BtaINT0111108 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001092 | PHOSPHO2
Description
Bos taurus phosphatase, orphan 2 (PHOSPHO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001045965]
Coordinates
chr2:26664024-26665266:-
Coord C1 exon
chr2:26665233-26665266
Coord A exon
chr2:26664195-26665232
Coord C2 exon
chr2:26664024-26664194
Length
1038 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTTAAATACTTTTATTTTAGAAT
3' ss Score
6.34
Exon sequences
Seq C1 exon
GTTTTCTATCAGATGATCCATCGTAATAATGCTG
Seq A exon
GTAAGTATGAAAGGATTAATAAAAATACTTGTTGACAGAAATATAGTTTTGCACATATAACATTGGTGGGTTTTTGGAAGCATAGTTTTAAAAAAGTCAGAAACTGGCAAGAGAGAGATTTTACTCTGCTTGCATGCTAAAAACTTAGCCTGCCACAGTTTTGTAGAAGATGCAGCCCCCTGGATAGGTGATGAATTACAGCAGTAGCCAGAATATCAGTAATTTTGCCCCAGTTGCCATAGGATGCATGCCTTTCAAAACTGTTCGCTCTACATAACATTTTTGAGACAACAGTCCAGAGCAAAGGGCAGTGAGTACCTTGCTTACAAGATATGCAGAACCACTAGAGACCCAAGGAGATTACCTCTCAACAAAATTCTGTGGAATTTTAACTAAATTGGTTACAAAAAGTATTGAATCTTACAAGATTTGGTGTCAGTAATTTGCCAGTTTGGCATAATGTTCAGTTATGATTTGACTTAATAGCACTTGGTTCTAACTGGTCCATGGATCTTTACAGCCAAGTGTATCTAAAATTATTTACCCCCTATGACCTCCACTCCTTTTTTTTCCCCTTTGTTGTGAAATTAAGAAGGTAGCATTTGCACTTTGAAACAGAGCTTAAATTATTCCGGGGGGTGGGGGGGGGCAGACACCTTATTACAAAACAAGTGTAGAAACTGCAGTTGATGCTACCACTGTATACAGATATTTCTTTTTTAAAAACAAAAATGAGATTATACTGTAAAGACTCTTTTGTGACTTAATTTGAACATCTTAACCTTTTCCTACTGAAATAAATGTTCTGTTATGTGACTATCATGTGCACGTCTTATTTAAGCAGTTTCCTATTCTTGTATGTAGTTTCTAGTTTTCATTATTGGAACTTATATTCACATAATATTCCCTGTTTTGTATTTAAACTTTTTGTTTAAACAAAATTTTATTTCTCCCATTGCCAGTGGGTAATTTTCTGATGTAAAAGAAAGCATATTAGAAAACATAAATTTTAAAATGTCTTAAATACTTTTATTTTAG
Seq C2 exon
AATTTAAGAAGTCTTCATTCCTTTGCTCCAAACCAGAAGACTTTTCCCCCTGCATGTAGCGTAGGAGTAATGTTGGTTAGAAACTGGCTGGTGTTTAAAGCTGAAGATAGTCATGACTATTTAACCTAAGCTGTATGCTGAAGGAAGATTGTCTTGGAAATACTAAATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001092:ENSBTAT00000001446:2
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:
GTTTTCTATCAGATGATCCATCGTAA
R:
AGTATTTCCAAGACAATCTTCCTTCA
Band lengths:
198-1236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]