BtaINT0112897 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032515 | PLA2R1
Description
Bos taurus phospholipase A2 receptor 1, 180kDa (PLA2R1), mRNA. [Source:RefSeq mRNA;Acc:NM_175051]
Coordinates
chr2:36502810-36504367:+
Coord C1 exon
chr2:36502810-36502926
Coord A exon
chr2:36502927-36504190
Coord C2 exon
chr2:36504191-36504367
Length
1264 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTAGTGTTTTTTTCCCACAGATG
3' ss Score
11.54
Exon sequences
Seq C1 exon
GCTCTAATCTTTTAACAATCAAAGATGAAGCTGAAAACTCTTTTCTTCTAGAAGAGCTTTTAGCTTTCCGTTCTTCAGTCCAGATGATTTGGCTGAATGCTCAGTTTGATGGTGACA
Seq A exon
GTAAGTAACTTGGGTAGAAAAGAGGAGAGGCATAAATAAATACAGAGTGGTCAAGGTTGATGCAAATGACATCCGCAAACCAGAAGGCTCTCCTTGGGTACATTTGCTGTGAAAAAAATATCACAAATCCTAAAGCCATTTCTTCCAAAGACAACGTTGCTAACCCTTTTTTATACCCTCTTGTTCTCTGAAATAATCCCAGAAAACCAAAAATGAAAACAAACAAGTTTATTTTATACTTAATCTCACATTATGAAGATGTTTGACTGGAACTTTGTGTTTGCAGACTTAGTCATAAGACATCAAAGTCGTATTTACTTTAAAATATCCTGGGTTCCAAAATGTCATATAAGAGCACAATAGAGTTATGGAAACGTCCCAGTGATAAACAGTGCTAACAGAATTGTTATTTGGTTCTCATAAAAGCCCGAGTTTGTAATCAGATGAGAGTATGATTTTTTTTCTTTATGTTGTTGACGGTTATTGAAAGTACTTGTATCAGAAGAAAGGGGACGTATGTATACCTGTGGCTGATTCACGTTGATATATGACAGAAACAAACACAACACTGTAAAGCAATTATCCTCCAATTAAAAATAAATAAACAAAGAAAGTACTTGTAAAGAAAATTATTTTAAACTGGAATGGAGAACTTGTCACAGGGGTATACCAAGGTGGAGGATGGGTCCACACTGGCAAGGAAAAGTATTTCAATCACAGATATTGCTTAAAACTTCTAGACCAGGGTGATAATAAACAAGCTGACAAATGTATGCTTAGTTATACTGCTTGTTTTAAATCCTTTTCATACAAGGTGCCTCCTTATCACTTACACACAGATGGATTCTACCAGCATCTTCACCTTTTGGTACACCACTGGCTTGCTTTTTTAAAGAAGCTCACTGTAACATTCTTTTAAAAAGTGAGCTCTTTTGTAATGATATAGATGTTAGGATTTCAAATGATTTAAGTTGGTTATAATGATAAAGAACTTTTAAAATTCCAACTTTATATTAAGAAACATGATATCTCAAATGAACTACATTAGAAGCTCGTATCTAGCCTAAAGAGAGTTGTTCACAAGACAGCTTTGCTAACACCTACCTCTGGATGATGAGTTCATGACTGCACCTACTGAACTGAATGCACCAGATAAGGAGAGTCGCATTAAATTTAGGGGCTGCTTTCTATGGTTTATTCAACACTTAGTATGTTTGATAACCATGCACGCAATTCATAATAAGTTAGTGTTTTTTTCCCACAG
Seq C2 exon
ATGAAACCATAAAGTGGTTTGATGGAACTCCCACAGATCAATCAAACTGGGGTATTCGGAAGCCAGAGGTGTACCACTTCAAACCCCATCTGTGTGTTGCCCTGAGGATTCCTGAAGGAGTGTGGCAATTATCCTCGTGTCAAGACAAAAAGGGATTTATATGTAAAATGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032515:ENSBTAT00000046112:27
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=FE(35.1=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(50.5=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAATCAAAGATGAAGCTGAAAACT
R:
AAATCCCTTTTTGTCTTGACACGA
Band lengths:
262-1526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]