BtaINT0109221 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012945 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr7:63227275-63232770:-
Coord C1 exon
chr7:63232704-63232770
Coord A exon
chr7:63227323-63232703
Coord C2 exon
chr7:63227275-63227322
Length
5381 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCCTCTCCATGGCTTTCAGATT
3' ss Score
8.36
Exon sequences
Seq C1 exon
GAATCCTCCTCCAGACCACTGGGCTTTAGTGAGCGGTCTCCCCACTTATGTTGCCCAAAATGGCCTG
Seq A exon
GTAAGTAATATAACATTGAAGGGGGAGAGTTTTGAATCAGTTTTTGAATCATTCTTCTTAATGTTGAAGAGTGAAGGGATTTCAGATCAAGAGAGTGGGAAAAACTACGGGAAGCATGGATCTCTCAAAGCCTGATTCTCTTGTTTCTCAACTCACCTGATGGCTGGTCCAAGGGGATGTGCAGAGAATTGACATTTGAATAAACATGAGACAGAGAGTGTAAATCTCCCTGACAACCAAAGATACTTATGCAAATATCAGGGATAATGTCATGACTGGCTGGTCCACGAGGCTCACCACAGAGCAAGACCCAGCCTCTTATCCCAGAGACCTGGTTGCCCCTCCCAAGCTCCCATCCCTACCACATTTCTAACCACACAGTGGAGCTCAAATGCTGTCTCCCACATGCCCTACCCACAGGGTCCAGGGTAGCGTGACAGCATCCCCTGCCCTCGAGAGAAGGGCCATGGGTATTAGCAGCACATCACCCCTGAATCTGAGGCCACTCATAAAGATACAGAGGTATCTTTTCCCAGGCACACAGTACACAGTGCTGTTCATGTATCAGGGTGTTTATTTATTGGGCATTCTCTATGTGCCAGGTGCTGTGGTTGGCTGTGGGGATACAAAGATAGATGAATCAAATACTTGCTGTCCTGAAGCTCGTCATCAAATGGGAGACATCTTTATGAACAGATATTTATATTATAATGCAATAGGGTCACAATAAAGATGTACATGGTATATTCTAGGAATACAAAGCGGGGTGGGGGGGCATCTAAACCAGCCTTTACTTTCCACGGTGTTTTGGTATGAGTTGAGTTTTAAAATAAATAGGGGTAAGGCAGGTAGGGACCAGGAAGCAACATGGTGGAGAAAACAACACGGGCCAACAACTCGAGCTTGGAGGTTGGGAGCAACATGGTGTGTGCAGTTTGGAGTAGCTGGAGTGTTAGGTTTGAGACAGGAAGATGGCGAGAGATGAGGCTTGAGAGGGAAAAAGGGAGGGGCCAGACCACAGCAGCTTGGATGCTAGATCAAGAGGGTGGAACTTTAATCCACAGGTGACAGGTTTTTAAGTAAGAGGTTGACACAATAAATTTCATTTTAGAAAGAAAATTCTGAAAGCTCCCTGGAAAATAGGCCTGAAGAGACTTAAGATTGGAAGCAGAGAGAAAAGTATGTCATCACAAACAAGAGATGATGAACATCTCAACAAAGGCAGAGGCAGTAAAGAACACTAAACAGCCACAGAGTGCTGATGATAAGCCAGGCAGTAAATACATTTGGTCATTTAATACTCACGACTCAAACAAAGACGAGGTGGAGAGAGGAGGATCAGAACTCAATCTAACAGTGAGAGGGCTTCGTGACTGACTGTGAGCAGAGAGACAGGGAGAGAAGAGTCAAAGCCAACTTCAGATGTCTAGACTGGATGGATAATGCTGCCTCCAGGTTTGGATGTTACCTGCTGAGATCAGTTTCAGGTAAGGTGTGACAGAGACTTTTTTCAAGAGTAGGTGTCCAGCAAGTAGCTAAACAGATGACGCTGCCACTGTGGAGGTAAATAAGGGATGAAGTTGGAGATTCGTGTCCACAAGAGGTAGAGATTCATACTGACTACAATGCAGAAGATATTATAGTATAGAAAATATTATAATCCTTGACCATTTTGCTCCTAGTAGCAGATGGTACTTGAAACCATGAGTGTGGATAAAGTTACCAAGGAGAGGAACTCAATTAGGATATTGGAGGATGCCAACATTTAAAGATTGGGTGGCGGAAGAAGAGTGTGTGAAGATTCATTTTGATATTTGGCAAAACTAATACAATTATGTAAAGTTTAAAAATAAAATAAAATTAATTTAAAAAATTTAAAAAAAAAAAAAAAAGGAAAAAGGAAAATTGGTAGAAGGGTTCAGAAGTGTCTGGAGACCCAGGAGTGGGTAGTGTCATGGAAACCAAGGGAGTGGAAAATTTCAATAAAGAGAGAGAATACCAAATGCAACAAAAGTGATCCAGTGAGATAAGAACTGAAAATCCCCACTGGGTTTGGCAATTAGGTGGTCACTGATGTCCCTAATGAGAACAGGCTTGGTGGTAAGGTGGCGGGATAGGGGAGTGGGGACAGAAACCAGCAGGCAGTCTTCTGAGGTGTGGGTGGGTAATGAGAAGGTAGAAAATGCAAGAGAAGAAAGAGAAAACCTGGATGGTTACTACTGGGTAGGCCAAAAAGTTCATTTGGGTTTTCTGCAACATCTTATGGAAAAATCTGAACAGTAGCCCCATGGGCAGGGCTCTGGAGGGATCAGATAAGTATCACTGGTGCAGTAGAGTAAACTGGCCTAGTTGTCAGGAGAGAGATTTTGCAACATGCAACCAGAGCTACAGCACTTTTTATTTCTTCATCTGCTGTGACATTTATACCACAAGGAAAAACTCTTGCCTGGCAAAACAAATATAATCATTTCAAAGATGTTTATTTATAGCATTATTTATATTAATTTTTAAAAACACATAGTTTTGTTCAGGACATAATCCAATCCTGAACAAAAAGGGGAAAGAAAATGGGACACCTTACTATGAAACTACAGTAACCAAAACAGTATGGTGTCAGTACAAAGACAGACTTACAGATCAATGGAACAGGATAAAAAATGCAGAAATACACCCACGAGCTATGGCCAATTAATCTACGACAAAGAAAGCAAAAATATACAATGGAGAAAAGACAGTCTCTTCAATAAGTGGTGCTGGGAAACTGGACAGCTATGTGTAAAAGAGTGATATTAGAACATTCTCTGACACCATGTGCAAAAATAAACTCAAAATGAATTAAAGATCTAAATGTAGGACCAAACTCTATAAAACTCCCAGAGGAAAACAGAGGCAGAACACTCTCTGACATAAATCACACCAATATCTTTTTAGATCCACCTCCTAGAGAAATGCAAATAAAAGCAAAAATAAATAAATGAGACCTATTTAAACTTAAAAGCTTTTGTGTAGCTATCAGATCACATCAGTCGCTCAGTCGTGTCCAGCTCTTTACAACCCCATGAATTGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCGGAGTTCATCAGACTCACGTCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTCCAATGAGTCAACTCTTCACATGAGGTGGCCAAAGTACTGGAGTTTCAGCTTTAGCATCATTCCTTCCAAAGAAATCCCAGGGCTGATCTCCTTCAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCATCACCACAGTTCAAAAGCATCAATTCTTCAGCGCTCAGCCTTCTTCACAGTCCAACTCTCACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAGACGGACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTCAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCCAGGAGTAAGCATCTTTTAATTTCATGGCTGCAGTCACCCCACTCCAGTACTCTTCCCTGGAAAATCCCATGGACGGAGGAGCCTGGTAGGCTGCAGTCCACGGGGTTGCTAGGAGTCGGACACGACTGAGCGACTTCACTTGCACTTTTCACTTTCATGCATTGGAGGAGGAAATGGCAAGCCACTCCAGTGTCCTTGCCTGGAGAATCCCAGGGACAGGGGAGCCTGGTGGGCTGCCATCTCTGGGGTCGCAGAGAGTCAGACATGACTGAAGCGACTTAGCAGCAGCAGCAGCAGCAGCAGCAGCAGTCACCATCTGCAGTGATTTTGGAGCCCAGAAAAATAAAATCTGACACTGTTTCCACTGTTTCCCCATCTATTTCCCATGAAGTGATGGGACCGGATGCCATGATCTTCGTTTTCTGAATGTTGAGCTTTAAGCCAACTTTTTCACTCTCCACTTTCACTTTCATCAAGAGGCTTTTTATTTCCTCTTCACTTTCTGCCATAAGGTGGTGTCATCTGCATATCTGAGGTGATTGATATTTCTCCCGGCAATCTTGATTCCAGCTTGTGTTTCTTCCAGTCCAGCGTTTCTCATGATGTACTCTGCATATAAGTTAAATAAACAGGGTGACAATATACAGCCTTGACGAACTCCTTTTCCTATTTGGAACCAGTCTGCTGTTCCATGTCCAGTTCTAACTGTTGCTTCCTGACCTGTGTACAAATTTCTCAAGAGGCAGATCAGGTGGTCTGGTATTCCCATCTCTTTCAGAATTTTCCACAGTTTATTGTGATTCATACAGTCAAAGGCTTTGGCATAGTCAATAAAGCAGAAATAGATGCTTTTCTGGAAAAGTAACCACAAACAGAACAAAAAGACAACTCACAGAATGGAGAAAATATTTGCAAAGTAACCAACAAAGGATTAATCTCCAAAATTTACAGAAAGTTCATACAGATCTCTACCCCCCCAAAAAAGGAAAATGCAATCAAAAACTCGGCAGAAGATTCTAAATAGGTATTTCTCCAAACAAAGCATACAGACGGCCAAAAACATATGCTCAACATGACTAATTATTGGATAAATGCAAATCAAAACTACAATGAGGTTATCACCTCACACTGGTCAGTACGGCCATCATCAAAAAGTCTACAAACAATAAATTATATTCCACATGTAAGTGATTGTATGTGATATCTACAAAGCACATGCTATCAGGTATGTATGGAGTCTAAAGAAAGGGACACAAATGAACTTACACACAAAACAGAAACAGAGTCACAGGCTTAGAAAACAAACTTACTGTTACCTAAAGGGGAAAGGTAGTGGCGGGGGAGGGATAAATTCGGAGGTTCAGATTAGTATATATACTCTACTATATATAAAATAGATAATCAACAATGATCTACTGCATAGCACAGGGAACTCTACACATACTCCATAAAAACCTATACGGGAAAAGCATCTGAAAAAGAACAGGTCTATGGATACATAAAACTGAAAAAATGAAATACGAAAAAAAAGTTAATGTAAAAAAAGAAAATGGGACACTATACAGCTTCTAAAAATGACAAATTGTAGCCTTAACTTTCTCAAAGTTTAGAAATGACTCAGAAGTAAGGCAAATGGTAAGAAGTCATGTTTATACGGCAGCTTTCCTGTTCAGTAACCTCAGTTAATAATTCAAAACCATCATGAGCATGTCTACCTAACAAAAAGAATGTGAGTGCCGTGGGGCAAGGATGTGGTATTTTTGAAAATAGCATGCCCAGTGTCCTTGAAGTGTACTCTATCAAGGCTAATTAAAACCCCATCATTCCTCTCCATGGCTTTCAG
Seq C2 exon
ATTTGCAACATCATGAATGCGCCTTCAGAGGACTTTTTTGCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012945:ENSBTAT00000036662:7
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=0.000
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(12.4=100)
A:
NA
C2:
PF0159021=GAF=FE(8.4=100)
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:
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]