RnoINT0108927 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2328750-2329768:-
Coord C1 exon
chr14:2329612-2329768
Coord A exon
chr14:2328983-2329611
Coord C2 exon
chr14:2328750-2328982
Length
629 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
CACTCTATCTTCTTTTGCAGCGG
3' ss Score
11
Exon sequences
Seq C1 exon
GAATTTTCTCGATTTCACGAAGAGATCCTGCCCATGTTTGACCGACTGCAAAATAACAGAAAGGAGTGGAAAGCTCTAGCTGATGAGTATGAGGCCAAAGTCAAGGCACTGGAGGAAGAGAAGAAGAAGGAAGAAGACAGAGTAGCAGCCAAGAAAG
Seq A exon
GTCTGGGCCCCTCAGAGAACCGGGATGGGCTCATAGTTAAGCCCTAAGTCAATGCTGTGAGATGGCAGAGAAACACCAAGCAAGCAGCAAGGCAGCTAATTTGCATAGCACAACAGCTGAGACAGGCTCTGGAGCCAAGGGATGCTCCATCCATCCATGCTATTCCTTGTGGAGCATATCTCATATCCCCCAGCTACCCTGAGAAACGAGAGAAAACCTGAATCAAACAACAAAAAGGCAAAAAACAAAAAAAAAAACAAAACAAAAAAAAAAACCCAAAACCCACAGTGAGCTAAGAGTTAAGGAGGCTCAATGCTTACCTTGTATCGTGCGAGTCAGTTGAACAAGCCAATGCACCCCAGATCAGAAGCCCAGTGACACTGTCTTATCTTTTCCAGGGTTTGTTTACCCTGGACCTGGGGTTCTCCAGGGCCAGCTTCTGGGTCACGGGAGGTCAGGACTGAAAGTAATCAGGGCATAGTGACCGAAGGGGCTCAAGGGCTAAGCAAGGCTCAGTGTAATCGGCTTAGGTTGGCTACAGATCTAGTTCAGCCCCTGCAGGGAAACCTGCAGGGGTAGAGGGCACTGGGTGTAGAAGACAAGGCCTCACACTCTATCTTCTTTTGCAG
Seq C2 exon
CGGGCACAGAAATTTGCAATGGTGGTCCAGCACCCAAGTCCTCGACCTGCTGTATTCTATAAGCTCTATCTCATGGCTTTGTGTCCCTCCTGCCACTCACCCACTGGGTATGGACTCTGCCTATAGCAGTTTGGTGTAAGATATTAGGAACAGGGGGGAGAAAAAGATCAAACTTTGGATGTTTTGAAACTTTAAAGGTGTTTTTACAAATTAAAACCAACTATGAATAAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.100
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACGAAGAGATCCTGCCCAT
R:
ACACCTTTAAAGTTTCAAAACATCCA
Band lengths:
344-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]