DreINT0110066 @ danRer10
Intron Retention
Gene
ENSDARG00000042186 | paplnb
Description
papilin b, proteoglycan-like sulfated glycoprotein [Source:ZFIN;Acc:ZDB-GENE-030131-6023]
Coordinates
chr20:33601375-33602313:-
Coord C1 exon
chr20:33602163-33602313
Coord A exon
chr20:33601456-33602162
Coord C2 exon
chr20:33601375-33601455
Length
707 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ATTGTGTTGCTTTGGTTTAGCGG
3' ss Score
6.78
Exon sequences
Seq C1 exon
TGCACCCGGAGCTGTGGAACTGGCACCCGTGAGCGTAGAGTGGTGTGCATGGATTTGGATCAGCATCCTTATTCAGATGACAGATGTGCTTCTCTTTCCAGACCTCATGCTGTGGAGAACTGCAACACACAGCCCTGTCCTGGCCCGCAGA
Seq A exon
GTGAGTTTAACTATATGTGAATGCTTTTGAAAGAAGTGTCTTTTGTGCGCTGAGCTTTCTCTTTTCATACAGTAAAACAGAAGTTTTGTGACATTTCCTTTTTCCCCTCATTGTTCTTTTAAAAAATGTCATTTGTTCTTGTCATTACTCCAGTCTTGAATGTGCAAATTTATTATCATTTTATATTTAATAGTTTTAAAAAAAAAACTGTGGTACTTTACCGAGTATAAATGAAAAGTTAAAAAGACTAACAAGGTTTTTGTCATCCCACACACACATATTTATCTAAATTATTTATTAATTTTCACTTCCCCATTTGCTGCAGTTTCAGTTAAGACAGTAATGATTCGTTTAAATTTCTCTCTTTGGCTCATGGAATCTTCTCTCTATTTTAGTTTTCATTAACAAAATATAATAATATATATAATTTAAAACTATTAAAAATAAAAAGGTTTCAAATAATAAACAGTAGAAAACAGATTGGTTATTAAATAAACTAATATGCAGATGTATTATATTGATGTGTGTGTACATTTATCCAGCTGTATTCTAATGATGGGTACAACAAAAATATATTTTGTTATAAATATAATAAATTAGCATGTTCAGAACTAGATATTTCCCCTATAGGTTATATCCTCATATTTTGGCAGAAATCCTTCTGTGTTATGAAGTACTGATTCTTTCATTGTGTTGCTTTGGTTTAG
Seq C2 exon
CGGTGCCCAGTGTGCAGAACCCCAATGGTTACGAGAGCTCCTTGCGTGGATTTGTGTCTTACACTCACGGCCCAGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042186:ENSDART00000061836:10
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=0.327
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCGGAGCTGTGGAACT
R:
CTGATACTGGGCCGTGAGTGT
Band lengths:
230-937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]