DreINT0016779 @ danRer10
Intron Retention
Gene
ENSDARG00000077474 | PLA2R1
Description
phospholipase A2 receptor 1, 180kDa [Source:HGNC Symbol;Acc:HGNC:9042]
Coordinates
chr11:11049894-11051527:+
Coord C1 exon
chr11:11049894-11050271
Coord A exon
chr11:11050272-11051353
Coord C2 exon
chr11:11051354-11051527
Length
1082 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TTTTTTCTGGCCATTGACAGACA
3' ss Score
6.45
Exon sequences
Seq C1 exon
GTAAAGGTGTTTTCCGGTTGGAGAGTGTATCACAGAAGCGTTGTCTCTCAGCTGACTCCTCGGGTCTATCGATGTCCAGCTGTGACCCCTCGTCTCCTGCCCTGCTTTGGAAATGGGTGTCCCGGCACCGACTATACAATCTGGGCACCAGTCGATGCCTAGGGATCAACACGACCAAGCAGCATGACGTTGGCATCTTTGAGTGCGATGTTTCCCTCCCAAGCATGTGGTGGCGCTGTGGGGGTGGCATGTTGTATGGAGCGATGAATAATAAGCTAGTGGCAGTGGACTCAAAAGTGGTGGTGAGAAGAGGTGCTCTGCATCAGTGGAGGATTTTTGGGGCGGCTGGTGAAGGGCCATGTGCTTACCCATATGAAG
Seq A exon
GTAGAGTTTTTTTCCCTAATTGATGTGCTATACACTGTTTACCTATACACTAAATTCCGTCTGATAAAGTTAACTGTTTATATTGGGTAGCTGATAATAATATATATTCTACAGCACAGTTACTAAAACAAAGGGCAAACGAAATTTTGAGTTAGCCACCACATCAAATAGCCTGTCCTAAATTTATTAGGATTTATTTTGACATTTTTGTCAAAATTGAGCTCATTCATATTTTCTTATTCGACTATGCGTATGTAAATTGTGTGTGTTTCTTTTAAAGTTGCATAGTATTTTATTACTTTTTATTTAGAAAACTTGATCCTAATATTGTTTTTGACATGTATAAAACTTTAAAGCTTAAAGTCTCAAAACCAACCAAACCCAATGTCAAAATCGTCATTGTCTAACTGATCATATAAGAGACTTACTGACTCATATGGTAATATCTGCTTTTTAACATTAAATATCTTTCATTCATTTATTTTCTTTTCGGCTTAGTCCCTTCATTAATCAGGGGTTGCCAAAGTGGAATGAATCGCCAACTTATCCAGCATATGCTTTACACAGTGGATGCCCTTCCTGCTGCTACCCACCACTGGGAAACATTAAATAATTTATTACCGCAATATTGTACAGTATTGCTGCATGTAAAGTTTTTCTCGTTTGGGTAGTTATATATGCTTAGTTTGATTACTGCTACTGTAGGTATAGGTTGGAAAAAATGGTCTTTCTTGTACAGTAGTTTTGTATGTTGATATTTTTTTATTTATGTAGCACTGTGGTCCAGGGAGACATGACATTTTGTTTGACTATATGTAGCAGAATGACAATAAAACTCGACTTGACTTGACTACCGAGGGACCTCTTAATGATAGTATTTACTGTTTTATTGTATGTTTTTATTCCTGACCTAAACTAAATTGGTCAGGAATAACCTGACTAATTTAGATATTGTTATTGAAAGAGACTAAGCTGAAAATAAAATGATTGAATGAATATTGTTATTGACAACTGAAGCTTTGTTTAGTTTGACAATCTTCTGCTTGTTCTAACAGATTGTTTTTTTTTCTGGCCATTGACAG
Seq C2 exon
ACATTCACACACTTCAAGGAAACTCTCATGGCATGACCTGCTCCATACCCTTCAACTATAACAATAAATGGTTCTGGGACTGTACCTCAGAGGGCAGAGAGGACCGTCACCTCTGGTGTGCCACCACCAACCGCTATGATCAAGATGAGAAATGGGGTTTCTGTCCAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077474:ENSDART00000169992:2
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=0.000
Domain overlap (PFAM):
C1:
PF0065217=Ricin_B_lectin=PD(76.7=80.3)
A:
NA
C2:
PF0004014=fn2=WD(100=71.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCGGCACCGACTATACAAT
R:
CCCTCTGAGGTACAGTCCCAG
Band lengths:
353-1435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]