BtaINT0107387 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85102728-85103075:+
Coord C1 exon
chr10:85102728-85102808
Coord A exon
chr10:85102809-85102896
Coord C2 exon
chr10:85102897-85103075
Length
88 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CTGACTGGGGTGCTCCCCCGGCG
3' ss Score
-1.64
Exon sequences
Seq C1 exon
GCTACAACCAGATCCTCATCGTCCCCATGGGGGCCACCAGCATCCGCATCGAGGAAGCGGCAGCCAGCAGGAATTTCCTGG
Seq A exon
GTGAGGACAGTTTTGGGGTCCGAGGCGGGGCTGTCGCCGTGGCAGGGAGGTGGGTGCTGCCTTGGCAGCTGACTGGGGTGCTCCCCCG
Seq C2 exon
GCGCAGCGGTGAAGAGCATCCGTGGCGAATACTACCTCAATGGACACTGGACCATCGAGGGTGCCCGCGCCCTGCCCGTGGCCAGCACCCTCCTGCACTATGAGCGGGGAGCTGAAGGGGACCTGGCGCCCGAGCGGCTCCACGCCCGCGGCCCCACCTCGGAGCCCCTGGTCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=FE(22.9=100)
A:
NA
C2:
PF059869=ADAM_spacer1=FE(50.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCCTCATCGTCCCCATGG
R:
CTCATAGTGCAGGAGGGTGCT
Band lengths:
176-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development