BtaINT0115658 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010805 | POMT1
Description
Bos taurus protein-O-mannosyltransferase 1 (POMT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080330]
Coordinates
chr11:101660185-101662054:+
Coord C1 exon
chr11:101660185-101660277
Coord A exon
chr11:101660278-101661957
Coord C2 exon
chr11:101661958-101662054
Length
1680 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
AGCGCTATTTGGTTTTCCAGGCA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GCACCAGCTGGTGGTGAACAACCCCCCGAGGCCCGTGCGGCACGGCGACGTTGTGCAACTGGTGCACGGCATGACCACCCGCCTCCTCAACAC
Seq A exon
GTGAGTCCCTGCCGCTGCTCAGGGTGGGCGTGCCCGCATCACCGCCTTGGGTCCCGCTCTGCAGTAGGTATCGAGGGCGGGGAGGGGAGACCTCAGTGATGGCACGTGGGCTGGGAAGGAGAGTCCCACCCAGAGTGAAATGTGGGGCGCCCTGGCAGATGGGGGCACCTGCTGAAAGGAGAAGCGAATTCAAGAAGGCCATGAGCTGGGGGACAGAGCCAGGAACCCTACCTGGCCTGATCCCTGGGCCACCTCTGCTGTCCTTCTACCCAGCCTCTCGGGTCATCCACGTGGCCTCAGGGACCCCGCCCTCCCCTCCTTGGACATCTGGGCTCTCCATGCCACGTCTGCCTTGTCCTCTCCCCCTTCTGCCATCCCTGGGTCGGGAAATCCACGGGGCTCCAGTCCTTTCTGCCCTCACTCCCAGTCCCGGTGAGAATCGCCTGCCCTCTGCACACGGCAGGCACCGCTCCCTCTGAAAACTCACACTTGACCAACCTCACGTCTCTGCCAAGAGCTTCCAGGGATACCCAGTGTGACCGTCACACTCAGAATAACTCCCCACTCTCTCCTGCCTGCCAGCCCCCCCGGGACCTGGCCCACTGACTCCCTGGTAGACTTCATGCCAGTCACCGTAGCCCCCCACTGCCCCCAAAATGACCCCGTGCAGCCTCCCTGGGGCCTTTGCTTACTCTGTCTGCCTGGAATGTTTTTCAGCTCAGACCCTACTGGCATCCCCACCATGGCCCACTCTTTCGCTTTTTTAAAGAATAATTTTATTCATTTATATTTTGGCTGCACCGGGTCTTCACTGTTGCCTGCAGCCTACTCTCTAGTCATGGTGCTTGGGCTTCTCATTTCAGCAGCTTCTCTTGTTTCGGAGCACCGGCTCTAGAGCTCAGGCTTCTGCAGTGGTGCTGCGTGGGCTCTGTAGTTGCAGTCCCCGGGCTCTAGAGCATGGGCTCAGTTGCCCTGCAGCATGTGGGATCTTCCTGGAGCAGGGATAGAGCCCGTGTCTCCTGCATTGGCACGCAGACTCTTTACCACTGAGCCAGCAGGAAAGCCCCCACGCAGTCACTTTATTCAGGGGTCAGCTGAAATGTCCCTGCACCAAAAGCATTTCTTGCGCACTGTGCCCGCCGGGGTCAGTGTTTTTTGTGGCATTCACAGGGCCCGCAGTCATATCTGACTTCTCCAGGGTCATGAGGGCCTCTTCCTTACTGCTCACTGCGGGTCCTCTCCCCATGTGGTCCCGCACAAAGTCCGATCAGGCATGGTTTCCCCGAAAGTAAACACGGGAAACTGACGTCCCTGGGCACTTGTTTTGCCACAGAATTCTTGGTGCCCCAGCCATTTCCGTGACCTGGCGTCAGGGAGCCCCCAGTGGCCAGCCAGGCTGTGCTCCCAGCTTGGTTTATCCTCTGCGAAGGGGATGGTGAGCCCGTGGTTTAGATGGACATCTCCCTACTTCCCCATCATGTGCGTCCCTGGAGGTGTGGTCACTGCAGGGCCTCTGCCCTCTGTGAGGGATTTAGTGCCCTGGGGAATGGCAGCCGAGGTGCTTGAAGGTTGAGCTGGCTTTGTTTCCTGAAAAAAAGTGGTTTTTTTCCTCCTTAAAGAACAGCGAGTGCCTTTCAGGAGAGCTTGGGGCGCCCCCAGCAGCGCTATTTGGTTTTCCAG
Seq C2 exon
GCATGATGTCGCAGCCCCCCTGAGCCCCCACGCGCAGGAGGTTTCCTGCTACATTGACTACAATATCTCCATGCCCCCCCAGAACCTCTGGCGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010805:ENSBTAT00000014315:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(17.6=100)
A:
NA
C2:
PF0281514=MIR=FE(18.2=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:
CCAGCTGGTGGTGAACAAC
R:
CAGCCGCCAGAGGTTCTG
Band lengths:
187-1867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development