BtaINT0108057 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013314 | PBX3
Description
Bos taurus pre-B-cell leukemia homeobox 3 (PBX3), mRNA. [Source:RefSeq mRNA;Acc:NM_001046453]
Coordinates
chr11:96768341-96769319:+
Coord C1 exon
chr11:96768341-96768453
Coord A exon
chr11:96768454-96769229
Coord C2 exon
chr11:96769230-96769319
Length
776 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TTGTTTTGTCTCACTTCTAGGTG
3' ss Score
12.31
Exon sequences
Seq C1 exon
GTTCTTCTGGTTCTTTTAACCTCCCAAATTCTGGGGACATGTTCATGAACATGCAGAGTCTGAATGGGGATTCTTACCAAGGGTCCCAAGTCGGAGCCAATGTGCAATCACAG
Seq A exon
GTAGGAGAAATGCCCCAGCTGGGGCCTTTCTAGCAGGGTAGGGTTTGGGCTCAAAACTCCTTCCTCTCGCCCCACGGAAGTGGTCTGCACATCGTGCAGAGCCTGTGCTGGGTGCTTCCAGATGTGACCCATCTGCCCCACCATTTAATTGAATGAGAAGTCAAGTGAACAGTGACTTTGGATGATTCAAACTTGATACACTTTGTGAATGCATTCGGCTCTGGCTTGAGCTCATGGAGAGGGGTTGGGTGCATCTAACTTCTGTAACAAAATAGAACAGAAAAATCGTGTGTGCCAGTGTGTGTATGGTTCTAAAACATATTACTCTGTTTCATTTCTATACATTTTTTAAAGTCAGAATACAGAAACCTGAGTTCTTAAAGTATATTCCAGGTTCAGCTGTTTTTCTAATCCTCTTAATGGAAAGCAACTACTTGTTGTTATGCATATTTCGGGGGGGTGTGTGTGAGAGAGAGAGAGCCAGTATATATATTTATAAGTAGTTTTCACCCACAGCCACACACATTTGGTTGGTATAGATGAAAAGTTTGCATTGCCATGAAGCTGTTATTGTTTAGCTGGCATGAAAAACAGATGTATGAGTTTAAATATGCAAAGAATTGTTGAAATTCTGCCAGTCACATTTGATTGATAAATTTGTCTCTCATTCAAGATGCTAAACCCTCGTGGCACACATAATTCAAATTGTTTCCTTTTGTAAGTGATGATGTTTTAATAGTTTGGGGATGATGAATTTTGTTTTGTCTCACTTCTAG
Seq C2 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGATGGCCTTGGAGGAAATTCACTGTACAGTCCACATAATTTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013314:ENSBTAT00000017706:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.867
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTTCTTTTAACCTCCCAAATTCTGG
R:
AAATTATGTGGACTGTACAGTGAATT
Band lengths:
190-966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development