BtaINT0107370 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011680 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:HGNC:19262]
Coordinates
chr10:85105559-85110310:+
Coord C1 exon
chr10:85105559-85105741
Coord A exon
chr10:85105742-85110265
Coord C2 exon
chr10:85110266-85110310
Length
4524 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
CATCTCCAGTGCTCAGTAACTGT
3' ss Score
-16.54
Exon sequences
Seq C1 exon
TGCTCTGTCAGCTGTGGTGCGGGGGTCCGGAGGCGGAGTGTCACCTGCCGGGGTGACGAGGGGTCTCGGCTCCACGCCACGGCCTGCTCCTTGGAGGACCGTCCGCCTCTCACTGAGCCCTGTGTGCATGACGACTGTCCCCCGCTCAGTGACCAGGCCTGGCACGTGGGCGCCTGGGGTCTA
Seq A exon
GTGAGTACTGCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCTCTTGGCAGCCTCACCGGGCAGCCGTGTGGCCCCCTGGGAGGCAGCACCTCTCCGTCACCCCCAGAGCTCTCTGTGACTGCTGGCACACTTGGGCGCTGCAATGGTTGTGCGTGGCTTGTTAGGCCTACTAGCTACAAGCTGCTTGAGGGCCAGGCCCGCTTCCTTCTTCCTGTTACGTCGTTCATTTCCTCAGTCGTGTCTGACTCTTTGTGATCCCGTGGACTGCAGCACACCAGTCTTCCCTGTCTTTCACCATCTCCCGGAGCTTGCTCAAACTCATCTCCATTGAGTCAGTGATGCCATCCAACCACCTTGCCCTCTGTCGTCCCCTTCTCCTCCTGCCTTCAATCTTTCCCAGCATCAGGGTCTTTTCTAACGAGTCAGCTCTTCCCATCAGGTGGCCAAAGTATTGGAGCTTCAGTCTCAGCATCAGTTCCTCTAATGAGTATTCAGGACTGATTTCTTTTAGGACTGACCGGTTTAATCTCCTTGCAGTCCAAGGGACTTGCAAGAGTCTTCTCCAGCACCACAGTTCAAAAGCATTAATTCTTCAGCACTCAGCCTTCTTTATGGTCCAACTCTCATATCTGTACATGACTACTGGAAAAACCATAGCTTTGACTATACAGACTTTTGTCGGCAAAGGGATGTCTTTGCTTTTTAATATGCTGTCTAGGTTGGTCATAACTTTTCTTCCAAGGAGCAAGTGTCTTTTAATTTCATGGGTGTAGTCACTGTCCACAGTGCTTTTGGAGCCCAAGAAAATAAAGTCTGTCACAATTTCCATTGTTTCCACATCTATTTACCATGAAGTGAAGGGACTGGATGCCATGATCTTCGTTTTTTGAATGTTAAAGTTTAAGCCATTTTTTACTCTCCTCTTTTACCTTTATCAAGAGGCTCTTTAGTTCCTCTTTGCTTTCAGCTATTAGGGTGGTGTCATCTGCATATCTGAGGTTATTGATATTTCTCCCGGCAATCTTGATTCCAGATTGTGCTTCATCCAGCCCAGCATTTAGCCTGATGCACTCTGCATGTAAGTTAAACAGCCTTGATGTGCTCCTTTCCCAATTTTGAGCTAGTCTGTTGTTCCATGTCTGGTTCTAACTGTTGCTTCTTGACCTGTGTACAAGTTTCTCAGGAGTGAGGGAAGGTGGCCTGATATTCCCATCTCTTGAAGAATTTTCCACAGTTTGTTGTGATCCACACAGTCAGAAGTTTAGCATAGTCAATGAAGCAGAAGTAGATGTTTTTCTGGAATCCTCTTGCTTTCTCTGTGATCTAGCAGATGTTGGCATTTTAATCTAGGTTCCTCTGTCTTTTCTAAATCCACCTTGTACATCTGGAAGTTCTTGGTTCACATACTGTTGAAGCCTAGCTTGGATTTTGAGTGTTACCTTGCTAGCATGTGAAATGAGTGCAATTGTGCAGTAATTTGAACATTGTTTGGCATTGCTTTTCTTTGGGATTGGAATGAAAACTGACCTTTTCCAGTCCTGTGACCACTGCTGAGTTTTCCAAATTTGCTGGCATATTGAGTGCAGCACTTTCACAGCATCATCTTTTAGGATTTGAAAGAGCTCAACTAGAATTGCATCACCTCCACTAGCTTTGTTCATAGTGATGCTTTCTAAGGCCCACTTGACTTCACATTCTGGCTCTAGGTGAGTGACCACACCGTCATGGTTATCTGGGTCATGAAGATCTTTTTGTTTGTATAGTTCTTTGTATTCTTGCCACCTCTTCTTAATATCTTCTGCTTCTGTTAGGTCCATACCATTTCTGTCCTTTATTGAGCCCATCTTTGCATGAAATGTTCCCTTGGTATCTCTAATTTTCTTGAAGAGATCTCTAGTCTTTCCCATTCTATTGTTTTTCTCTATTTCTTTGCATTGATCACTGAGGAAGTCTTTCTTATCTCTCCTTGCTATTCTTTGAAACTATTCTTGCTGTTCTTTCTTCCTGTTTATACCCCCACAGAACCTAGCTGGCACGTGGTAGGTCCTCAGTAAATGTTTGTTGAAGGGCTGAATGCAGAGAAGGAGACAGTCTCCTTCACATTGCCTCTGCCTTCCTGACCCCCTTCGCCCCCCATCCTCACTGGGAAAGAAGGTGTCCCCATCGTGAGGAGCTGTAGGACAAGGGGCACACAGGCCATCAGGTTATTTGGTTTGAGGAAGTGTTATTGGGGGAAGGTGTGGGCTGGGGCTGTGCAGGGGTGGCCGGGGGAGTGGCCTTCTGAGACTGCAAAGAGGTGTATTTGGCCCTGACGTGCCAATGACGGGGAAATGGTAGGATGCCCGTGGAGGCACGTGGCAAGGTGGCCAAGAACCGGTGGCCCAGAGTCAACGGCTAACTAATGGAGGGGTTCAAATCTCCCCTCTATTGCTGACCAGGCGTGTGACCCTAGGCAAGGGTCTCTCCTTTCTGATCCTCCCCTGGCCCAGCTGTGCAGTGGGGTTAAGGAGACTGACTTTCCAGGCTTGTGGTGATCTCTTGGCATAGTGGTCGCACACACAATACTCCATAAATGAAGTTCTTGTTCAGTCACGGACTACTGTTTGCAACTTCATGGACTGCAGCGTGCCAGCCTTCCCTGTCCTTCATCATCTCCCATAGTTTGCTCAAACTCATGTCCATTGAGTTGGTGAAGTTATCCAACCATCTCGTCCTCTGTTATCCCCTTCTCCTCCTGCTCTCAGTCTTTCCCAGCATCAGGGTCTTTTCCAATGAGTCGGCTCTTTGCATCAGGTGGCCAAAGTATTCAGCCTCAGCATCAATCATTCCAATGAATATTCAGGGTTGGTTTCCTTTGGGATTAACTAGTTGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTTCGACACCACAGTTGAAAAGCGTCAATTCTTGGGCGCTCAGCTTCCTTTATGGTCCCGCTCTCACATCCGTATGGAGTGTGGGTAGCAGTCGTGGTGAGGCCCTGTGGGGCCTGGGCTGGGCTCCTGGGCCTGGCCTTCGGGCTGCACGCGCAGGAGGTTCTTCAGCCCTTACAAGTCCAGCTCCCTCGAGCCACTCGGTGTCCCAGGACCCTGGACACCTTCCTGGGAGAGGTGGCCCGAAGCCTGCCCCAAAGAGGCATTCACTCGGAAAGGAAGGAAATGGAAGGAGAGCTTCAGGCCAGGGTGAGTTGTGAAAGAAAGAAACCTGCATTGCTATTTTCATAATTATAGAAATAATGTGTGTTCGTTGTGGAACGTTTGGAGAAATTAGAAACATAGTATATATAGAGAAACTTAAATTGGCCTTGATCCCAGCGGTTACTGGATAAATCTTTAGTGTGTTTCCTTGTAATGTATCTGTGATTTCTGTATCTGCTTCCCCCCCCAACCCCAGTGACATTTGGTGTATGAACATTTTCATCCTGTGATTTCTAGGGGCTCCACAGAAGTCCACTTGTGGGTGAGAATTTAGAATTTGTGTGGTTCCTACTGTTTTGGATACTTTAGTGCTATAGTGCTTACTGGCAAGTGCCCTGGAGGAGGGGCTGAGTGTCCAAAGAAGGCTCCCCTTGAGGGGTGGGTGTCTGAGAGCCGACACGCTGGACAGTTCTGCTTCCCCCTTTCTAGAACAGCACACGCCAGTAGAAATAAACAAGCCCACATGTCATTAAAAATTTTCTAAGAGCCACATTTTAGAAAGTAAAAAGAAGTGAATCTGCATTTATAATATGGTTTTTTTTGTGTGTGTGTAATAAAGTTTTATTAAAGTATAAAGGAGATAGAGAAAGCTTCTGACATAGGCATCAGAAGGGGGTAGAAAGAGTCTGCATTTATAATATGTTTTATTTAACCCAATAAAATATTTTTAGCCTGGAATCAATATAAAAATTGTAGGATATTTTATATTCTTTTTTTCACAATATTTTTTTTTTTTAATCTTCGAAGTCCACTGTATAGTTTACACTTACAGCACATCTCAGTTCAGACGCTGGAATCCCACTGGTGTAGTCGGTCTCAATTTAGAGGTCATGAGATATCCAGTTGAAAAAGCAGACTCACCTACCCAACTTGTCCCAGACATACTGAAGCATCTTCTGATAAATGAATTAAGTGTCAGTGTTTAAACTGTAAATTTAATTCTGATTCAACAAAATTTGAAATTCAGTTTCTCGGTCACTCTGGCCCCATCTCCAGTGCTCAGTAAC
Seq C2 exon
TGTGAGACCAGTCAGGAGCCAGGACTGGCACTGGCCCAGGGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011680:ENSBTAT00000015505:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(83.3=73.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development