BtaINT0106806 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016849 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr13:74063117-74064339:+
Coord C1 exon
chr13:74063117-74063223
Coord A exon
chr13:74063224-74064245
Coord C2 exon
chr13:74064246-74064339
Length
1022 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TGTCCTCGTGCCATGTGCAGGTC
3' ss Score
10.05
Exon sequences
Seq C1 exon
CCAACATTGGTACCCAGACCACAGGACCCAGTATGACGGGATGCTCTACCCCTAGCAGGCCTCTCCTGACACACACATACTCCACGCCAGCACACCGCACTGACAGG
Seq A exon
GTGAGGCTGGCCCAGCTGCCCTCTTAGTTTGGGCTCCAGGGGTGCCTGGCTCAGAACCTCCTCTAAGGTGTTGCTGGTCTCTGGGCCTTGGTTTTCTTTCTTTTCTTGGCTTGTAAAGTTTCATTTATTAATGTGTACCATCAGAAGAGATATTCCGCCCTCCCCCCCCCCCCCCCCCGCATCCCACCCTTACTAACAGAAAGGGAAAAAAGGCTAGGATCACATTTTGTTTGTTCATCACAAGCTGCTTTGCCTGGGTTATTACCAGAATTAACTTGGGTTTCCTTAGTATTTACGTGGTGAGCAGCGAGAATGTGATCAGTCTGCAGAACGGAACTGAAAACATCTTCTGTAATTAAAAGACTGTGTGTTTATCTCCCTGCCCCCTAAAAAAGTCTCCAAGTCAGCATTTTCATATCCTGTCTAGAATTTCTGTGTATATACTTCAAAGTATTTCCTGCAGAATGAACAAAAGTAGGCTTTAGAGAGCAAAACTATTTTAAAGTTACCAAGATGTGAAAAGTGAAAGTTGAGTCTGACTCTTTGCAGTGACATGGACTATATTCCCCAGGGTCCTCTGTCCATGGAATTCTCCAGGCAAGAATACTGGAGTGGGTTTCCCTTTTCTCCTGGGGATCTTCCTGACCCACAGATCAAACCCAGGTCTCCCACATTGCAGTCAGATTCTTTACCGGGGAAAGCCCACCAAGAATGGGTCAGAAATCATGCTGGGGACGAAGCCATAAAGCTACCTGATTAAAAAGTGCCTGTCTGGCACCAGTGGTCAGTAGTACGTAGCTTCACTTGGCCACATGCATCGGTTCCTGGCACCACAGAACACATCTGTATTAGAACGTCACTTTGTCTTCTAGTCCACCGTGCCCGCCCCCTGCCCCCGATTGTCTGTATCTTGCCCCCTGCTCCCCCTCCTCCAGAGACTTCCTTGGAGGCCTGTGCTCACCCGCTGGGGGTAGCTTTGCCCACCTGTGTGGTTAAGGGATGTGTCCTCGTGCCATGTGCAG
Seq C2 exon
GTCCAGGAGCCCGCTGTGCACGTCCCCGGACAGGAGCCCCTGACCGCGTCCATGCTGGCTGCAGCACCGCTGCACGAGCAGAAGCAGATGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016849:ENSBTAT00000022412:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.719
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(27.8=62.5)
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:
CCAACATTGGTACCCAGACCA
R:
ATCATCTGCTTCTGCTCGTGC
Band lengths:
199-1221
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development