BtaINT0107380 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85119234-85120167:+
Coord C1 exon
chr10:85119234-85119371
Coord A exon
chr10:85119372-85120039
Coord C2 exon
chr10:85120040-85120167
Length
668 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
ACTGTGCTTGGCCTCCCCAGACA
3' ss Score
7.87
Exon sequences
Seq C1 exon
GGTGCGTCTGGACCGGAGCCAGCCTGGGGTGCTGGACGCCCAGCCGGGCCAGCGGGTCCGGCTGACCTGTCGTGCTGAGGGCTTCCCGCCCCCGACTATCGAGTGGCAGAGAGACGGGCAGCCTCTCTCCTCCCCCAG
Seq A exon
GTTTGTTCAGCTCCCCTCCCCTGTCCTGCCTCCGGCCCCGCCCCGTCTGGGCAGATGCCATCCCCTGGTCAGACCTGAGCGCGACCCCAGGGCCTCTTGAAGGACGGGGTTGCTGGGCGGAGGGCTCCTTGGGCAGACCACGCTGGGATCTCTGGGCCTTTCCAGAGTGTGGCTAGCGGACAATTGTAAGAAGCCAGCCAACAGGTGACGGCCTGTTGGGAGGAAGTGGAGGCAGACACCCTTCTGGCTGTAATCATAAGAGCTAACATATATGGGCCCTGTGCTGAGGCTTAATCTCTTTCACGTGACGTGCAGAAGAGCTAAAGTGGTGCTGTTTTATCCGCGTGTGACGCACAGAAGCTTAACACCACCCAGCTCCTAAGTGACTGAACTAGGACCGAGCCTAATAAACGAGTGTAGGAAAAAAAACCTCGAAACCCAAACCAGAATTATTTTGTATCCGAAAACTTGCAATGATTTGCTTGTTGCCAGGTTTTAAAGTCAGGCGTCCTTAAGTAAACGAGAGTGCCAGCAGCTGGAGGGTGGTCAGACCCCGCTGACTGGCAGGGCCCACTCAGCCTCTCACCAGGGGACGGGAGACCCTGACCCCTCTCCCACCCACTGGGAGCCTTGGGATGGCGCCACCTGACTGTGCTTGGCCTCCCCAG
Seq C2 exon
ACACCAGCTGCAGTCCGACGGCTCCCTGGTCATCAGCCGCGTGGCTGTGGAGGATGGAGGCTTCTACACGTGTGTCGCGTTCAACGGGCATGACCGGGACCAGCGCTGGGTCCAGCTCCGAGTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.957 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(49.4=87.2)
A:
NA
C2:
PF0767911=I-set=PD(49.4=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCTGGACCGGAGCCAG
R:
CACTCGGAGCTGGACCCA
Band lengths:
258-926
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development