RnoINT0108518 @ rn6
Intron Retention
Gene
ENSRNOG00000002517 | Pdc
Description
phosducin [Source:RGD Symbol;Acc:3277]
Coordinates
chr13:67552475-67555574:+
Coord C1 exon
chr13:67552475-67552559
Coord A exon
chr13:67552560-67555422
Coord C2 exon
chr13:67555423-67555574
Length
2863 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TGTTTAAAATTTTATTTCAGGAC
3' ss Score
9.01
Exon sequences
Seq C1 exon
ACTACACCGAACACAACCCATAAAATGGAAGAAGCCGCAAGCCAAAGCTTAGAGGAAGATTTTGAAGGACAGGCCACACACACAG
Seq A exon
GTAACTGAAGTACAGAGAAAACATAACTATTGAAGTAATATTAAATCTAGAAATATGTCCTGTTCTTACAGAGAAAATTACTGAGTTTAAGTAATATCTTCATCTAATCAGGAAGAATCATTTTAAAACATTTGACTAAATAAATTAGCTTAAAATGAAATGGCTCAAGATCAGTTATCTGTTAATTCAGTATCAAAGAGTTTTTAAAAAAAAAAACAATTGTTGATAATTTCCTGCTACCGTGGTATCATAAGACTCCTCTATCTACAATTTAATAAGGTCCGTTCTATTCTGCCAATCCTCCTGTCTGTGCCCACTAGAGCCATCCTTAGTACACTCTACATTAATATATATTAGTGATCAAAAGTAATACTTAATTTTAGCATTTTGAATGTGAAAAAAGCAAGAGTCTAATAAACAATGCTTGAATCAATCTGAACCCAGAATATATATCTAAAACATCATTTAATTAAGGAGCTATTCTTAACTTGTTGAATTGTATTTGGATATATATATATATATATATATATATATATATATATATATATATATCAAGAGCTAAGGTGTTAGGTACGATGACTTAAGTTTTACATTGAGAAGCCTTTTGACTTGGCAGAATCTATGTCACTCTTCCGTCCCATATCTGCAGGCATGGATTGGAACCTTTGAATTCAGTCACGGGTTTGAATGAATCCACACCAGTACTAGAATAAGTATATGGGAATCTATTTAATAACAGCTATGGTAAAAGCATCTTTCTAAGTATGAAACAATCAAAGAAATTGTAAGAGAAAAGATAGGTTGGGTGGCTGGAAGGAAGCAGGGGTTACAGGAGGAGGGACAGAGCGAAGGAAGTAAATGGAGGAAGAGAAGAAGCAGATGCACAGAAAAGGAAAGGGAAAGAAACAAAGGAAACACCCATTGTCTGGAAAAAGTTATCAGAAGAAAATATCAAGGGAAAAACTTAACATGCTTAGGAGAATCATGTACAATCCAATAGGCAACAAATTGAGAGTTTCTACAAATAATAAGAAACCAAACAGCAACCAAATACAATAGTGGATGTACTAGATACTTGGTATGCTTTTGTGTTACTGTGATAAAATATCCAGATATAAACAACTTAAGGGAGGTAGGGTTCATGTTTGCTCACAGTTCTAGGTACAATCCATTATGGCGGGGTCGTCAAGACCAGGCACTTGAGGCAACTGGTCCATTGTATCCACACACAAGAGGCAGAGCCAAAGGAATGGTAATGCTTTATCACCTTCCTCCAGGACCTCAGACCATGGAATGGTGACGCCCATAGTTAAGATTTGTCTTCCCACCTCAATTAACTCAACTAAAACCCTTACAGACATGCTTAGTGGCCTATCTCTTAAATGATTATAGATCATAGCAAATTGATGGTCAATATTAACCATCAGAGTGACCCAAAGATTTGCAGAGAAAAATAACCTAAAAAGAGACACAGACATAACTTTGAGAGATGCATTTTTCTTCCACAGTAGAAACCTGTAAGCTTAACACATCCTCTGAATGAAGCAATGGGAGGAGTGCAAAGTGGTTTGACCTCTGCAAAGGCAGTTGGTACCATCACCCCCCAGGAAGAGGCACATCCTTCAATGAGGCATTTTGCTTTTCACTTGACAGATAGGATAAAAATTGATTATAAGCTGCCTCATTCAACATCATATGTGATAGAAAAAAATGAGGAAACAATACGACCTATCAGTAATAACTAACTAGATTGTATGGACATTCATAATAATTTACTGTGCTCCATATTGAAAAGAAAAGGAAGAGGAAGGGATGATGACTCTTGGGGTGGAGAGGTGGCTCAGTGGTTAAGAGCACTTGCTGCTCTTCCCAAGGACAGTACAAAAATAAAAATAAAAATAAAAATAAATGTTGCCTGAAATAATAAAATCAGCTGTAAAGAGTGAGTCCTGGGCTCTCAGCAGGGACTGACTGGTTGTGTAATAACAGCTGCCACTTTAGTTTCATCAGCTGAACTCAGATGCTGTTTCCCACAGGTTGGGTTCGGTGCCATTGCTGGTGTTGCTCCTCCAGTAACTCCAGCCTCCTTTAACAACATAGAGCCCATGATCATCTACTACAAAAGCATCTTTCTTAGGTAGTGAGTGCTGGTTTTCTAAAGTTCTGGTTGCTTTTTTATATTCCAATTTTTAAATATTTTTACCTCTAAACCTTTGTGAATGGTTCAAAGCACATCATTTTTATTTTTACTTTTACAGATGTTTCAAAATGATTCTGTACCACAGTCTTGGCCATCTAATAAAGCTAATCTTGGAAATCATTTTTTATGAAGTCTGGAAAATAATATTTTAAGCCTAAACAACTGTTTTTGTTTCTGGTGCAGAGGATGACAAGTTTTCTCATGTCAACACTTACACAAATTTCAATTGTGTAAACAGTATTTTTAAAGATTCATATATATAATATATAAACATAAATTCATATACAATATGATATACAGTATGAGAAAGAATACACAAATGTAGAATACTATATTAATGAGAGACAAGACTAAGCTTTAGAATGGGTAGCTCTATTAATATAACATAATATTATATATATAGCATATAACATTAATAAAGTATAACATATATGAATATATATATATATGTTTATATACATAAATTCTACCCTCATGTATGCCTGCATGCCAGAAGAGGGCACCAGATCTCATTATAGGTGGTTGTGAGGCTCCATGAGGTTTCTGGGAATTGAACTGAGGACTTCTGAAAGAACAGCCAATTCCTCTGAGCCATCTCTCCGGCCTATGTAAGCAGTATTTTTGAGAATTTAGAGAAAAAAAATGTTTAAAATTTTATTTCAG
Seq C2 exon
GACCCAAAGGAGTAATAAATGACTGGAGAAAGTTTAAATTAGAAAGTGAAGATGGTGATTCAATTCCACCCAGCAAGAAGGAGATCCTCAGACAAATGTCCTCTCCTCAGAGCAGAGATGACAAAGACTCGAAAGAAAGAATGAGCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002517:ENSRNOT00000003405:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.843
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=PU(8.1=95.2)
A:
NA
C2:
PF0211411=Phosducin=FE(20.3=100)
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]