BtaINT0111107 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001092 | PHOSPHO2
Description
Bos taurus phosphatase, orphan 2 (PHOSPHO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001045965]
Coordinates
chr2:26665233-26665974:-
Coord C1 exon
chr2:26665770-26665974
Coord A exon
chr2:26665267-26665769
Coord C2 exon
chr2:26665233-26665266
Length
503 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GTTCTACTATTTTTCATCAGGTT
3' ss Score
8.54
Exon sequences
Seq C1 exon
CTCTTTTTCAGGCACCCGGACGAGGCAGGAGGACAGAGTACGCGGGAGCGGCGCCGAGTCTAGTATGGCTGCGGATCCCTGGCCTGGGTCAGTGAGGAGTCCTAGGGACCCGGCCGCGCTCGGCCTGGTGCTCCCATCGTCATCCTACCCCGCGGGAAACGACACCAAACTAGGTTCCAGCCCGTTTTCGGGATGTACCGGGCAG
Seq A exon
GTGTGTGGGAGAACGAGGCCTGGGCTTGACATGTGTGGCCCCCGGATCTTCTCACGGGAGTAAGGGCAAAGCCCCGCTCCATTAACTGTGGATACTCAAGAATTAATTGACAGAAAATCTATTTTTAAATACTTTGGTTTCTAAGGCATGGTCCGGGCTAGATGGGGCGTAATTGCTTTTTTTAATCGGAATGTTAAAACTTGGATTGAAATATTCATGTTAGGACCTTTAAGAAATCTTTAATCGCTCGGGAAATACAGTATACTAAATTGAATGTATTTGGAGGACTAGTCAGACCTCTAAGGATACAGAAACTGTTAAGAGTGGATACAGACTTGATTTCAAAAGATCCTTTCCTAACAAATCGAGGTACAAATGATTACAAGCTAGCTGGTTAGGACACATACACATTAGGCATCAAATTGGAGCTGCTCAATTTGGTAAGGGAGGTAAGATTTTTAGTCACTGAAGTTCTAACACATAGTTCTACTATTTTTCATCAG
Seq C2 exon
GTTTTCTATCAGATGATCCATCGTAATAATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001092:ENSBTAT00000001446:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTCTTTTTCAGGCACCCGGAC
R:
CAGCATTATTACGATGGATCATCTGA
Band lengths:
239-742
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]