BtaINT0111667 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004901 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr15:35898402-35900227:+
Coord C1 exon
chr15:35898402-35898545
Coord A exon
chr15:35898546-35900178
Coord C2 exon
chr15:35900179-35900227
Length
1633 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
ATCTGTATGTGTGTAAGCAGGCA
3' ss Score
4.67
Exon sequences
Seq C1 exon
AATCAGCACAGAGCAGTAGATCAAGTAATTAAAGCTGTAAGAAAAATCTGTGGTGCTTTAGATGGCGTGGAGACTCTTGCCATTACAGAATCGGTAAAGAAGCTGAAGAGAGCAGTAAATCTTCCAAGGAGTAGAAGTGCTGAA
Seq A exon
GTGAGTATTTTTTAGTCGTTAGCATTTTATCACATGCAAATATGTACATAAGTGAGCATCTGTCATTTAAACTGGGAAATTTTTGCTTCTGCTAGACAAAATGTTACCATTTTAACTCTAGCTTTTACTTTTGAGCTGATTTGGTCACTTATTTGGTAAGGTGAGGGAATTTCCAAGAGGAGATGGACTGCCTTGAAGAATTTTGTGAGAGTTGACATTGAATAAATGGATATCCAGCTGAACTTTTTGTGTGTAGAGGAGAAACTCTGGCAAAAATGAGTTGGTCGAAGATTTTAAGGTAATACTGCCCTTGAAGGAGCTGGATATTAATAGCTAACATTTCTCCCTCTGGATGCAAATGTCCATGGTTGTCAATGGGGAAGTTCTGCTTTGGAGTAAACCTCCTTCCTATTGGAAAGACCCAGAAGTCTCTGTAATAGTGACTTAAATTGCCTCAGAAGCAACCAGATTAGGAGCCCTCACTTGATATCATACTGTTGTGTTTAGTAAAAGTCCTCCCTGTGGTATTTTCCACTGGGATTTAATTAACTGTTCAGAGGGATGTTCATAGCTCTGATTGGAAGGATGAAAGAAGGATCACAAGACATGATAACTTTCAAGAAAGGAAAAGTTATGTTGATGGTATGTTCTTCAACAAATGTCTGGGAAATAACTCAATCCATTTATTGTCTCAAAGACCCTATCCATATGGTATACAGAAATTTGAGTCTCTCGTGTTTTGTTAGTTTGTTCTTATTATGTGCTTGTTTTTTAGAAATTAAAAAACATCTGAAATCATTTGGAGGCAATAAAATGCCATGGTCTGGGATTTCCCCAGTGGTCCAGTGGTTAAAGAATCAGTCCTGCAATTCAGGGGACATAGGTTCAGTCCCTGGTTGGGGAACTAAGATCCCACATGCTGTGGAGCAGCTAAGCCTGCCAGCCACAGCTACTGAGCCCAGGTGCTCTGGAACCCATGTGACACAACTTTAGAGGGTCCATGTGTTGCAACAAAAGATGCCACATGTTGCAACAAAGTTCCTGCATGCTGAAACTAAGACCTGATGCAGGCAAATAAATAAGTATTTCTTTAAAAAAAAAATAAATGCCATGGTCCTAATGCTGTCTGAGGCTTCTATTCATTATATTCATTTGCTGGGTAAATGAGCAGAGAGTAGGAGATAAACTCAGTTCAAATAATTATAAGGGCTTTTTTGAGACACTAAATGGTAATAAGTAGATTTCTAGTTTCTTTAAGGATATGCTTATGCTAATCATAGAGCAAGTAATGGAAAATAAAATACTGTATTAATATATTTAGCACATTTGAGTTTCAAATATTAATTACCAAAAAATGATTTGATGAGGCAGATTTTGCTGAGTTTATTTTGCAGTACTTTTCATTTATTGCATGGTTTTCTTGATATTGAAAGTATCTTTTTATTTGGTTTGGGACATTCACTTTCTTTTTGCATTCTTTTTTATTGTTTTATTAATTCTTCAGACACTTGGAAAGTTTCTCCAGTGAAGGATTTCTTTGATATAGAGTTTAATAAGTGCATTGAAATTAAAAGTAAACATTTTATATTGCATCATGGGTGATTTTCTGACTAATCTGTATGTGTGTAAGCAG
Seq C2 exon
GCAACTTCACTGTCTGGAGGAGGAGACATTAACAGGAGTTCAAGTAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004901:ENSBTAT00000046627:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.941
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCACAGAGCAGTAGATCAAGT
R:
TTGAACTCCTGTTAATGTCTCCTCC
Band lengths:
182-1815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development