BtaINT0107390 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85103775-85105080:+
Coord C1 exon
chr10:85103775-85103901
Coord A exon
chr10:85103902-85104872
Coord C2 exon
chr10:85104873-85105080
Length
971 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
GCGCTCCTGCTCCCCACCAGCTG
3' ss Score
6.3
Exon sequences
Seq C1 exon
GTCAGCAGACTCGCCGGGTGTTCTGCACCATGGATAACGAGGTCTACCCTGAGCACCTGTGCCAGCCCCAGTCGCGGCCAGCTGACCGCCGCCCCTGCAGCCTGCAGCCCTGCCCACACACCAAGCG
Seq A exon
GTGAGGCCCTGCCCGCCCCTCTGCCCAGGCAGGGCCCAAGCTCTTCGGTGGGAAGGGGGTGGAGGCCCTGAGCTGCTTTAGGTGTTGGGAAAAGCAGGAGGCTGGGGGGCTCCTGATAGCTGCAGCTGGGTGGGGAGGAGGCAGTGGGGGGCCTGAGTGTGAGACCCTGAGTGGTTCTGTCCACCCTTGTGAGCCCACACAGTGCCCAGAATGTCCAGGCTAATGGCGGGGGGGTGGACGGTGGTGTGGGTACCAGAGGCCCCATTGGTGTGAGCTGGCAGGAAATTGGCGGATGCCAAGGAGTGGACCAGGGCTTGGGCCCAGGGGCCTGAGGGCATTGGCGATGCCTTTGTTTGTGCACCAAGGACCTCTTACCTGCACCGGCCCAGAGCGTGGCACCTTGCTGGGGCCCAGCGTGTGTGCAGGAGCAGGTAATCCTCGGGCCGCTGGCTCCCTGCAGGGCTGTGCCGTCTTCCACCCGGTGGCCTTGGTGGCAGGCAGCTGGTCTCTTGGGATGGTGGTAGGCTTGGCTTTGCATATGCGATGGGGATGGTCCTATCGTCCAGGTCCTGGGGCCCAGGGCTGGGAAGGGCCGCTGCACATATGGGTGAGCATGTCCCCTCAGGGAGATGCCCCCCTCCACTAAGGTCAGACCTGGAGGGAGTGGAGTCTGGCTGGGGTGATGGTGACCTGGTGAGAAGGAGAAAGGGGTCCATGTGAGGACAGGAGCCCTGGGAGGGAGGCAGCCAGGCTCCGTGTTTATAGGGACCCGGGCACAGTGGTGGGAATGGTGAGCAGGGCTGGACCTAGGCCTTTGGGCAGGGTTCTCTGCCCCTCACCTGGACAGCCCGATGCTCGGAGGATGGGCTGGGGAGGGGGGTCCCCACTCCGCTCCTGGGTGCCGCCCCCCTGGGCCTGGACCTCAGACCCAGCTGCAGGGCCCACCTCAGTGCGCTCCTGCTCCCCACCAG
Seq C2 exon
CTGGAAGACGGGGCCCTGGACGCTCTGCTCGGCCTCCTGTGGGGGCGGCTCCCAGTCCCGCTCCGTCTACTGTGTCTTGTCTGATGGGGCCAGTGCCCAGGAGGCTGCTGAGGATGCTGAGTGCGAGGGTCTGCCTGAGAAGCCCCCGGGCACGCGGGCCTGCAACCTGCAGCGCTGCGCAGGCTGGAGCGTGGAGCCCTGGAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.093 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(69.8=86.0)
A:
NA
C2:
PF0009014=TSP_1=WD(100=84.3),PF0009014=TSP_1=PU(13.0=10.0)
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:
GTCAGCAGACTCGCCGGG
R:
CTCGCTCCAGGGCTCCAC
Band lengths:
335-1306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development