DreINT0110050 @ danRer10
Intron Retention
Gene
ENSDARG00000027867 | paplna
Description
papilin a, proteoglycan-like sulfated glycoprotein [Source:ZFIN;Acc:ZDB-GENE-070815-4]
Coordinates
chr17:51066780-51069149:-
Coord C1 exon
chr17:51068973-51069149
Coord A exon
chr17:51066931-51068972
Coord C2 exon
chr17:51066780-51066930
Length
2042 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TCAACCCTCTTTCTCTCAAGTGC
3' ss Score
6.33
Exon sequences
Seq C1 exon
TGCTCTGTGACATGCGGCTCTGGGAAACAGACGCGAGATGTGGTGTGCATTGGTTCAGACGGAGCTTCTGTGGAGGATTACGCATGTGGGAACCAACCAAAGCCCCCCAGAGAACAGATCTGCGAGATGCCCATGTGCAGGAGCCCCATTGCCTGGCATATAGGAGACTGGGGCCTG
Seq A exon
GTGAGAAATAACATAGCGGGCACCTGAAAATGACATCAAAAAACATGCGTCTATTTGACATCCACACAATAATGCCATTTGGACCATTAAATTAACAACACAAAATATTATGATTAAAGAAAAGCTCCTGTAAAGGTCCTGTGAAGTGCTTTGAAATGTGCATTTTTATTCGATGTTCGATGTAGGCCTCTATTTTAGTCTAAAGTGCATGGCATAAAAGCATTAAGGCCATGTGTTTCGAGCATAACGTGTATTAAACCAATCAGAGTCTTGTCTCTCATTCCCTTTAAGAGTCAGTTGCGTCGCTCCATGGTGCATTTGCTATTTTTTACATGGCGGCTTTGTAGGTGGAAAAACTGAGCGTTTTACTAGCAAGAAAACAGTTAAACAGAGCATCTGCAGCCCGAGGATAAAGAACGAGCCTCCTCCATTTAGCATCTTTACTTTCTCTTTACTTTATTTTTACTCTTTACTCCTTTACTTTGGTGAAGTAAGGAAACGGTGGAAACTCCCTCCACTGAAGACATCCATCGGCCCACATATTTAATTTAGTTTGTTAAGCACAAATATTTGTGTCAAAACTATTTCTAAATTCAGTTCTAGTCTCCAGCAAAGGAATAAATGAACAATAATAATGAAGTGCGGTTAGAAAACTGAGTTATATCCAAACACACGTCCTGTACTTATGCTCCATATGCTGATGCAGACGTCTTTAAAACCCAACAGGTGGACAAATCTAAACTTGTTTACATTAAAACTAATATTAATATGCATATAATCCCTGCTGAAAAATCCAGTTTAAACCAGCCTAGGCTGGTTGGCTGGTTTTAGCTGGTTGTCCAGGCTGGTTTTAGAGGGCTTTCGGCCACTTCCAGGCTGGTTTACAGCCATTTCTAGCCTGATCTTAGCTGGTCAGGCTGGAAAGTGTCCAGCTAAAACCATCTAAAACCAGCTTGACCATCCTGGTTTAAGCTGGACATAGCTGGTTTTTGGCTGGGCTCCCAGCCTGGCTAGGCTGGTCAAGCTGGTTTTAGCTGGTCATCTCCCAGCTTGTCCAGCTAAAACCAGGATGGAAATGGCTGGAAACCAGCCTGGAAGTGGCCAAAACCCCTCTAAAACCAGGCTGGTTGACCAGCTAAAACCAGTCAACCATCCTAGGCTGGTTTAAGCTGGATTTTTCAGCAGGGATAATTAATACTGCTAATAATAATAACATTATACAGATGCAGATCATCATGAATAAACTGAAAAAGCCCCCCCGAGTTGAAAAAAGCATGGAGGCAGTGGTGTTTATATTACTGCAACTGACACATGAAGAGAGGGCGGGGTATATTGTTGCTCCTCCCCTTTATAAAAAAACAGCCAATAATGTTTTGTTTTCTCACAGCTCTGCCAGTGAGAGCGGTTGAGCTCAAGCATATCAAATGAGAAGAAAGGGGTGGAGCATGTCAGATGCTAGAGAGCATTTGATTGGTCAGAAGATTTGATGAGAAACTGAAGCATGAGGAGACGTGAAATTGATTGAAATGGACTTTGATTCATTTAGATGGAAGTGACAAACAAGCTTTGGATGCTTTTATCTTCTAAATGCTAATTGTGTCACTGTTTTGGAGCACACTAGATTATAAATATCCTAAAAACTAACAATACAGATATTAACTATTAATATTTTAATTTCATGGGACCTTTAAAATTCCAAATTTACGCTAGATTTTGTATGCCTACAATGCATGTAAACTAGCTTGATGTCAATATGACATCAAATTAACATCTTCAGCTGCAAAAACACGTCAAAAATTGACTATTCATTCTTTCAATTATTAAAACGAGTCATTTTTAACGTCAGTGTTAGACATTCTCACATCAAGCTGCTAAATTAACATCAAATCTATTAGCATAATTGATGTTTCTTTGATATCGTATTGACATCAGGGTGCCCATTGGAAATCCACACCTCATTTACTGACAGGCCTTTGGATATGCATGCACCTTCCTCTTGATTATATTTGACATACCTGCTCATCAACCCTCTTTCTCTCAAG
Seq C2 exon
TGCTCTAAAAGCTGTGGCTCGGGGCTGCGGGAACGCCAGGTGATCTGTTCAGACAGACAGAGAAACCTGTACAGGGCGGAGGAGTGCCAGGGCAAACCCAAACCTCCCACCGTAGAGAGCTGCAACGCCCAGCCTTGCTACAGGCCTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027867:ENSDART00000154532:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.078
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(86.5=76.3),PF0009014=TSP_1=PU(11.3=10.2)
A:
NA
C2:
PF0009014=TSP_1=PD(84.9=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]