BtaINT0155866 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010206 | UAP1
Description
Bos taurus UDP-N-acteylglucosamine pyrophosphorylase 1 (UAP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046404]
Coordinates
chr3:6905539-6906889:-
Coord C1 exon
chr3:6906701-6906889
Coord A exon
chr3:6905590-6906700
Coord C2 exon
chr3:6905539-6905589
Length
1111 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
GCTTATTTATTCCTACATAGCAG
3' ss Score
4.43
Exon sequences
Seq C1 exon
GAAGTTTGTGGTATATGAAGTATTACGGGAAGATGAGTTTTCCCCGCTGAAGAATGCAGACAGTCAGAATGGGAAGGACAACCCTACTACTGCAAGGCATGCTTTGATGTCCCTCCATCATTGCTGGGTCCTCAATGCAGGGGGCCACTTCATAGATGAAAATGGCTCTCGCCTCCCAGCAATTCCCCG
Seq A exon
GTAGGTTGATGTCTTTGCTTCTTTGTGTGGCTGCCTCCTGTACTTGTCCTCTTGGGCTTCTTTCTCCTCTATCTCAGATGTATTCCTAGAACTTTTAAAAGAGCTAAGTATTGTTGTGGCAGTTCATGATGTGAAGTAATGAAGGCTTGGCCCCTTACAGAGAGAGCAGTAGCTTTGCTTCCCCTGAAAGAGGAACCTTCTAAAGCTTTTGTTTTTTGGATGCCCCTCTACCGTGTCAGTGAAATGACTCCTACTAAAGAATGGTCAGAGGTAGTTCTTTTGCTCTGCCACAGGATTAAAGACCATCAGCAGCCACTATGCCACAGGGAAAGAGGATTGATTATTGCTGCCCATATATCTGTGGCCTCAAGTGTTATCTACGAACCCCCCACTCCAAAAGACCTGGCACCCACAGGCTGCCTCTGAGACATACGCACACTTCAGTTCTCCTTGTGGCACTTTCAGATTGCAGAGGGAGGTGCCAGGAAGGGATGTGCATGCTACTTACAGTCACTGATACTCAAACTGTTGAAATGTTTAGGATTTTAGAAGTTAAAAAAAAAAGATCCTTGGAGCTATTCAAATATGAGATAAAGTGCTTTTCAGCTGCCTTATATTTTATGATAAAACCTCCCTTGATACTTAGAATTCCCCCTTTCTAAATCATTTGATGTTTCTATATTTTTGTCAAAAACGTTTTGCCATAAAATTTATAATTCTTAAGGGATAAAAAGACTATGCACAAAGTGCTAGAATGCCTTGTTAAATGTTTGAACATTGGGTATTGGAACTTACTGGGTTTAACTGTTTTTATTAAGAAGGAGCAGTGGTAGACTGTCTCAGTCCAAGGCCACTTTCAGGCTCTGTCTTGTCAACAAGCTAGCTCTGTGGCATGTCAGATGGTCCTCATGCTTCATCTTTGACCATTGACGTTTTTTGTTGTTGTTGTGGGTTTTTTTGTTTGTTTGTTTTTCCCCCTCAGATCTCCTTTGCCAAGTTCATCATTTACCGTGAATACATGCCTTTCAGTCAAGTATATTTTGCAGTTCCACTTCATTTTTGTTGTTTGGTTTGTTTCCATTCCCATTAATGCTTATTTATTCCTACATAG
Seq C2 exon
CAGTGCTACACATGGAAAGTCAGAGGCCATCACAGCTGATGTCAATCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010206:ENSBTAT00000013466:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.297 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(14.7=100)
A:
NA
C2:
PF0170413=UDPGP=FE(4.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTTGTGGTATATGAAGTATTACGG
R:
TTGTGATTGACATCAGCTGTGA
Band lengths:
238-1349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]