BtaINT0106803 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046358 | PABPC1
Description
Bos taurus poly(A) binding protein, cytoplasmic 1 (PABPC1), mRNA. [Source:RefSeq mRNA;Acc:NM_174568]
Coordinates
chr14:65829343-65830028:+
Coord C1 exon
chr14:65829343-65829433
Coord A exon
chr14:65829434-65829917
Coord C2 exon
chr14:65829918-65830028
Length
484 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGC
5' ss Score
6.08
3' ss Seq
GTTCATGTCTTTAAACGTAGCAT
3' ss Score
3.78
Exon sequences
Seq C1 exon
ACTCAGAACCGTGCTGCATACTATCCTCCTAGTCAAATTGCTCAACTAAGACCAAGTCCTCGCTGGACTGCTCAGGGTGCCAGACCTCATC
Seq A exon
GTAAGCTTTTTTTTTTTTTAAGTTGCAAAGTATTTGAACTAAAAAACATAAATGAGGCAAATTAGCTGTTATATCCGTATATATAACAGCTAATATATATATAACCGTATAATATCCAATGGTATATTAGCTGTTGCTTTCCGTAATTTATAGTTAACGGGTGTTCATTTTGGGCATCTTTAGCATTTTGTTCTTTTAAAAGAATCTTAAAATGCTAGTAATATGTATGCTGGTTTGATTCTTTTTGTTTTTCCTTTTTATCACAAGTTTGGGAATGCATCCAACTCCATTTCATATTTTTATGCTCTGATGAGAAATGGCATAAAAGTCTGAAGAAAATGGCAGATAGAAGCCTAAGCTTTTAAAAAAATACACTTATTTATATTTGGTCATTTTTAGTCTTTTGTGCAAATCTCAGCTCTGAAAAAGCAAGATGAACACTGAGTTTTTCCCAGTTAATGTGCGTTCATGTCTTTAAACGTAG
Seq C2 exon
CATTCCAAAATATGCCCGGTGCTATCCGCCCAGCCGCTCCTAGACCACCATTTAGTACTATGAGACCAGCTTCTTCACAGGTTCCACGAGTCATGTCGACACAGCGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046358:ENSBTAT00000064237:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.742 A=NA C2=1.000
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:
ACTCAGAACCGTGCTGCATAC
R:
CAACACGCTGTGTCGACATGA
Band lengths:
202-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development