BtaINT0111105 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000033 | PHOSPHO1
Description
phosphatase, orphan 1 [Source:HGNC Symbol;Acc:HGNC:16815]
Coordinates
chr19:37979882-37981847:+
Coord C1 exon
chr19:37979882-37979980
Coord A exon
chr19:37979981-37981736
Coord C2 exon
chr19:37981737-37981847
Length
1756 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GGACCTTGTATGGTTGTCAGGAG
3' ss Score
1.96
Exon sequences
Seq C1 exon
CCTGCTGGAAAAGCTCAGAGGTCCTGTCCCCCTTTCCTCTGAGGGACTGTATTTGGTGACCACAAGAGGATTCAATCACTCAGGAGAAAGTTTCCAGAG
Seq A exon
GTGAGTGACCTCTCTGAATGTCCCAAGAGCCAGATTTCAGCGGGGCCTGGGGTGAATCTGACTACTGTGGGGTAGGGGTGGGTGTTGCAGCATGGCCTTCTCAATTTCGACGGGAAGACCTCTAGGGACTAAAACAAGGGCAACTCACCAACAATAAACGTTTATCTAATTTCCCTGAATCTAGTATTAGATGAAAAGAACTTAACTTTTGCTGAGAAGTTTTGAACATGATTAAAAACAAGTAGACTATTCCACCAAATTAAAAAAAAAAAGAATCAAGGGCAAAGAAATGAAATCTGGTCTCTGGGTGATTCCTGGAGACCCTTTTATCTTCATATCTGCCTGGCATGTGTCTGTCCATGTTTGCTTTTACAAGGGGTGTGGCATCCTTTGACCTTTCCTCTTTGGACTCACCTGTCCCCTGGGGGACATGTGATATCAGCCGGGATTCTGGAAGGCTAAAAGTCCATCTAGATGGGACCTGGGACAGCCCTCCCACCTCTAACCCCCCAAACATGCCCTTCCTTTACCTCACATGCCTCCCTCCCCTTCTCTCCCATATTTTTGACTTGTGTCTCCTCTCTCAATCCCTTCCCTCTTTTTGCCCACTGCCCCATTCAGCTTTGTCCACAACTAGATTCCTAGACTACAAATTCTTAGGGAAAAGGCTGAAATCCACATTGCATGTGTAGCCAGGGAGTGGGGACAGATGGGATACCTCAAGATGGAGGGAGCCCTTCCTCTGACTGGACCCCTGCTCCTGCGAAGTCCCTGTCTCTTTCTTGAGAAACTGTTGCTTCTCCTTGCTGTCCTGGGATGGTCTGGGGAGAGTCACCTTGACAAAGTCAGAGGGGTACCCAGTGTCACCCACTCTCACCACCAGAGGGCAGCAGCCAGCCAGCCCTTTGCTCCTTCCCCTGTCTAGTCTCCTGGCTCGCAGTAGCGGTCCAGATGTGTCCCAGCTGCATATAGTCTCTCATTTAAACCCAGGGTGGAGGGGAGCAGCTGGGACTTGTAGGTTTGAAGCAGCATTGGTGTAGGCCCATTAAGCCAAATCCTGTCCCCAAAGTCACATAGCAAAATCTGGCAGAAATTTCAACCTGACTTCTGGCGGACTGCCAGTCTCTAGAAACACCAGGGAGTGAGACAGTCCTAGATCACCTGTGGTACCCAGGGGTCCTAGCCCTCCAGCTTCAGTGGATGCCCAGCCCTGGGCATCTGCGTCTTCCCTTTTGAGGACAGAGGGCAGGCAAGGGTGTGGCCAGGACTTCACAAACCAGGCTTTGCCCCAAGGAAACATCGTAGCCTTGGGCAAGTTATTTAATCTCTGAGTCCTTTTCATCTGCTGAATCCATGGAATTGTGATGAGCAAGGACAGAATATGAATGAAGCTGATTTGTAAAACATGAGGTACCATACACAAGAAAGGGGCAATGAACATATAGAGAAAAAAACACTGGTCTCAGACTCTGAGATCTGGTTTTGAGATCTGTCTCTGCCATATATAGTGGGTGATGTTTGCACAAGTTGGTTATCCTTTCTAGGTCTTCAATAATATCTGTAACCTCTCCAGGATCATGAGGGATTGTTAAGAGGATGCCTAGCAAGGGCCCTGTGGTCCTTAGCTTATTTGATGGGCTGTTTTTACTGAGTGGTTCCTGAGGCTCGGGAGAGGGGATAGGATCAGGTGGATGTTGGTGGTAGAAACACTACCACCTGACCAGGCACCCTCACACGGACCTTGTATGGTTGTCAG
Seq C2 exon
GAGCCCTGGACCGACGGCTGGAGGCCAACAATCCCTACAGGTGGTGCTCGGGGTGATGTACTGACAATGAGCGGGTGTTTTCCAGTTGCTGGCCTCCGATGCCTGTCTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000033:ENSBTAT00000000037:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAAAAGCTCAGAGGTCCTG
R:
CCTAGACAGGCATCGGAGGC
Band lengths:
206-1962
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development