DreINT0016371 @ danRer10
Intron Retention
Gene
ENSDARG00000075857 | PGS1
Description
phosphatidylglycerophosphate synthase 1 [Source:HGNC Symbol;Acc:HGNC:30029]
Coordinates
chr12:34105770-34108528:-
Coord C1 exon
chr12:34108380-34108528
Coord A exon
chr12:34105932-34108379
Coord C2 exon
chr12:34105770-34105931
Length
2448 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGA
5' ss Score
5.59
3' ss Seq
GTGTTCTCTGTCTTGTTTAGGAG
3' ss Score
11.3
Exon sequences
Seq C1 exon
GTCTGTGGTATTATGTAGGAGGAAGAGACTGCCCCTGCCTCACCCTGATTGGCTCCCCAAATTTCGGCTATCGCTCTGTGCACAGGGATCTGGAGGCTCAGATCGCTATAGTAACAGAGAACGAGGAACTCCAAACGCAACTTCAACAG
Seq A exon
GTTGGATTTCCTCTTAAACTGTGTTTCTTGAAGTTTTGGCTCTTGTAACCTTTAAATCCCGAGATGTCATGTGACAGTTTAAATAGGTCATGGCATTTTTAGCATTCTTGTATCGTGATTATATAAACAGCGGAGAAAATAAGTCTTGAACACGTCACCGTTTTTCTCAGAAAACATATTTCTAAAGGCCATGAAAATTTCCCCAGATGTTGGGAACAGCCAAATAAATCCATATATACAAAGAAATCAAATCTAAATAGTTTACAAATGAAGTTATGCATAATAAAATGAAATGACGCAGGGAAAAAGTATTGAACACATGAAAAAAGGGAGGTGTAGAAAGGCAGTAAAAGCCCAGACAACAGCTAAAATCTCTTGGCAGTTCTTCAGCAACCCTCTGCCTCAATATTAGCTGCTTCAGTCCAACATCTACATTAGCAAGATGATGAAGATGAAGCCAAATTGGACATTTCATAAAGACAAAAACACAGCCAAAAGGAAAATCAAGCTGTAGATTGGCCCAACCAATCACCTGACTCGAATCCAAAATAGACCTTTTTCTTAGAATGCAAAATTACCCATTATGCTTTGCGTGGATGCGCAAGGAGAATGCTAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGCGTGTGCGTGCGTGCGTGCGTGCGTGCGTGTATGTGGGAAAACAGACACACTTTTTCTGATGTCAAACACGTAAACTAGGAGAACGTTTTTCTCTCGCGCTTGAACCATGTCTGACAGATTATAACAGCTTTACCACATACATTTCAAACATTCTACCGCTGGTTGCTATGGCGCCCTCTATGCAGCTGCCAAGAAAAAGGTCTACAAAATACAGATTAAAGCTCAGATTTGATAGATTTGTACTTTTTTTTTAAAAAAACTCACACCTGAGCAATAATTGTGACTTCATTGTCCATATGAGAGGTGTCTTTAAGCTGCCATCACCAAAAAAGTCCTTTTATAAGCCATTTTGAGAAATGTAAACAATAACAGTTGTCCTAACGAATTTCCTGTTTTACATTTTTATTTTCCATAGCTTCAGAGAATAAAAGAAAATACACTTATTGATAAGCTTATTTAATGGCAAGTTATTATTGAATTGCTTCTTGTTACACTTAGGAAATAGTTTAACAACAAGCAGGAAATGCTCATGGGCCAATCATCACATCGAAATGGTCTATAGAAAGTATTAATTACTTTTCAGTAGTTCAGTACTTTGTCCTTGAGTCATTTTATTGTAATTACACATAACTCATTTTTCAGATTTATTTTTTTTGTTTGTATTGTTTGGGTTTTTACCAAAATCTGATTGAATTCTATGTCAACAGCTCCTTTAGAAATATTAATCCCAGGAAAAAACATGACTTGTTCAATGCTTATTTTCGCCGCTGTATTCATTAGTATTATGTTCTTTAAATTCAATTCATATATTTAATAAGTTTTATAAAGTGGTGTATTAGTGCTCAAATTATAAACACTTTTCAAAATTGTTCAATTTGAATAACGAGACTTTCTGAAGGTTGCAGAAGTGAATGTGAAAATTCTGTTATCATTTACTCGTCGTTCATTTGTCACAAACCTGTTTGTGTGTCTTTCTTTTGGGGAACACAAATTAAGATATTTCGAAAAATGGTGCATAGTGCAAATGTATTGCATAGTATTTGTTTTTCCGGAGATTAATGTTTATGGTTACCGGTTTTCAACATTCTTCAAAATAACTTCTTTTGCTTTCCTCAGAAAAAAAATCAACTTAAAAAAAATTTGAAGCTATTGGGGGTAAGTATGAGTAAATGATGACAAAATATTCATTTTTAGAGTAAACTATCCCTTTAATAATTCACGTTGTGTACACTAATAAACAACAATCACAATATTAATAATATCACACACTTGTACCCTTGGTACTACTACTGTACTTTAGTATGATGTTTTTTCTGGTTTATAGCTGCACTGTAAACATCATCAAATGATTTGTTTTATTGCAGCCTAAACAAGGTATCATTAAACCATGAAGTCAAGTTTTTATCACTCTTACACTTTGATGAGCATTGCAATATGAGATTTTAGTATTTTCGGCATAAAGTTATTGTTTGTACAGCTTTTCACTCATACAGGATGGCAACAGATTCTCTTATCTTTCATGCCTTAAACTAAATTACATAAAAGATAGGACATAATCACTTGCCTTTACTGATAGATCTGGGAAGAGAGGCTATAATAAAGATTAATTAATTGTAAGCGTTATCAGTTTTTATAGTTTGTGAAGTGCAGGATTCCTGTAATCTTCACTTATCAGTTGCTAAAGATCGTTTTTACGAGAAAAACCCTGTGATTATGTAACGCTTGAGATTTGACACAGATAAAAGAAAAGTTGTGTTCTCTGTCTTGTTTAG
Seq C2 exon
GAGCAGGAGGTGTTATATCAGAGCTCAACGCAAGTGTCAAACTCCACTTTTAACCAGCCGGACCGCCATGTAAAGCTCTGGGTCAAACTGGTTACTCCACTCATCAAGAACTTCTTCTGAGTTCAACAGGCCTGATGTGATGGATATCACTGTCTGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075857:ENSDART00000109196:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130911=PLDc_2=FE(32.2=100)
A:
NA
C2:
PF130911=PLDc_2=PD(2.6=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]