BtaINT0155891 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016764 | UBA1
Description
Bos taurus ubiquitin-like modifier activating enzyme 1 (UBA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102477]
Coordinates
chrX:90848490-90849698:+
Coord C1 exon
chrX:90848490-90848681
Coord A exon
chrX:90848682-90849596
Coord C2 exon
chrX:90849597-90849698
Length
915 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GACTGCTACTTTTCCCACAGTAC
3' ss Score
7.22
Exon sequences
Seq C1 exon
AGCAAGCTGATTGCAGGAAAGATCATCCCAGCCATTGCCACAACCACAGCAGCCGTGGTTGGCCTTGTGTGTTTAGAGCTGTACAAGGTGGTGCAGGGGCACCGACAGCTCAACTCCTACAAGAATGGTTTCCTTAACTTGGCCCTGCCCTTTTTTGGCTTCTCCGAGCCCCTCGCAGCACCTCGTCACCAG
Seq A exon
GTGAGGGTCTATATTAGGAAGTGGGTTTGTGGGTGGGATGTTTGTCTATAGAGCTGGCTCTAGTTTGCTTCATAGCCTGTCACCAGGAGAGGGTTTCTGTCAATGTGTACCTCTTTCCTTCGTGTACACCTTTGTTCATTTATTCACTTACCATGTTTTTTTTAAGTACCTTCTATGTGTTAAGTAGGTGTCTGATTATGACTGTGGAAGCCCTCAGAAAAGATATTTGAATATTAGATTATGATTAAAACTGCACAAAAGTAGCACCCAACATTTACTGAGTGCTTGCTATGCTCAGTGCTTTTACTTGCTTCATTCATTTATGCACTCAAATATTTATTGAGCACCTACTGTGTGCTAGGTACTCTTACAGGTGCTAAGGTTATATTCATGAAATAGAGTAATACAGTAAACAATATTAGAACCTCCAAAAAAAGAATAAGATAAGGAGAACTTGGGAATACCAGGGGGCAAGGGGATGGCTTTAGAATTTTAAATGTGGGATAGTCAGGAACGGCCTTAAGGAGAAGATGACATGTGAGTCCATACTTGGAGGAGGTGAAAAGACAGGCCAGGCCTTGCCAGAAAGGCATTCCATAGAGAGAGACCAGTGTCTGCAAGGGTACTGAGGTAGGAGTGTGCCTGGCCTGTTTGAAGAAGAAGTCATTAGAGCAGAATGTGGGAGAGGATGAGGGGATAGGAAATGAGAAGAGAATAGGATTCCATGATGTAAGGCCTTGTCTCAATTATCATAAGGGTTTCACTGCTTACTCAAGGCCAGACAAAAGCCACAAGAACATTTTGGACAAAAGAGGCTTGTGGTCTGACTTAGCATGTCTGCATGAGTGAGGGGGAGACTGATGAGGTTTGGTGCCCTGATGGCCCCCATGCCAAAGACTGCTACTTTTCCCACAG
Seq C2 exon
TACTATAACCAAGAGTGGACGTTGTGGGATCGCTTTGAGGTACAGGGTTTGCAGCCTAACGGTGAGGAGATGACCCTCAAACAGTTCCTCGACTACTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016764:ENSBTAT00000022299:23
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:
PF0213416=UBACT=PD(47.8=51.6),PF093585=UBA_e1_C=PU(18.2=37.5)
A:
NA
C2:
PF093585=UBA_e1_C=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCTGATTGCAGGAAAGATCA
R:
GTAGTCGAGGAACTGTTTGAGGG
Band lengths:
286-1201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]