BtaINT0107376 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85116428-85118022:+
Coord C1 exon
chr10:85116428-85116890
Coord A exon
chr10:85116891-85117884
Coord C2 exon
chr10:85117885-85118022
Length
994 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTCTGTCCCACCTTCCCAGGAT
3' ss Score
9.9
Exon sequences
Seq C1 exon
CGTACCCCGTGCGGTGCCTGCTGCCCAGCGCCCACGGCTCCTGCACCGACTGGGCTGCCCGCTGGTACTTCGTCCCCTCCGTGGGCCAGTGTAACCGCTTCTGGTATGGCGGCTGCCATGGCAACGCCAACAACTTTGCCTCGGAAGAGGAGTGTGTGAGTGCCTGCCGGGGACCCCAGCCCGGGGCGGGGGCCTCTGGCCAGAGCACCCATGGAGATGGTGGCAGCAGCGGTCCTGGGGGCCAGCAGGAGGCTAGCCAGCATGGGCCGGGGCCCATGGTCCAGAGAGGACCCTTGCCTTCCGGTGGCCTCCGGTGGCAAGACCAAGAGCCTGGGCCGGGGGTGACGGACCACAGACAGGCCTTTGGAGAGGGGCCCTGGGGCCAGGAGACTGGGCCCAGTCCCCCTGGACTGAGCGGAGACGCAGGACGACCAGCGCCTCCTTCCCGTGGCTCCTCCTACAG
Seq A exon
GTGAGGCCCCCCACTTCCCCAGGTGGGATGGGGATAGGGATGCAGGCAGGCCAGAGGCTGAGCCTTTTAGGGCTAAAACCCTGAGATCAGCTGGGCCTCCTTCCACCTTTCACCTGGAGTCTTCCGGCTGGAGGGCTTTGGTACCATCATTCCACAGGTGGGGAACCTCAGGCTTTGGAGACATGAGGCTTGCCCAGGTTCAGGTGGATGGTGGTGCCTGAATTCTCCAGCAGATCTTGCGGGTATGGTCCAGGGCCTGTCTAGTTGAAGCTTCAGAGCTTCATGACCTCTGGCAAGTCATCCAGCTTCCCGGAGCCTCAGTTTCTCGACCTGTAAGATGGTGATATGATCTCACAGGTTTAGTGTGGATCCCGGTCGTCGTCACTCTCTGTGTCATATTAATGAGAACTGGGAAGATTAAAAACAAAACTGAATTCCCGAGGGATCCGGCATGCGTTTGGTTGCCCAGCTGCTTCTCTCCCACGCTGTCCGTCCTGGGGCCCTGGGCCTAATCTGTGCTCATTTTTTTTTTGCCTGTGCTTGTGCGGGGTTTTCTCTCCCTGTGGTGAGCAGGGTTTCCTCTCTGGTTCTGGGTCACGGGCTCCGGGCGTGCGGGCTTCAGTAGCTGTGGCTCATGGACTTAGTTCCCCTTTGGCATGTGGGTTTCTCAGATCAGGGATTGAGCCTGTGTCTCCTGCACTGGGAGGCGCTTCCTAGCCACAGGACCCCCAGGGAGGTCCGTGTTCTGTGCTCTTACGGGAACAAGTTGAGGGCACAATGCCTGTGGGTATTTTGGGGGTGGGGAGGGGAGATTCTTGATTCCCCAGACATCTGGAGAGTGGCTTCCATGAGAAGTACCTCTGGTACTTCCATGGGTACCCTGGGGGTACCTCTGGTACCCATGACGGGGTACCATGCTTGCTGTGGGGACGCACTGATGAAGGGATAGTCCCTGATGCTGGCCCTCATGTGACTCTCTGTCCCACCTTCCCAG
Seq C2 exon
GATCACTCTGGCGGGCTCAGAGCCCTCTGTGGTGCAGGCAGCCGTGGGGCAGTTGGTGCGGCTCTTCTGCCCGGAGGACGGCTCTCCAGACCCCCACTCAAGGTGGCAGAAAGACGGGCGGCCCGTCTCCTCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.658 A=NA C2=0.979
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=WD(100=34.2)
A:
NA
C2:
PF0767911=I-set=PU(52.5=89.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGAGATGGTGGCAGCAG
R:
CTTGAGTGGGGGTCTGGAGAG
Band lengths:
356-1350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development