BtaINT0107369 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85104873-85105741:+
Coord C1 exon
chr10:85104873-85105080
Coord A exon
chr10:85105081-85105558
Coord C2 exon
chr10:85105559-85105741
Length
478 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGACAGCCCGGTCCTCACAGTGC
3' ss Score
3.86
Exon sequences
Seq C1 exon
CTGGAAGACGGGGCCCTGGACGCTCTGCTCGGCCTCCTGTGGGGGCGGCTCCCAGTCCCGCTCCGTCTACTGTGTCTTGTCTGATGGGGCCAGTGCCCAGGAGGCTGCTGAGGATGCTGAGTGCGAGGGTCTGCCTGAGAAGCCCCCGGGCACGCGGGCCTGCAACCTGCAGCGCTGCGCAGGCTGGAGCGTGGAGCCCTGGAGCGAG
Seq A exon
GTGAGCCCGGCCCCTCTGGGACGGGGTGGTGGGCCTGGGTGGCCGCCGGCAACTCTGAAAGACTTGTCATCCTCAGGGGAAGTGGCTCCTGGGAGAGAAGGGACCTGCCAGGTGGTCCCGGAGGCTGTGGTGAAGGCTGGGGCTAGGAGCAGGGGCTTGGATCCCTGCTCCAGCGCTGTTCCTCCTTTTCGAGGGTCCAGGGCGGGTGGGAAAGGAGCCGGGCATGTTGTTTGGGGGCGAGGGAGGGGCTGGGGCTGCTGGTCACTGCTTCTGGACAGTTATGTGTATAGCAGTTGCAAATAAAGGAAAACACACTTCAGCCCGGTGTCCGCCACTGTTGTTCAGGCTGTGTGACCTCAGGAGGGTGACTCGGCCTCTCTGGGCCTGGGGCCATGGAGTGCTGTCTGCCCTCCATGCCAGGCTGGTGGGCCCCCAGCTGAGCGAGGACCAGCTCTCGCTGACAGCCCGGTCCTCACAG
Seq C2 exon
TGCTCTGTCAGCTGTGGTGCGGGGGTCCGGAGGCGGAGTGTCACCTGCCGGGGTGACGAGGGGTCTCGGCTCCACGCCACGGCCTGCTCCTTGGAGGACCGTCCGCCTCTCACTGAGCCCTGTGTGCATGACGACTGTCCCCCGCTCAGTGACCAGGCCTGGCACGTGGGCGCCTGGGGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=84.3),PF0009014=TSP_1=PU(13.0=10.0)
A:
NA
C2:
PF0009014=TSP_1=PD(83.3=73.8)
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:
GAAGACGGGGCCCTGGAC
R:
GACAGTCGTCATGCACACAGG
Band lengths:
344-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development