RnoINT0110189 @ rn6
Intron Retention
Gene
ENSRNOG00000002949 | Pgs1
Description
phosphatidylglycerophosphate synthase 1 [Source:RGD Symbol;Acc:1305052]
Coordinates
chr10:107010495-107011258:+
Coord C1 exon
chr10:107010495-107010684
Coord A exon
chr10:107010685-107011079
Coord C2 exon
chr10:107011080-107011258
Length
395 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CTGATTCTTCTTCTTTCTAGTGC
3' ss Score
8.73
Exon sequences
Seq C1 exon
GTAGGAAGAACTCTCGCACTATGCTGCTCCCACTCCTGCAGAGGTTTCCAGAGCACGTGCGCGTTTCCCTCTTCCATACGCCAAACCTCCGAGGACTCCTCCGACTCCTTATCCCTGAGCGCTTCAATGAGACCATCGGCCTCCAGCACATCAAGGTGTACCTCTTTGACAACAACGTCATCTTGAGTGG
Seq A exon
GTGAGCACTCTGTCTGGTGTTCTCTAGCTGTGGGAGTCTAGCTCAAGGAGCAAGGCCAGTCTGCCCCCTAAGTCCTTGGAGCAGCTGCTGGGCTGGCTGTAGATGGCCAGTTCACCTTTTCTGCAGCTCCTCCTCTCAAAGGCTGATTGCAAGACCACCAGCCACCGTTTAGTACTGGCACTGACTGCTGTACTGAGCCTCTGCACCATTTCTCTGAATCTCTGTTCCTCCTGCTACTCTGTGTGATCCTGGCTAGTGTCCTGCACATGCTCAGTGGTAGCTCTGGTTTCATCCTGTCACGGGATTGTCATTCCTCATCCTCCTAACCCTGAGGCTTGGCTCATGAGGCCACGCAGGTCTTGGCTGCGTCTTCATCTGATTCTTCTTCTTTCTAG
Seq C2 exon
TGCAAACCTGAGTGACTCGTACTTCACCAACCGCCAGGACCGCTATGTGTTCTTGCAAGACTGCGCTGAGATCGCAGACTTCTTCACGGAGCTGGTGGATGCTGTGGGGGATGTGTCCTTGCAGTTGCAGGGTGATGACACAGTGGAGGTGGTGGATGGGATGGTGCACCCTTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002949:ENSRNOT00000004007:5
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(39.4=100)
A:
NA
C2:
PF130911=PLDc_2=PD(21.9=57.4)
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:
AACTCTCGCACTATGCTGCTC
R:
GTAAGGGTGCACCATCCCATC
Band lengths:
357-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]