DreINT0110051 @ danRer10
Intron Retention
Gene
ENSDARG00000027867 | paplna
Description
papilin a, proteoglycan-like sulfated glycoprotein [Source:ZFIN;Acc:ZDB-GENE-070815-4]
Coordinates
chr17:51064380-51066930:-
Coord C1 exon
chr17:51066780-51066930
Coord A exon
chr17:51064461-51066779
Coord C2 exon
chr17:51064380-51064460
Length
2319 bp
Sequences
Splice sites
5' ss Seq
AGGGTACAG
5' ss Score
3.14
3' ss Seq
GTGTATCTCTCTCTGAACAGAGG
3' ss Score
9.24
Exon sequences
Seq C1 exon
TGCTCTAAAAGCTGTGGCTCGGGGCTGCGGGAACGCCAGGTGATCTGTTCAGACAGACAGAGAAACCTGTACAGGGCGGAGGAGTGCCAGGGCAAACCCAAACCTCCCACCGTAGAGAGCTGCAACGCCCAGCCTTGCTACAGGCCTCAGG
Seq A exon
GTACAGAAACCTTTTTATGTGCTCCTCCAGTCTTTATTCAGAGTCATTTCAGATTCATGCATGCACATAGTTGCATAACCATCTCACACGCCAGTTCTTGATCCAAGAAGATCCAAAAACTCATAAAGACATTGTAAATTTCATAAAGCAGTCGTATTTCATCATGAGGCTTGGTGTAAACATCACATTTTATTTAATGAACAAATTTAATGTGAGCTTTTATTCACACCTAACACTGAAGATCTTGTCTCTCTAGGCTAGTTTTGTAACAGCAGAAGATGCTCTAGGCTGGTTTTGTAACAACAGACGATGCTCTAGGCTGGTTTTGTAACAGCAGACGATGCTCTAGGCTGGTTTTGTAACAACAGACGATGCTCTAGGCTGGTTTTGTAACAGCAGATGGTGCTCTAGGCTAGTTTTCACACAGCAGATGTTGCTCGGCTAGTTTTTAACAGCAGACGGCACTCTAGGCTAGTTTTGTAACAGCAGATGGGGTTTTAGGCTAGATTTTAACCAACCCGGGCTTATTGTGGAAACGTAGTCCCGCGGATGTTTCTGGAGAACGCAGAATACGTCCCGGCGGGTTCGTACGGCTGCAGTTTAAGTTTTTGCGAATCCGCGAGAGGCCGCTGTTGTGCTCTTTTTCGCATCTCAGACGCCTCTCGCGAGTGCGGTTCGCGCCCGCGCTGTTCTCGCGTGAACCCACCAGAGGCCGCTGTCTGACTGACCGGATGATTGACTGCGCGACCGGCTAATCGGCTGACCCACCCTCCTCCTTCCCTGAACCCAACCAATTTTACCGATCGACCCGCCTGCCCGCTTGCTTCCCTAAACCCGAGCAACAGTTTACAAAAGCCGTCCAAAAAAGAAAAGCCCTGATTTTTTTTTCTACCGCGTTTTCGGATTTCACCGCGTTCTCACCCTGTTATGAAACTCGTTCACTTAATTTTTGGGATTCTGTTTTTGTCTTACCTGATTGCTGGAACCGCTCTTCCCCGGACTCGAAACCGATCGCCGTGGTCGACTCCTCTCTGCATCTCGAGCCTGCCGACGTACACGGTGAGCTGAGTGGACAAACGGGTTGCAGCGGGGAAGCCCTCCACAAGGAGGTAAGCGGTCGGCCGGCCGGCCAGCCGACAAGCGCGATAGGGAACAGCGTCACACCGCCCTGCAGCATTCGCTTGAAAAAAATAAACGCGGCTGTACGTACCTGCCGGGATGTATTCCGCTATCTCCAGAAACGTCCGCGGGACTACGTTTTCAGAATGAGCCTGGGTTGATTTTAACAGCAGACGACGCTCTAGGCTAGTTTTGTAACAGCAGATGGGGCTTTAGGCTAGATTTTAACAGCAGACGGCACTCTAAGCTAGTTTTGTAACAGCAGATGGCGCTCTAGGCTAGTTTAGTACACTGTTATTAACAGTGAACGGAGCTTTAGGCTAGTTTTTAACAGAAGACATTGCGTTAGACTAGTTTTTAATAGAAGATGCGATCTGCGCTAGTTTTGTAACAACAGATGGCAGTTTTTAAATATACACGCAAATGATAATGACGATCATGTAAGTTGGTGTTGGTGTCAAAGAATAATATAAACACAGGTCACTATGAACAGCCAATACTTTATTAATGATTATTTTAGGTTCAAGTGGTATTTATAAGGAATTGGATGCAAGCAGAGAGTGGCTGTTTGTAAAGAATACAGCGGCAACTGCTCTTTTCCTCTTGACTTTATCTTTTCATATACTAGTGGATACAGCCATTGGAACCTTATTGGCTCGAGACACTTTCATTGATTTTTTTAACAGCTCATTTGGCTGCTAGATGTTGCAAACTTGTATTTTTAAATTATATAATTCTTATGTATTGTCATATTCATTCATTCATTCATTTTCTTTTCAGCTTAGTCCCTTTATTAATCAGGGGTCGCCACAGCGGAATGAACCACCAACTTATCCAGCACTTTTTTTACGCAGCGAGTGCCCTTCCAGACGCAGCCCATCTCTGGGAATGTCATAATTACAATCTTATATATTGTCATAATGTTTGTAGAGCAAGTAGTTTGACTGTTTACTGCATTTATTATTCCTAGTCATTTTCCCCCAAGCAAATAAATCAGAAGTTTTAAAACAATCAGAGAAATGTGCTTACTTCTGCATTGCAGAATAAGGTCAACAGAAATCTCTTATATTTGATTAACATTACTTATCTTTATTCATTCGACTTATCAAAGTCTTATGGGGAATGACATGAGGTTGAGCAAATGACAGAATTTGGATTTCTGAGAGTACTGTACATTTAAGTGTATCTCTCTCTGAACAG
Seq C2 exon
AGGTGCCCAGCATGCAGGACCCAACAGGACATGACAACACCCTTCATGGCTTTATGCCATACTCTGAGGATCCCTTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027867:ENSDART00000154532:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.964
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.9=88.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
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]