BtaINT0109245 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:14979655-14980526:+
Coord C1 exon
chr26:14979655-14979804
Coord A exon
chr26:14979805-14980382
Coord C2 exon
chr26:14980383-14980526
Length
578 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCACATTTTATCAATTTCAGACT
3' ss Score
8.15
Exon sequences
Seq C1 exon
AAAGGACCTGTAGATGAAACTGGCTGGGTCATTAAAAATGTCTTGTCCCTGCCTATTGTCAACAAAAAGGAAGACATCGTGGGCGTAGCTACATTTTACAACAGGAAGGATGGAAAGCCTTTTGATGAATATGATGAGCACATCGCTGAG
Seq A exon
GTGAGTGCAATTATAAAATAATGGAGGGAGATGAAATTCATGAATAGAGGACGCATAATTGTTGTTCTGGAAAGATGTTTCCAAAGTGTAATTAAGATGTGAGTCACACACGCTTGCCATCAATATGTCATTATTGTGTCATTTGTTTCCTGATCTCCATAAAACTGCACTGTTTTCTACCAAAGTGTGAATGTTTGACTTAATCAAAATTCTTTCCAGTACTAGGAAATTGGGGAAAAGGTTTCTCTCTCTTTTTCTCCCCACTCCCTTTTTTCCCCCTCTCCTCCTTGCTGTCACCCCCAGCCCTCTCTGATTCAAGTCATTCTTTATCTGATTGGATTTGGGTCATCCTCTCCTCTAATAAAGTATCCATGGTGCATGAAGCACTTCGAAAACGAGGGCTTAGCCAATTTTATTGTCTGGTGCTGACTATTAGTATTTTTTTCTTGGATTAAAACAAGAAACTGGGTTTTTGATGGGGGAAGAGCCATTGCTGGATAGGAAAGCATGCAGACTGTTGCCTCCAAATCAATTTTCCTTTAATTTTAGAGAATTGAATCACATTTTATCAATTTCAG
Seq C2 exon
ACTCTCACACAGTTTCTTGGATGGTCTCTCTTAAATACTGACACCTATGAGAAAATGAATAAGCTGGAGAACAGAAAGGACATAGCCCAGGAAATGCTCATGAACCACACCAAGGCTACACCTGATGAGATCAAGTCTATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445:ENSBTAT00000000569:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(27.5=100)
A:
NA
C2:
PF0159021=GAF=PD(5.1=18.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGGACCTGTAGATGAAACTGGC
R:
ACTTGATCTCATCAGGTGTAGCC
Band lengths:
286-864
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]