BtaINT0109216 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012945 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr7:63190542-63191702:-
Coord C1 exon
chr7:63191555-63191702
Coord A exon
chr7:63191148-63191554
Coord C2 exon
chr7:63190542-63191147
Length
407 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TCTTTCCTGTCTGATCACAGCAG
3' ss Score
6.76
Exon sequences
Seq C1 exon
GAATTCTCCCGTTTCCACGAGGAGATCACTCCCATGCTAGATGGGATTACCAACAACCGCAAGGAGTGGAAAGCGCTTGCTGATGAGTATGAGACCAAGATGAAGGGGCTGGAGGAGGAGAAGCAGAAACAGCAGGCAGCCAACCAAG
Seq A exon
GTTTGTGGAAGGGGGAGGATGGGGGGGTCCCAACCCCACACACACTGGGTGCTCACGACCACAGAGCCTTACACACGTAGGCCCATTCAGGCCACTCCACAACCCAATTGCCCCCATTCTACATATGAGAGCACAGAGGCGCGCAGAGGTGAAGTGTCGTGGTCAAATCACACCATTAGCAGTGGCACAGCCTGGTTCCCAAGATTGAGGGTCCCAGCAAAGGAGCCTCCCCTCTAATCCTCCCCAACTGCCCCTGACCAGAGTAGGACAAAGTCCAATAAGAAAGGGGTGGATGTAGGACCTCCAAAAGCCCTTGAGTTTGCAACTCCTGGTCCAAACAAGGTCAGAGGGAAAGCCCGCTGCAGCCTCCTCTCACCTGGTGTGTTGTCTTTCCTGTCTGATCACAG
Seq C2 exon
CAGCCGCAGGAAGTCAACACGGCGGAAAGCAACCTGGGGGCGGGCCTGCATCCAAGTCTTGCTGCGTCCAATAGCAGAGCGAGGACCCAGGGCCCAGGCCGGCCCCACCCTTCACCGACGAGAGCACCCAGGCCAGTGGGAAACCATACGCCACCTGCTCGAGAAGTCAGAGTTGTGGGGTTTGAAAACTGAAAGAGAATTTAGTTTACATCTTTCCTAGTGGCTTTCAAGCCTCTTTTTCAGCTGTGAGAACTTTTTATTGAATGACAACCAACATTTTAGCTTTCACAGACTCAAACATTAGTGCCAGACTCACCTGCTTACCTAGAATCTTTTGTGTTCTTATACTTTCATTTTATAGTACACAAATATGCAATCATTCACAAAAGTAGAGAATTACACAATGAATTGACTCCTACCCATCATGCAGATTCTAACATCAGGATTTTTGCTGCATTTGCTTCATCTGTCCTTTTAGAGTTTTCTTTTTTTCTTAGCTGAAATATTTAAAAACAAATTCCAGGCATATCATTGACTCCTCCATTACGCATCTTTAAAGATGAATGGGTGTTTTCAAACATAATCACATCATGATCGCATGCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012945:ENSBTAT00000036662:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.917
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=38.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGCAGAAACAGCAGGCA
R:
GTAAGCAGGTGAGTCTGGCAC
Band lengths:
355-762
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]