BtaINT0107368 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85097754-85098883:+
Coord C1 exon
chr10:85097754-85097908
Coord A exon
chr10:85097909-85098822
Coord C2 exon
chr10:85098823-85098883
Length
914 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
CCAGTGCTCTCACCCTGCAGGAG
3' ss Score
9.8
Exon sequences
Seq C1 exon
CAAGCGCTGACTCCCACTGCTGAGCGTGTCCTCCTCCAGGCTCCCCAGGTGAGGCAGCAGAGTGACACCTGGGGCTCCTGGGGTAACTGGAGCCCCTGCAGCCGGACCTGTGGAGGGGGCGTCAGCTTCCGGGAGCGTCCCTGCTACACCCAGAG
Seq A exon
GTAGGAAGGCGGGGATGGGCCAGCTTGTTAAGAGAGAGCAGGCGCGGGGGAGCGGCTGGGTGTCCTGGGCCAGTGCCAGGGCCACAAGGGCAAAACCTACCACACGACAGATTTGTTCTGGGAGCAGCATCAGTGGAGAACTTGAAATTGAGTCATTTCTGCATACTGACACTCTGATTGCAACGACAGCCTTATTTCAGGGAGCTGGTGCCATTCCTGCTTCATCCACCCCTGAGTCCCTAGCTTCTCCAGCAGTGCCGGCAGGTGTAATGAATTCTTGTTGAATTAACGAATAATCCTCAAAAATTCCTAATGTGTGCGGTTTCTCTGCTGTCAGCCCCTTCTTCAAGTATAGATGTTTCTCACTCTAAGTGACTTATTAAGCTGCTGCTGCGTGCCCTGCACTCTGACGAGTACCATAGGGCGCAAAAGAAGGGGTGGTGATGCTGTGCCTATCGGGGGTTTAACGGTTCCTGAAAACTTTGCCTGAAGAGGCAGAGAGAAGATACTATTCTAAGTGTCTTACCCACATTTACTCCTCTTAAATGGCAGAATAACTTTACCAAGTGGGTATATATTGCATCTCCAAGGACAGAATTTGAGTCTTCTCTGGGAATATGCTTTAAGAGGTAGAGTGGCCCCTAGTTAGCCAAGCTCTAGGCTAGTTAGCCTTCTGGGTCGGGCTTCTCCCAGGTCTGAACACAGGGCTCACTATACCTGCCTAAGGGGATTTGGGAGCCCCCTCCTCTCCTGCCACCCCTCTGGCCCAGCAGTGCTCACCGGGTAGCTCCACCGCAGCTGGGGGTCGGCGCGGGGGGCGGGGGGGGGGGGGGGAGCCCTGTGGGAGAGACCCAGGAGGGGGCGAGGTGCTGGGTCCTGGGGGTTTGGCTCTTTCCAGTGCTCTCACCCTGCAG
Seq C2 exon
GAGAGATGGGGGCTCCAGCTGCGTGGGTCCCACCCGGAGCCACCGCTCTTGCCGCACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PU(54.0=51.9)
A:
NA
C2:
PF0009014=TSP_1=FE(40.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCGCTGACTCCCACTG
R:
GGACCCACGCAGCTGGAG
Band lengths:
185-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development