GgaINT0050860 @ galGal3
Intron Retention
Gene
ENSGALG00000011149 | PLA2R1
Description
NA
Coordinates
chr7:23440233-23441769:+
Coord C1 exon
chr7:23440233-23440390
Coord A exon
chr7:23440391-23441704
Coord C2 exon
chr7:23441705-23441769
Length
1314 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GGCAAAACACTTTTTTGTAGCTG
3' ss Score
2.19
Exon sequences
Seq C1 exon
AACTGCCATGGTCGTACTACCAAGGAGCAGAGTATCTTTTTCATGTGAATCCTACAGACTGGGACACCTATGAGTTCATTTGTGTCTGGCTTCGTAGTGAAATGGCAACAATACATTCTGCTGATGAGCAAGCATTTATTGAAAATAAAATTAAGAAG
Seq A exon
GTAACAAATTAGAATGCTTCTTTAAAGTCATATTTGCTAACAGGAGATATTTTTAAAGCAGCTTTGTAACTGAAGTAGTGGATATTGTAGCATTTTATGACAAGAGAGCCTAGATTACTCCATTTGCATTTTACATTAAGTTAACTTCCTTTGAGTTCCTTCTCAGAGTATGACAGATTGAGCTATTTTATAGCCTGCTGCATTCCCCAGTATAGCCAGGTGTGTCCGTAAACGCTTCTAACTGATTTCCTATGAAAGCAGGAGTAAAGATAATCATCAGCAGTCTGGATGGAATTTGTATATGCCATTAGAAAGCTTTGTAATGATTTCTTCATGTAGAATTCAAAATCATGTTTTCACTATTTCTTTAAGAATTGTATTGCATTGGCTGAGTGTTATGATTAGAAAGCCAAATTCAGGGACCAGTCAATACCACACCAGATGACATTTCTTAGGCTATTCTTTCTCAGAAATGATACATATTCTAAATTTGATATTGCCATGTATACTGTTAGCTGACAAAATCCTGACTCTAAGGACTGCTTGGTTGCTTCAACATATGCTGCATTTCCATTCTTTCTGAAGGAAAAATTTAATGCTTCTAAATGGTAGGGGTGCATTCAAATGTGCAGGACATTGTAGAACTTTTTTTTTTCCCCTTTGACTTTCCCAAAGACTCCCGAAATGTGGCTGTTGAGAGAGACTGCTCTTGAAAGTGAAGTATTTTTCATCATTTAAATCAGTGTCATGTCAGCAAAACAGCAATAAGTGACCGTTTGAATGACAGTATTTATGTAAATTATCCATAATACTTTGCCTTTTAGGACTGGAAGTCTAGAACTTTCATGATCCTAACAATCATTCTGAAAAGCATCTCCAGTATATGAGCTGTAAGAAGTAACATAAGTTGCATAGAAAATGTTCTGGAAACATTAAAACCAGTAGCATTTCAGTACTAAAAGGAAATATTTGTACTCCATTATTTTAATAATGTCTGTTTTTCTTAGTTCTGGCCTAAGACCGCAGTCCTTGCTAGGCCAGTGCTGTCAGTGTTTACAGCCTAATGTTACAGAATGTACAACAGCAATCCAGTGGGAAAGGGAGACTATACTGTGTTTTACTTACTTGCTTGCTGTAGTCAGGAGGGAGTAGTCACATAAATTAAGACAGGCAGATTCTAGAGTGTGTTTTCCACTGGAAACCAAAGGAGATGCTATTTATCTGAATATGAGCTGAGCCTGATTTTTTAGGACTTGGTTAATGTTTAACTGTTGCTGCCCTCTTATCAAAACATGGCAAAACACTTTTTTGTAG
Seq C2 exon
CTGTCGGATAGTGACGTTCACTGGTGGATTGGATTGCACGCAGAAAGCATCAGCAATGAATTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011149:ENSGALT00000033111:17
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:
PF0005916=Lectin_C=PU(32.4=67.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AACTGCCATGGTCGTACTACC
R:
GAAATTCATTGCTGATGCTTTCTGC
Band lengths:
222-1536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]