BtaINT0107382 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85120274-85121306:+
Coord C1 exon
chr10:85120274-85120382
Coord A exon
chr10:85120383-85121139
Coord C2 exon
chr10:85121140-85121306
Length
757 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CAGCATCCTTTCCCCTCCAGGAA
3' ss Score
9.79
Exon sequences
Seq C1 exon
GGGAGCTGACTATCACAGGGCTGCCCTCCACAATGGAGGTGCCGGAAGGGGACACGGCCAGGCTGCTGTGTGTGGTGGCAGGAGAAAGCGTGAACATCCGATGGTCCAG
Seq A exon
GTGAGGCTCTGTCCCTGGCCCTCAGGCCCTCACCCTGAGCTCCACAGCCCAAACCAGGGCCGGGGGGCCCACCTTTGTGCAGAACGTTGCTGCCACCCGCACCCCTCCCCCTCACGTCTGCTCCCGGCTCCTGGCCTGGTGCCAGGGGAAGGGGCTACAGCGCCCGCCTCCCTTAATGGGGAAGCCCCACCAGGACCACTCTCTTCTCTGCTGGTCGGGCTACACACCAGAGCTTCTCAGGCTCGGCACTGTCGACGTTTTGGGCTGATGGTTTTAGTTGTCGGGGTGCATTGGGGGATGTTTAGCCGTGTCCAGCCTTGGGGTGCCTGTAGTACTCCCTCCCACGTCATGGCCACAGAAAGTCTCCAGGTGTTGCCAGATGTCCCCTGGGTGGCGGATGCTCTGCTAGGCTGAGAAACACTGGGCTCCACTCAGCTCTGGGGGCTTTGGGTGGTCTTTTACCCCAAGTCTGCTGGGCTTTTATTCATTCAGCAAACAGTTTGATGCCCCCTTCCTCCTTGCAGTATGTCAGGACGACGCTAGGCACTGGGGATCCTGGTGTAATCTGAGCCCCCCCAACACTCCAGGTGGGAAATAGCCCAGTATCCCCCAGGCTCGGAGGAGGTTTGCCCTGAGTGTGTCTGGGTCAGTGGGTGGCTCTGGAGGGAGCCTTAGACGGCCTCCTCCCCGGCCCTGGGAGAACCAGCTCAGCACCCGCCAGGGCCTGGAGGTTCTCCCAGCATCCTTTCCCCTCCAG
Seq C2 exon
GAACGGGCTGCCGGTGCGGGCCGACGGCCACCGTGTGCACCAGTCCCCGGACGGCACGCTGCTGATCCACAACCTGCGGGCCAGGGACGAGGGCTCCTACACGTGCAGCGCCTACCGTGGAAGCCAGGCCGTCAGCCGCAGCACTGAGGTGAAGGTGGTCCCACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.175
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(39.1=91.9)
A:
NA
C2:
PF0767911=I-set=PD(59.8=91.2)
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:
GGAGCTGACTATCACAGGGCT
R:
TGGGACCACCTTCACCTCAG
Band lengths:
271-1028
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development