RnoINT0110187 @ rn6
Intron Retention
Gene
ENSRNOG00000002949 | Pgs1
Description
phosphatidylglycerophosphate synthase 1 [Source:RGD Symbol;Acc:1305052]
Coordinates
chr10:107008047-107009851:+
Coord C1 exon
chr10:107008047-107008124
Coord A exon
chr10:107008125-107009751
Coord C2 exon
chr10:107009752-107009851
Length
1627 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TGATTGTTTTTTCCTTGTAGGTG
3' ss Score
11.44
Exon sequences
Seq C1 exon
GGGCAGATAAAAATAGCCAAGAGGCGAGTTGTGATGGCATCCCTTTACTTGGGGACAGGACCTTTGGAACAGGAACTG
Seq A exon
GTAAGGCTTAGGGGCAGATGGTCCCAGCTGCAGCTGGATCCAGCTTCACAATGTTGCAGCTGACTCCACATGCCTTTCTGGCCTCTGGATGTAGGTGTGTCAGTGTGTGAAGACAGTGTAGGAGGCCCAGTTAGGTGCTAGTCAGCACCTCTCCTCCCCTTACAGGACTCCCTGGGCTGCTCTACTTGACCATAACCCAGGGACCACAGCAGGTCCACAGCCTGCTTTTTTTTTTTTTTTTTTTAATTTTTTTCCATAGATGGGCATTTAAAAAAAATAATTTATTATATATGAGTACACTGTAGCTGTCTTCAGACACACCAGAAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCGGGAAGAGCAGTCAATGCTCTTAACCACTGAGCCATCTCTCCAGCCCCCCACAGCCTGCTTTTGTGTAGTCTCAGAAGAATGGTGCCAGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTTGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAGAAAAAAAAAAAAAGAAAAAAAAAGAATGGCGCCTGCATTTTGAAGAGATTGGAAGAAAACTAAAGAGTTTGAGTTACATAAGGTGCATGATGTTTTACCTGTCAGTACAGCAGTAGTGGGCGTGGCCACATTCACCCTCCTGTGACGGCTGCACAACTGAGTCATCCTGACAGAGACCATCTCTGGCTCACAAAACCTAAAATATTTAATTCATGGCCTTTTCAGAAAAACATTTTCAGACTGTTCCCTAGGCAGAAGAACCCAAATGCAGTTAGAGCTGGCGGGCTACTGCTCGGTTTGCTGAGGCTGGCACTGGGGCCAGCCTTGTTCTGCCTGAGCTGACTGGCATGCCATAGCTGTCTCTTTTGGTAAGGAAGACAGGGCTGGGGGAACCAAAGCCACTTGATGTGTCCAAGGATGCTTGCTGGCTGTAGAGTGGCCCGTGGCAGGCAGGATGCACGTTGGGGCTTGTGAGTATGGCTTATCTGTCCTGCCTCTGGGCACTCTTTTTCTTGGAGGGATGGAAGGAATATGCCTGTGGTGATCGTTCTTCCTGGATTTACTGTGGAGCCTGGTGTATAGGAGCTGGGAAGGATGGAGGCACTGGTGTGTGGAGCGGGGTTAGGAGACTTGACTCGCTCCATGTCACCCTCTCTTTTCCAGTCATCTTGTCTGCTGCCAGTCAGGAAGCTTATCAGTCTCATGGGGGAGGGGTACAGTGTCCAAACCATAGGGGAAGGCCAGTGGGCAGGCTGCACCCTTCAGCAGACACTCACCTAGTACCTCCTGTAGGGGAGGAGGGCTCTGCTGTATCTGGAGAATGTTTGTGGAGATGTGACAGTCAGTGTTTTAGAGACCTGAGACCCAGGCGGTCAAGCACAGTATACCTCTGCCCTGCTGGCATCCAGGCTGGAGAGGGAGCGTGGTGGGAGCTGACAGTTTGTGTAGAGCGGTTCTCTCAAGTCTCTAGATAGGGGATTGAGCTGACTCATTCCTTAGGTGCACACACAGCCCTTTGGTCTCACATGTTCTTTTGATTGTTTTTTCCTTGTAG
Seq C2 exon
GTGGATTGTCTGGAAAGTTCTCTAGAAAAGTCACTACAAGCGAAGTTTCCTTCCGACCTCAAGGTCTCCATTCTCCTGGACTTCACCAGGGGCTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002949:ENSRNOT00000004007:3
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:
PF130911=PLDc_2=FE(15.6=100)
A:
NA
C2:
PF130911=PLDc_2=FE(20.6=100)
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:
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]