RnoINT0111244 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185310292-185312168:+
Coord C1 exon
chr1:185310292-185310421
Coord A exon
chr1:185310422-185312031
Coord C2 exon
chr1:185312032-185312168
Length
1610 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TCATATTGTGTTTATTAAAGGCA
3' ss Score
6
Exon sequences
Seq C1 exon
GTTGGTGAAGATCTTCGGCAAGATATGTTAGCTTTACAGATGATAAAGATTATGGATAAGATCTGGCTTAAAGAGGGCCTGGATCTGAGGATGGTGATATTCAAATGCCTGTCGACTGGCCGAGATCAAG
Seq A exon
GTAGGTCTTTTAATTGGGTCTCGATTTCTTTTTGTCTCATGAATGTGGTTTACTTTTGAACTTATTTTTGGTTGTATACTTAATATGTCCTGGTGCAGGCTTACCGGGGTCTCAGGGTCTCAGTTATTTATATCTAGTGTTACTTATTGGTTGGACTATGTATAATTAAATACTTTTAAAACAACTGTAAAGCATTTAATAAAATTACTAACAAAACAGCTCAGTAAGTAGTCTTAATAAACACTTCATATTAATTAACCAGAAGTGTAGATCAATTGGCCCAATAAGAAATTCATTTACTTAAGCCAATTTTGGGTTTATTTCCACAAAATAAATAGTGATTAATGGGTTTGTTATTTTTGTGGTTTTGGAGAATAGGCATACATGTATGGAGTACAGAGAACAACCTTTAAGAGTCATTTCTCAGCTGGGTGATGGTGGTGGCACACACCTGTAACCATAGCACTTGGGAGGCAGAGGCAGGCGAATCATTGAGTTCAAGGCCAGCCTAGTCTACAGAGCTAGTTCCAGAACAGCCAGGGCTATACAGAGAAACCTTGTTTCGAAAAACCAAAAAGGAAAGAAAGTTATTTTTCTTTCTTTTGTGGATTCTAGGGTTAGAACTCAGGCACTTTCATGGCATGGCGGGCATTTTTAATCACTCACTCAGTTCTCAATTGAACTCATTGTGTGATATATATTACTTGTTAATCAAGTAACACCATCATTGTTACATTGTTCTTAATCAGTACCTACCACATGAACAACACAAACACACAACACAAAATAATCATTACATTTTAGATACTCTTTTATATTTTTTCATTTTTTCCAGCGACAAGGTTTCTCTGTGTAGGCCTGGCTGTCTTGGAACTCACTGTGTAGACCAGACTGACTATGAACTCAGAAATCCACCCGCCTCTGAGTGAGGGTTAAAGGTGTGCAACTCCGCCACCACCTGACATTTTTTTTTCTTACTTTATTTACATGGGTTTGTTTCTTAAAAAGAATTATTTTATGTATATGAGTGTCTTAAGATAATACCAGAAGAGAGCGACAGATGGTCATGAGCCACCATGTGGTTGCTGGGAATTAAACTCAGGATCTCTGGAAGAGCAGTCAGTGCTCTGAACTGCTGAGGCATCTCTCCAGCCCCATATATGGGTGTTTTGCTAGCATGTATGTTTGTGTACTATGTGAGTGCTTAGTGCTTGGTGCTTTAGGATGCCACAAGGGGACATCAGATCTCCTGGCACTGGGGTTACAGATAGTTGTGACATGTAAGTGCTGACATTCAAACTGGATTCCTCAAGAAGAAAAGCCAGTAGTGCTCTATAACTACCGAGCCATCTCTCCAGACCTTGGGTGCTTTTAAAAAATAAGATAATTGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTTGGTCCCCAGCTCCGAAAAAAAAAGATAATTTTGGCTGCTCCCATTTTCCAGCATGACTTGTCAGATTTGGTATCTTATTTCAAGGATGAAAGATATAAATATTTGAAAAGCTTACTATGAAGACACATTTTCACACAGCTTCATATTGTGTTTATTAAAG
Seq C2 exon
GCATGGTGGAGCTAGTTCCTGCCTCAGACACTCTCAGGAAAATCCAAGTGGAATATGGTGTGACAGGATCCTTTAAAGATAAACCACTTGCTGAATGGCTAAGGAAATACAACCCTTCTGAAGAAGAATATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:23
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:
PF0045422=PI3_PI4_kinase=FE(19.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAGATCTTCGGCAAGA
R:
CTTCTTCAGAAGGGTTGTATTTCCT
Band lengths:
254-1864
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]