BtaALTA0021016-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000016849 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr13:74064246-74065903:+
Coord C1 exon
chr13:74064246-74064339
Coord A exon
NA
Coord C2 exon
chr13:74065773-74065903
Length
0 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TCAGAGGCTGTTCTATACAGGTG
3' ss Score
4.4
Exon sequences
Seq C1 exon
GTCCAGGAGCCCGCTGTGCACGTCCCCGGACAGGAGCCCCTGACCGCGTCCATGCTGGCTGCAGCACCGCTGCACGAGCAGAAGCAGATGATCG
Seq A exon
NA
Seq C2 exon
GTGAGCGTCTCTTCCCCCTTGTCTACAACGTCCACGCCCACTTGGCCGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCGGAGCTGCTGCTCATGCTGGAGTCCCCAGAGTCCCTCAACGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016849-14-15,14-14-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.719 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0065813=PABP=PU(27.8=62.5)
A:
NA
C2:
PF0065813=PABP=FE(59.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACGAGCAGAAGCAGATGAT
R:
GACTCCAGCATGAGCAGCAG
Band lengths:
132-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development