BtaINT0052342 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003388 | DPM2
Description
Bos taurus dolichyl-phosphate mannosyltransferase polypeptide 2, regulatory subunit (DPM2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046268]
Coordinates
chr11:98614346-98615321:-
Coord C1 exon
chr11:98615232-98615321
Coord A exon
chr11:98614449-98615231
Coord C2 exon
chr11:98614346-98614448
Length
783 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
AGCTCTGCCTTTGATGCCAGCCA
3' ss Score
2.9
Exon sequences
Seq C1 exon
GCCACGGGAACAGACCAAGTGGTGGGCCTCGGCCTCGTCGCCCTTAGCCTGATCATCTTCACTTATTACACCGCCTGGGTAATTCTCTTG
Seq A exon
GTATGTGCGCTTCCCCGCCCTCTCTTACCTCCCATCCCTGGATCTCGAAGCCAACTCCTCACATCATTTTAGCAGGCACTGTGCTAGGTGCTGTCACTGCATATCTCACGAAAGCTCCAGGACAGCACTATGAGGAAGATGGTAACAGGTGTCCCTATTTTATAGACGAGGAAGCAGAAGCTCAAGGGAAGGCTCGGGGTGGAATCCTTAACCACTCCACTGCAAAGTCCTGTCCTTGATTTGCTTTGCTTTTGATGGGAGTTCTAGTCTTGGTTATCCTGCGGGCGCTTGGGCATGACAATCCCAGTGGATTTTGTGAGAGTGTTTAGCATTTTTTTTTCCCCGTGGGAAATTTTTTTGGTTACTGCTTTAAAAGTGAAGTGTGTGTTTGGAGGGCAAAATCTTGCAGAAGTCAGTATCCTTTGGAGACAAATGTTAGTAAAGAAAACCTTGGAGTCCTGGTTGGGAATCACTCGAGGATTCCTCATGTCCGCTTTGTCCCTGCTAAGCTGTGAGGGCCTTAGGGCAAGTCCTTTGTCTTCTGTTCCCTGCCAGGTCCCTAGCCCCAACTTTGGGCGAGCACCAGTCAAGTGCCCAGTACACAACCATTAGATAACTGAAGGAAGGGAACAAACCAAGGCACCCAGAGTGCTATCATCTTAGAGAAAAGCAAATGCAGTGCTTTGATGGGGTCAACCCCTGAGATGGAGGAGGTGGGCTGTTTGGACTTGGGGAGCTGAGCAGAGCGAGGAACACTCACTAGAGCTCTGCCTTTGATGCCAG
Seq C2 exon
CCATTCATCGACAGTCAGCATGTCATCCACAAGTATTTCCTGCCCCGAGCCTATGCCATTGCTATCCCACTGGCCGCCGGCCTCCTGCTGCTCCTGTTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003388:ENSBTAT00000004393:2
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:
PF139031=Claudin_2=PU(34.9=96.7),PF072977=DPM2=PU(33.8=90.0),PF085107=PIG-P=PU(32.5=86.7)
A:
NA
C2:
PF139031=Claudin_2=FE(41.0=100),PF072977=DPM2=FE(42.5=100),PF085107=PIG-P=FE(42.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGGAACAGACCAAGTGG
R:
CACAAACAGGAGCAGCAGGAG
Band lengths:
190-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development