BtaINT0088799 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046775 | MAN1B1
Description
mannosidase, alpha, class 1B, member 1 [Source:HGNC Symbol;Acc:HGNC:6823]
Coordinates
chr11:106130517-106131225:-
Coord C1 exon
chr11:106131077-106131225
Coord A exon
chr11:106130706-106131076
Coord C2 exon
chr11:106130517-106130705
Length
371 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
ATCGCTGTGTTGTGTGTCAGGAG
3' ss Score
6.9
Exon sequences
Seq C1 exon
AATTTCAAGAAGCCAGGAAGTGGGTGTCAAAGAAGTTACGGTTTCGGAAAAATGTGGACGTCAACCTGTTTGAGAGCACAATCCGGATCCTGGGGGGGCTTCTGAGTGCCTTCCACCTATCTGGGGACATCCTCTTCCTGAAGAAGGCT
Seq A exon
GTGAGTGTCCCGGCGTTGGGTCTGCTCGCGTCCTGGGGGGACTGGGGTCTCAAGTGCTCAGCAGTCACGGGATTAGGCTGTGGCGGGCGTTTGTTTCCGGTTCTGTCTCCTCCCGCTCTGGCGTCTGTTTCCGAGCACGTGGGTGGCTGAAGCAGCATTGTGCCAGCCTGCTGCCTGCCCGTGAGGTCATTCTGAACGAATTGAGTCCAGCTCGGTTTTTGTAGCTGGCCAGGGTTGGGTCAGGTGAAGCCAGCATACTCGGGTCTGTCCACGGAATTAGATGAAAAGGGGTGTTGGGTTCACCATCGTGTCGTGGAGACAAGGCCGCCGAGCAGCAGGAATCGTTGACTCATCGCTGTGTTGTGTGTCAG
Seq C2 exon
GAGGATTTTGGAAATCGGTTAATGCCTGCCTTCCGAACACCCTCTAAGATTCCATACTCCATGGTAAACATTGGCACTGGAGTTGCTCACCCACCCCGATGGACCTCTGATAGCACGGTGGCTGAGGTGACAAGCATTCAGCTGGAGTTCCGAGAGCTCTCTCGTCTCACGGGGGATAAGAAATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046775:ENSBTAT00000065627:7
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:
PF0153215=Glyco_hydro_47=FE(11.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.1=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:
AATTTCAAGAAGCCAGGAAGTG
R:
AATTTCTTATCCCCCGTGAGACG
Band lengths:
334-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development