HsaINT0121715 @ hg19
Intron Retention
Gene
ENSG00000116703 | PDC
Description
phosducin [Source:HGNC Symbol;Acc:8759]
Coordinates
chr1:186412715-186415709:-
Coord C1 exon
chr1:186415558-186415709
Coord A exon
chr1:186413639-186415557
Coord C2 exon
chr1:186412715-186413638
Length
1919 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TATCATTTCTTTATTCTCAGATG
3' ss Score
9.24
Exon sequences
Seq C1 exon
GACCCAAAGGAGTAATAAATGATTGGAGAAAGTTTAAATTAGAGAGTCAAGACAGTGATTCAATTCCACCTAGCAAGAAGGAGATTCTCAGGCAAATGTCTTCTCCTCAGAGTAGGAATGGCAAAGATTCAAAGGAACGAGTCAGCAGAAAG
Seq A exon
GTAAGATAATACAAAAAGCAGTAATAAATAATTTACAATGTGTTTTCTAATCTAAATCAATCTAGAGAATCACTTTAGACTATTACAAAATATATTCATTACAATATTGCTTACGCTGGCAAAAAAAAATGGAAATGAAGTGAACACCTATTGTGGCATTCTATACTAAGAACAGGTACAGTTATGAAAAGAATTCGTTACGAATACATGAGCTGACCTAGAGATAGTTTCACAATATGAGAAAGCAACATACAGAGAATTCCATCTGGGGAATTGTAACAAACCTGCTCCACTTGTTTTGAAAACATGTAAAGAAAAAATAAATGTAAAACTATTTTGAAACATGTAAAATACTACACAAATGTAACACATAATCACTATTAAAAATTTTATGCTAAGGTTAAACTTTGGAAATGTATCTGAATGCCTACATATCCATATGCCTGAATATGTGAATGAAACAAGTTTTCATATAAATGCTCAAATACATCTTCAAGTCAAATTTGTGTGGTTTGATCTGTTAAATTAACAGAACTATAGCAACAACTTAAAAATTATATGAAACATTGGAAATTTTTAGGATTAAAACTAAATTGGGACAATATTATTATTATTATTACTATTATCATTTTGAGACAGAGTCTCATTCTGTCACCCCAGCTGGAGTGCAGTGGCGCAATCTTGGCTCACTGCAACCCCTACCTCCTGGGTTCAAGCGATTCTCCTGCCACAGCCTCCCAAGTAGCTGGGACTACAGGCATGTGCCACCATTTTTTGTAGAGATGGAGTTTCACTATGTTGCCCAGTCTGTTCTCCTGGGCTCAAACAATCCACCTTCCTTGGCCTGCCAAAGTGCTGGGATTACAGGCATGAGCTCCCATACCCATCCCGGGACAGTAATCTTAAAACAGAAAAAAATATGATAAGGAAAAGAATGAGGACATTAGGGAAACAAATATAAGAAACAGAAGCAAAAGAAAGAAGTAATGAAAGCATCATAAACTTTTACTTAACTTAAATCTCAGTGTCTTCTGTAAAATGACACTAATAGTACCTACCTCAGAGGTTATCTGTAAGGATTAGATAACATAATCTACGTGAAGTACCCAACACCTGGTATGTTTTTCATAAACATTAGTTTCACGTGTTCTCAATTCTCCTCTACTTTAAAAATCCATGGTTCTGAGCTGCTCCACATCTATTAATCACACTATGCCCCATTGTTCCTTTATACCTTTTTTTCTTTTTTGGTTGGGGGAATAGGTGCTTAATATTCTGTTAAATACATTAATAATGGAGTAGCTATTATGGAAGGCCCTGCAGGTGACTTTTTATTCCAACTGCAATGAAAAGTAGCTATCTTAGAAAATGGAATTTGGGCCTTTTCTTACTTCAGCCCAAACTAGTGAATAATAATACCCTGGAGGGCTTGTTAAAATATGGATTACTTAGCCTCACTCTTATAGGTTCTAATTCAGTAAACCTAGGGTGGTGCCCAAATATTTGCATTTCCTAGAAGTTCCCAAGTGATGCTGATGCTGCTGGTCCAAAAATTAACCTCTTGGATGATCTGATGAACTCCAAATAGTAGGAAAAGCTGTCTTACTTGAATTTTTTGGATATTCAAAAAAATCAGTAAGTTATAAGATATAATAGTGTTTGTTGCTATAAAGAAAATAAACCAGCATAAAGATGGAGAGTGTGAGATGGGGACCTTTTTAGGTAAAGTAATCAAGGAAGGTGACATTTAAACAAAAGCTTCAATGAGGTGAAAGAGAAAGGCACATCAGGAGTGAAAGGTAGGTGGTCCAGGCAGAAAAAAAAGAGCAAAAGTACACTCCTTCGGTTGAGAATGGGCTTGGTATATCTAAGGAATAAAACTTCTGACTTAATAATTTCTATCATTTCTTTATTCTCAG
Seq C2 exon
ATGAGCATTCAAGAATATGAACTAATCCATAAAGAGAAAGAGGATGAAAACTGCCTTCGTAAATACCGTAGACAGTGTATGCAGGATATGCACCAGAAGCTGAGTTTTGGGCCTAGATATGGGTTTGTGTATGAGCTGGAAACTGGAAAGCAATTCCTAGAAACAATTGAAAAGGAACTGAAGATCACCACAATTGTTGTTCACATTTATGAAGATGGTATTAAGGGTTGTGATGCTCTAAACAGTAGTTTAACATGCCTTGCAGCAGAATACCCTATAGTTAAGTTTTGTAAAATAAAAGCTTCGAATACAGGTGCTGGGGACCGCTTTTCCTTAGATGTACTTCCTACACTGCTCATCTATAAAGGTGGGGAACTCATAAGCAATTTTATTAGTGTTGCTGAACAGTTTGCTGAAGAATTTTTTGCTGGGGATGTGGAGTCTTTCCTAAATGAATATGGGTTACTACCTGAAAGAGAGGTACATGTCCTAGAGCATACCAAAATAGAAGAAGAAGATGTTGAATGAAGATTCACTATGTCAATATCTCATGTTTATCCTTTAGGTATTGGATGATGGTTTTGGTAGTATCTATATTGCTTTAGTGAACACAGAGTATGGGCACGGCTATGCTAACTTGACAAAAATGACTGATGCAACAATCGAGTTATTAGCATTTCTTAGTATTAGTTACTCAAATTGATACAATGCTTGACTACAAAACAGAGCTGTCTTCAGCAACATTATTAGTAGACAAAGAGGATGTGGATAATATTATGACATTTTTCAAAAATCCCTTTCAAGTTATGTTTTGTCTTTTTTACTCCATTTTCCCTCATCACTGTTATTATTTGGACTTTTCAAATTACATTATTCATTATAATTTTCTTTGTGTAATAAAAATGAAATCTCATGAGAAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116703-PDC:NM_022576:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.819 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(20.3=100)
A:
NA
C2:
PF0211411=Phosducin=PD(70.7=98.9),PF141751=YaaC=WD(100=35.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAGGAACGAGTCAGCAGA
R:
TCCCCAGCACCTGTATTCGAA
Band lengths:
347-2266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)