HsaINT0122187 @ hg19
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:8787]
Coordinates
chr10:95395254-95396820:+
Coord C1 exon
chr10:95395254-95395397
Coord A exon
chr10:95395398-95396751
Coord C2 exon
chr10:95396752-95396820
Length
1354 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CAATTGCTTTTACATTTTAGAAA
3' ss Score
6.37
Exon sequences
Seq C1 exon
ACTCTCACACAATTTCTTGGATGGTCTCTTTTAAATACTGACACCTACGATAAGATGAATAAGCTAGAAAACAGAAAGGACATTGCTCAGGAAATGCTCATGAACCAAACCAAAGCCACTCCTGAAGAAATTAAGTCCATTTTG
Seq A exon
GTAAGTGGGAAATTCAGTCCTGTGGACATAAGATGTTACCTAACCACATATTCTAGAAGTCATCTAATTACCCAGGGGTCTGACAAATGCAAATGGTTTACTCCTGGGCTGAGAGAGAGAGACAGGGAAGGAGGGGTTGGAAGAAGACATGGATGGCCCAGTGTACAGAGACCCTTACTGGAAGTACAGCTGCTTGGCTGGAATAGCACTTTGTTCAAAACAGCCCTGGGGCTATGGGAGCTATAGCAAGAAAAAAATATATATATTTTAGGAAGGGAAATGTATCAGTCAGCTATTGTCATATAATGCTGCATAACAACAACCCTAACGCCTCAGTGTCATGCAGTAATGAACCTCTATCTCTCACTCACATTTGTGGGTTGACCAGGCTTTGATTGACAGTGGCTGGACTTGGCTCCAAGCTATGAATTTGGTTTGCTCTATGTGTCTCTCATCCTTCTTGGACCAGGAGCTACCTGATAGATGTCCTTCTCACAAAGATGACAGAAGTGCAAGAGAGCAAACCTAACTGTGCAGGCATACTTCAGGTTTTTGCTCACATCACATTCACCAAAATGCTCATTGGCCAAAGAAAGCCACATCACGAAGACCAACCTTATAGATGATGGGGGAGCAAGTGGATATTTGCTAACCATGTTCTAATCACCACAAAATGAAGGGAAAATATCATGTGCCCACCATCTCTATTTCTTTTATTTCCCTGGCTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTTTTGCTGGAGTGGGTTGGTTTTGGTGAGCATGTTGGTTTTTGGTTTTGCCGAGTGGTTTGAGTGTAATTCAGTTTGATAGTTTGAGATGTTAAAGATGAGAAGATCTGGGGGTAATAAAAGGAACTGTGATAAGCTAATACAAAAATAAATGTAAGCCACTCATTTTTTCTTTCCTACATGCAAACAACCCACACCTCTTTAAAAAAACCAGCTACTGTAATCATTTTGGGGGAATTTTAAAAATCAAATATATTAGATTATTTCTTGAAAAAAGTCTTCATAATCAGGTGCTATAGGTCTTTGTATCCATGACAAAGAATGCATCTTTGCCATGGAACTCATTGTAGTATATTTTATTTATTTACTTATTTTTAGAGATGGGGTCTCACTCTCTCACCTAGGCTGGATTACAGTGGTGCCATCATAGCTCACTGCATCTTCCAACTCCTGGGCTCCAGGGATCTTCCCGCCTCTTCCTCCCACATATTTTAAATATATCTTAACTAAGATTGTAATAGTAGAGGAATCAGATGGAAATCTTCTCCTTTAGGAATTTCACACCTCAATTGCTTTTACATTTTAG
Seq C2 exon
AAATTTCAAGAGAAGTTAAATGTTGATGTAATTGACGACTGTGAAGAAAAACAACTTGTTGCAATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095464-PDE6C:NM_006204:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0159021=GAF=PD(5.1=18.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTCACACAATTTCTTGGATGGT
R:
TGCAACAAGTTGTTTTTCTTCACAGT
Band lengths:
207-1561
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)