RnoINT0108519 @ rn6
Intron Retention
Gene
ENSRNOG00000002517 | Pdc
Description
phosducin [Source:RGD Symbol;Acc:3277]
Coordinates
chr13:67555423-67558600:+
Coord C1 exon
chr13:67555423-67555574
Coord A exon
chr13:67555575-67557622
Coord C2 exon
chr13:67557623-67558600
Length
2048 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTCTTTCATGCGTTCTCAGATG
3' ss Score
10.3
Exon sequences
Seq C1 exon
GACCCAAAGGAGTAATAAATGACTGGAGAAAGTTTAAATTAGAAAGTGAAGATGGTGATTCAATTCCACCCAGCAAGAAGGAGATCCTCAGACAAATGTCCTCTCCTCAGAGCAGAGATGACAAAGACTCGAAAGAAAGAATGAGCAGAAAG
Seq A exon
GTAAGAGGAGGGAAGACTAATTATAAATTTTGTCTTTTCTAGTCTAAGTGACTCAAGAGAATCACATTAAAGCATTATGAAATGCTTTCCTTGTAGTATAAAGTGAATACAATGACTGAGGTATTCTGTACTAAGAAACACATAGGCATCAAAAAATGGATTATGAATATATGAACTGTTGTACAGGAAGTGTAGAAAAGTGAGAAAACAAAATATAGAACTTTAAATTATATGAACTATTCCATTCTTTAGGGCAACAAACGACACTGTTGTGTGCTTTGCTCCTGCATGATTATAGGCGAATCCATGTACAGAGAAGGAGAGACGTTCACTGGGTTGAGGATGTTAACAGATTAATAGAATAGGATTGCCTGGGAAAAGAGGGAAGGAGATAGGCAGAAGAAAAAACAACTTTGCGAGAGTTTTAGTTATCAATGTGTGTGTCTGTGTCATAAAGAGATAGAATCAAAGATCATCTCTAAAACATGTTGATGGAGATTATCAAATATTAAATTGGTAGAATATCAGTATTTTTATTTCCTTTAAAAATTTAGTTCATTTTTAAATCTCCATAAATAGCATAGAGATATTTATATGACAAGATTAATGGTGATAATAAAGGAAGCAATTAAGAGATTTTCATGTGTAGGGAATCACTCTAGTGATTATTCACCACCAAATCAGTTTATATTGGGAGTGTTCTGAGTTAAGAGACTATGAACGGAAATGTACCCTGGCCCATGGCTTCAGACCATGGTAGTGATAAAGATCAGTTTAAGGGTATGAGACGGAAGTTGGTTCTTTCTCTGAGTACTCATGTAGTGTGGATGAGACAATTACATTTTCCAAACTGAGGAATCCTAAGAATGACTTCATTTGTTTTAAGGAGATTATGAAGGGAAAAATAAATTTTAAAAGCATTTAAAAACAAAAATAGTATTAAACCCGAGTTGTTAGCTTTGAAGATTTTGTACTGGTTAAACTTCAGAAATGTGTCTGTATGCCTAAGTATCCATGCCTCCATGTATAAACAGAACAACTTCTGACAGGAATGCTCAGATGTGTCTCCAAACCACTATTCATGCGGCTTGGTTGCTTGAGCTAGCAAAACTACAATGGCAACTTAAGAATTACACAGAACATTTAATAATATTAGGACTGAAAGAGTGAAATTTAAATGATATTAACGTAGAGAAATTATTGTATAGGAAAGAGACCTTGGAATGATGGCACATGGTGGTACTTGGGAGGTTGAGGTAGGAGGACCTTTGAGGTCTAGTCTAGCGTGGGCTACAGAGCAAGACCATATCAAAAGAAAGAGAGATGAGACACAAAGGAACAAAGGAAGAAAAGAGGGTGAGAGGGTATATTGGCAGGGAAAAAGAATTGGGAAATTAAGATGCAGAAACAAGTAACATAAAACAGTCAGTCAAGAGTTCCAGGATGCCAGCTTCCAAGTTTCTGGGCTGCTCCACACCTTTGAGCAAGCCGCATGACACTAGACTGCATCACTCCTTTATGTCTATTTTTATCTTGGTTGAGAGTAAGAGGTGATTAATTGTCTATCGAATATATTAATAATGGAGTCCATATTATGAAAGGGTATTAAGGTAATTTGGTGTTCTAACCACAATAAAATGTAGCCCAGTGGTAAAGAATAACCCAGAGGACTTGTTAAAACACAGACAATTCAGCCTCACCCTTACAGGTTCTGAGTCAGCAAATCTGGGTAGTGCCCATACTCAGAAAAAAAAAATGCTGACACTGAACATTAATTAATTAATTAGTTAATCAAATATTTAACACAAGCTCCCACGGTACTTATTTCGATGAAAATAAAAACAGAATGAAGTGTAGGGTATGGGTCCTGGAAGTGGCCTTTGAGCCAGTGCTTAAACGAAAAGGTTGTGTTAGAAGCAGGTAAGGCGTGGTCTAAGCAGAGAGGTCAACAAGTAAAAGCTTCTAGACTTGAGATTGCGTTTGATGTACCTAAAGATGAAACTTTTCCTCACCGAATTATCTCTGTTATTTCTTTCATGCGTTCTCAG
Seq C2 exon
ATGAGCATTCAAGAATATGAACTAATTCATCAGGACAAAGAAGATGAAGGTTGCCTTCGCAAATACCGCAGACAGTGCATGCAGGATATGCATCAGAAGCTGAGCTTTGGGCCTAGGTATGGGTTTGTGTATGAGCTGGAAACAGGGGAGCAATTCCTGGAAACCATCGAAAAGGAGCAGAAGGTCACCACCATCGTGGTTAACATTTACGAGGATGGTGTCAGGGGCTGTGACGCACTCAACAGCAGTTTAGAATGCCTTGCAGCAGAATACCCAATGGTCAAGTTCTGTAAAATAAGAGCTTCGAATACTGGAGCTGGGGACCGCTTTTCCTCAGACGTACTCCCGACATTGCTCGTATACAAAGGTGGGGAGCTCATAAGCAATTTTATTAGTGTCGCTGAACAATTTGCCGAAGATTTTTTCGCTGCGGATGTGGAGTCTTTCCTAAATGAATATGGCTTACTACCAGAAAGAGAGATACATGACCTAGGGCAGACCAACACGGAAGATGAAGATATCGAGTAAGCACGCACGGTGCAGTATCTCGTGACTATCCTTTGCACAGTGAACATCGATGGTTTTTTTGGTAGTATCTATATTCCTTTAGCAAACACTAAATACAGTCAGGCCAACTCAAATTGGGGAGGGGACACTAAAATTATGTAAATAGCATTTTTAGTACTAATTATTCAAATTGAGATAATATTTTACTGCAAAAAATATTGTGGTTCTGAGCAAATAACTACTGAACAGAGGAGGTGGGTGATGTCAACATTAGGTCATTGTAAAAATCCCTTTCCAGTTCCGTGTTAGCTTTTTACTCCTCCTTTTCCCCTTGGCATTTATTTTTGGGCTTTTGAGGCTGAATGCTACTTATAAATTGGTTTGTATGATAAGAATAAAGTCCTATGAAGAAACAAATAGTCTGTCTAAAGTCTGCCGTGAGTCAAGGACTTAAAAACTTCATAAAGCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002517:ENSRNOT00000003405:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.843 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(20.3=100)
A:
NA
C2:
PF0211411=Phosducin=PD(70.7=98.9)
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]