DreINT0114202 @ danRer10
Intron Retention
Gene
ENSDARG00000060841 | pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:ZFIN;Acc:ZDB-GENE-030328-39]
Coordinates
chr18:27081921-27083733:+
Coord C1 exon
chr18:27081921-27082030
Coord A exon
chr18:27082031-27083525
Coord C2 exon
chr18:27083526-27083733
Length
1495 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAT
5' ss Score
7.24
3' ss Seq
CTCTCCGTTTTTCATTGTAGGTT
3' ss Score
12.02
Exon sequences
Seq C1 exon
ATGACACAATCAGGTTTACCCGAGCTGACCGGAGTCCAAGATTTGAAGTATGTGTATGATGCTCTTCAGCCTCAGACTACAGATGCAGAGGCTACCATTTTCTTCACAAG
Seq A exon
GTAGATTCCTACTAAGATAAAGTAGAATTATGCTCTTTTTATAGAACTTTTTTGCGACTTACAGTGATCGTTCACCCACAAATTAATATTCCATTATCATTTTGCTCACCCTTCACTCGTTCTAAACCACTATGAGGTCCCGTTTACAATAAAACGTTTTAGTTTTGAAACCATCCATCCATTTTGAAACCATCCATCCACACTACACCGGAGTTTTTGAGCCCTAAATGCTGAGCATTTTGAAAACACTGAAGAGGCTGTTTTTGTTTTAAAACGCTGCTGCACCGTCTCAGTGTGGATGGAGGAAAAAAGAGACATCTTCAAATGGATTAGGGCTTTTTCTCAATATAAAGTACACAAAGTTCAGTCTTGCATCCTACTGTTGTAAGTTCAGAGATCGCAAGTTTATAACAAACTCCCGAGGATGTAAGGAAGCGTCGGTGGGTAAATCCTCAAATATAATGGCAGTACTTTTATAATGTCATTAACCATGGCTACATTTCACTTATCTTAACAATAAAATGAAAACATGACTTAAAGCACTGTTTCTTTTAATTTTTATATTAACAGCTTAAACATAACAGACAGAAAAAATGTTAAGGCATCATGTACATATTTATATGACCGTCATCTTCACTGTATGCAAATTTATAACAAAACGGAGCCTGATGACTGCATCCTTTCATTGTCATTGAAAAAAATGAAACATTGGGCTCACTGTGTGGTTTTGGCAATATGTGCTTAATGTCAGGCTATATGCACACAATATCAGTGTACGTGGTCGTGGTGGTTACAGAAATTTATAGGTTTATTAACTTATACACTCAGCCAAAATATTTACAAGTCAGCTAATAGATTTAAAAGACAGACTCGTTAGACTACACAAGATGAATTATACATCACGTTAAACAGCTTTAGAGAGATGAGATGCAACCGCAGATTCGGGATGGACTGGCTGACGTTCGACTGCTCTCAGCCAGGCAGGTGTGCTCAGAGCTCCCGCTGACTGCTTGTAGCTCGGATGCAAGAATACACTGAAGCAGCTTTCAGGGCATGCCAGAGTGCATGTATGGTCATGTGATTCATGATGTGTTTTCAACGGTGTAGTGTAGACTAAGAGCTGTTAAGAAATGCTAGATGAAACGCCAGCGTGGACGCGGATCGTATTCATTCTAAAACGCCGTTTTAAAACTTAAACGTATTGGTGTAAACAGGGCCTGAGTTTCTGTCTTCTGTTGAGCATGAAAAGAATGTTGGAAAGCAGCAGCCATTGAATTCCATAGTATTTTTTGGTTCCTACTATGGATGTCAGTGGCTGCTGCTTTCCAACATTCTTCAGAATATCTTGTTTTGTGCTCAACAGAAGAAAGAAATGGAAAGTTCAGAACCACTGGAGCAAGTGGGTGTGAATCTAAATGATATACATTTTACAGTATACTATATGTCAGTCTTTAGATGGGTTTAAAAATATCTGTCTCTCCGTTTTTCATTGTAG
Seq C2 exon
GTTGATTGAATCCAGTCTGGGCAGTGTGGCTACAAAGTTTAATTTCTTTATCCACAATCTGGCTCAGTTGCGTTTCTCTGGCCTTCCCTCCAATGATGAACCCATCCTGTCGTTTGCTCCTCGGACATACACTATGAAGCAAGACGGCAAGATTCGGGACGCCTCTGTGTTTTCATTTCAAAAGAGATATAACCCAGACAAGCACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:26
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=PD(4.6=27.0)
A:
NA
C2:
PF0078719=PX=PU(17.9=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACACAATCAGGTTTACCCGA
R:
ATAGTGCTTGTCTGGGTTATATCTCT
Band lengths:
318-1813
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]