GgaINT0050846 @ galGal3
Intron Retention
Gene
ENSGALG00000011149 | PLA2R1
Description
NA
Coordinates
chr7:23422845-23424290:+
Coord C1 exon
chr7:23422845-23423012
Coord A exon
chr7:23423013-23424116
Coord C2 exon
chr7:23424117-23424290
Length
1104 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
ATGAGTCTGTTTCTGAGCAGAGC
3' ss Score
4.87
Exon sequences
Seq C1 exon
AAACATACACCTTGCTGGGAAATTCCTTTGGTTTCCCATGTGTTTTTCCATTTAAGTATAACAACAAGTGGTATTATGAATGTACCAGAGATGGAAAGGAATTTGAGTGGTGTGCCACAACAAGTTACTATGAACAAGATGAAAAATGGGGCTTTTGTCCTGGTGTTG
Seq A exon
GTAAGGCGTTGCTTGTTTTCACTTGTATCGTTTTTTTTTTTTAACTCCTGGAGTATCAGTGATCTTTATTAATAAGCATAGGACACGTTTTGTTGTGGATTATAAGGTTACTTCCCTTCTGTTAGGGGGGAATTAATGTCTCTTCAAAATAAGTAAGAGGAGGCTGTAGCAGACTATCATTATTTGCCTTGTTTGATCTTTGGAGACCCAAGTCCTTGTCTCAAAAGCACAATTCCAGGGGCAAACAAAAAGATGCCAGGTGCTCACTGCTTTGTGCTGCCTGCTGACTGTGCCTTGAAGCTGAGCCACATCTCTCTCTAACATCACTGTGCAAAGGAAGGATTGCTCCTGCAAAAGGTCATTGTGCTTTTGACTGCGTTACATCTTTTACATTCCGATTAATCATGCACTCTTTGGATACCTATGTTTTGGGCCTAAAACACTTGGAAGCAGATTTTTGAAGATATTTGCTGTTTGAAAAATTTTGGATGTGTAATGTTCACAAATATTAAATATTACACGTAACAGCTTGTAGATTATTCCATAAATAAGCAAAATATTATCTTCTGTCAATAGGGTGGTTTGGAAAAGCCCTCCCAGCTCAGCCTATGTCTCAGATCTCTGTTCCAAAGCATGCTGTAAACATCTGGAAATGTGATTTCATAACGGGAATTTCCAGGGAACCGTTGTATCAGGGGTATTTTCAGCCCTGCTTACATTTTGTGATTATAGTAGCTTTAATCTCTTGAGTACCAGATAGTGGGAGACTGCTTCATCACAAGTTGTGTGAGGCACTCGTGTATTACACGTCAGCTTGAGGAAGCAAGGATTAGCGAGTGTGAATTAAACTGTGGCTCTGCTGGCAACATAGGAGCTGTGAAAATGGCCACCAGCTGCAGAGCAGCTCCCAGGGATTTGTCAACCACCTGGGAAATAGAGTGGTGTTTTATTCTTTTAATGCCCTATTTCTGCATGTACTTTTACAAAGGGATACTGGATGAGTTGGCCATCATACTTCCATTGAGATACTACCATCATTAATTAAATTGTCGACAGTGCTGTACTTCTTATAGCCTTTTTGCTGATGAGTCTGTTTCTGAGCAG
Seq C2 exon
AGCATGGCTGTGGCACATTTTGGAAGGAGAACCCGGCCACACACGTGTGCTACCAGTTCAACCCATCAGCCGTGCTGTCGTGGCACGAGGCACGGGCAGCCTGCCAGGCACAGGGAGGAGACCTACTCAGCATCACCAGCCCTGAGGAGCAGAGCTATCTCAGCAACTTGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011149:ENSGALT00000033111:3
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:
PF0004014=fn2=WD(100=70.2)
A:
NA
C2:
PF0005916=Lectin_C=PU(31.5=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATACACCTTGCTGGGAAA
R:
AGATAGCTCTGCTCCTCAGGG
Band lengths:
327-1431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]