RnoINT0108948 @ rn6
Intron Retention
Gene
ENSRNOG00000016593 | Pde6c
Description
phosphodiesterase 6C [Source:RGD Symbol;Acc:1309844]
Coordinates
chr1:256874826-256877810:+
Coord C1 exon
chr1:256874826-256874982
Coord A exon
chr1:256874983-256877748
Coord C2 exon
chr1:256877749-256877810
Length
2766 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGC
5' ss Score
5.61
3' ss Seq
TTTTTCTGGTCTTTCACTAGCTG
3' ss Score
8.48
Exon sequences
Seq C1 exon
GAGTTCTCTCGCTTTCACGGGGAGATCACCCCCATGCTGACCGGCCTTCAGAATAACAGAGTGGAATGGAAATCACTGGCGGAGGAGTATGAGGCGAAGGTGAAGGTGACTGAAGAGGAGGTGGGAAAGCAGGAAGAAGTTACCTCAGATGGAAAAG
Seq A exon
GTTAGCTGTGGATTCATCGGTTGGTATGTGTGCGTGTGGGGGCGGGCAGGGGGGTGTTGCTTGACAAAAACACAGACCGTACTAACAGGAAACTGCTTTGCTGATGCAAGCAGGTAAGGTAAGAAGTTTGTGGTTATCAGGGTTGTTTTGCTCCCCAGACAAGATCTTATGCATAATTCTGGGTGGTGTTAACTGTTCCAGACTGGTCCGCCTACAGCAGAGGCTACAACTGGACACTAGCGCCCCTCTCAAAGGAGGCTCTAGGGCTTCTCAATAAAACATAGGGCCAAGTGTCAGGAGTAGAGAACACAGTGCAAGTCTGACAGCCTCATCTGCTGTGACACTCTGGACAGCTTGTCTGGGAGTCTGGAAACTTTCTCTAGGTTATACAAGGGGTCTTACAGACTGACATTTTAAGGAAGTCCTACAGGTAAAGTTAAAGTTGGCCAACCACTTGGGGTAGCTTGAAGGAAACTCCAAGTCTCCCAAATACCTTCACTGGCTTGAAATTCCTACTCCTGCAGTCATTTCTGGGGTTTATTGCTGCTTTCAAAAAGCCTGTTAAAATGCTTACAGTGAATTATTTATTAGTTGTTCTACTGAGTGTTCATATTCACAGTGGGATGCTGGGCTGAGGCTGTAGTCAATGGTAGAATATTTCCTAGCATGTGCAAAAGCCCCAATTTTGATTCCCAGCATGTCAGAAAGCAGAATGCTAATTCGATGGTAGTGGTAGGTTGCTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACTGAGGTTGGGGCCTGAGGAGCTGTGCACCTTGCCATGTAAGATAGGTTTTGTAACTGGCCTGGAGCCAGCAAAGCTGGCTGGCTAGTCTCACACCTGTCTCTACCCTACAACCTGACACCTGAGTACTGGGACTTCAAGCATGTACCATCATGCCCAGCCATTTCACATGGATTCTGGGACTCAAATTTGGGTCCTTGTGCCTGAGTGGCAAGCTCTTTTCCTACTGAGCTATTTCCTCAGCCTGGGATGTTAATGTCCGTCTGCAAAGCTTGGCACCATAAGCAATTCCTATTGGCAAAGAAACCATCTATGTGTAGAAGGCCGTCAAAGACGAAGCCTCTATACAATTCTACCACATGGTCAGATTTTACTGTTCATCGGGGTTAGGAAAACCAAAGTTATGGAGGTCCCTCAACAGAATAAAGGCAGGACTGTCTGATGCCCCTGTGCCCACTCATTAAAGCATTCGAGGGTGTGTTCCTACAGCTCCGTGTCAGACAGGCCTTGGGGAAAGACAGGGACCTTCTCTCCAAGCTCTTAACCTCTGAAGGGAGAGCTGGGCATTAAGTAACCAATACAAAACCCAGTAGTGAGCCTTGGCGTGTGCGTGGGGTATGTACTAGGAAGGCTCCCCAGAAAACAGGGTGTCTCTGCTAAGGTCTGAAGAAACTAAGTCCCAACTCACGCAAAGGAGCAGAGGTGGGTGAAGAAAACGATAGGATACGCAAAATAGCTACTGAAGCGGGAGTAAGCTGGGTGTGGCAGAATAATTGAAAAGTATGTCCATGTGTAGTCAAGAGGGGACAGAAACCGAAGTACCAGATGAAGCTGGTAGTGTGGGTGTCTGGCCAACAGCACGCAGACTGCAGCCAATGCATTACAGTCAATGAGGGGTCAGCGAGGGGAGGTGTGACTTGCACCCGGGGGACACGGGAGAAGGGATTTTGATTAATGTTATGCTGTCTTACACATGAGAATGGGAGTCCATAGGGAGATATTTCTTAGGACTAGGAAATTTGGTGACACTGACACCTTTTCCAAGTGACTCCTGACGTTTACGTATTAAGTTTATTGGAGGCAGGCCTTCATTCTTTAATACAGTATTTTTTATCAATCCTTTGAGAATTTCATGCATGGACACCATTTACTGTGACTATTTTGATTCCAACGTCTCCCCTAATTCCCCCCCAGATTGCACACGGGTCCTCTGTGCTTCATCTGCATACATTTACTTCTAATTTTTGTCCATTACTTGGAGAATTCATTAGGAATTAAGAGCACTGTGCTAGCCGTAGGCTTCAGGGCTCATGCGTCTGGCTCCGATTCTAGCTTGTTTAATCTTGCTGAGGCGGACGCCGAGATGGTTTTTTGAGTGTGTAACTGCTAAGCAAATGTACCTTTATTTTGTATTTGAGACAGAGTCTCGCTATGGAGCCTTGGCTAGCCAGACAGAGATCTGCCTGACTCTGCCTTCTGACTGCTGGGATTACAGGGGTGTCCACAGCCGGCTTTCTTTCTTCCTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAAAGGCTCACCATGTAGCTTTACTGTCCTGGAATCCACTATGGCCTCAAACTAACAGAGGCCTCTGCCTCCCATGTGCTGGGATTAAAGACGTGTGTCACCACACCTGGATCTTGAATTTTATTTTTCAAATTTTTCCCAATGTCTGTGTATGAGGAGTACCCTGCCTGCATGTGTATGTGCACCATGTGTGTGCCTGGGGCACAAAGAGGGCAGAAGAGGGCATCAGATCCCTTGGAACTGGAGTCACACTTTTAAGGGAGCCCATTGTGAGTAAATGATTGTTAAACAGTCAAACCTTTGGAGTTGTTCGAAGCAACTGTTGTTACAGCTGTGACACAAATACCATGGGGATGTAATAGTACAAGCCCTGTGTCACGCTGACTCCTGATAATGCTTTTTTCTGGTCTTTCACTAG
Seq C2 exon
CTGCCACAGATTTAGGAAGCAGCACAGATGACAAAAAGTCCAAAACGTGCTTAATGTTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016593:ENSRNOT00000022317:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=35.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]