DmeINT0029687 @ dm6
Intron Retention
Gene
FBgn0039634 | alpha-Man-Ib
Description
The gene alpha-Mannosidase class I b is referred to in FlyBase by the symbol Dmelalpha-Man-Ib (CG11874, FBgn0039634). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3R:29109053..29112822. Its molecular function is described by: mannosyl-oligosaccharide 1,2-alpha-mannosidase activity; calcium ion binding. It is involved in the biological process described with: encapsulation of foreign target; N-glycan processing; ubiquitin-dependent ERAD pathway. 5 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: short lived; fertile; immune response defective; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chr3R:29110689-29111275:-
Coord C1 exon
chr3R:29110935-29111275
Coord A exon
chr3R:29110877-29110934
Coord C2 exon
chr3R:29110689-29110876
Length
58 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TAAAATAAATGACTTATCAGGTT
3' ss Score
3.62
Exon sequences
Seq C1 exon
AATTCAAGGAAGGACGCGACTGGGTAGAGCAATCACTGCGCTTTGATACCAAGCGCGATGTAAACCTATTCGAGGTCACCATACGTGTCCTAGGCGGACTGCTGTCTGCATATCACCTGAGCGGCGATACAATGTTTCTGGCCAAGGCTGCGGAACTTGGCAACCGTTTACTTCCCGCCTTTCAATCGCCGTCAAATATCCCCTATTCTGATGTGAATCTCGGAGATCTTTCGGCGCACTCGCCGAAGTGGTCTCCTGATAGCTCCACCAGTGAGGTCACCACCATTCAGCTAGAGTTTCGTGATTTGAGTCGCTCTACAAACATCTCCATTTATGAACAG
Seq A exon
GTAAACGAAACAGATCAGATAAGGGCAATAACGAACTATAAAATAAATGACTTATCAG
Seq C2 exon
GTTGCTCACAAAGTAAACGAGAAGGTGCATGATCTGGAGAAGAACCATGGTTTGGTGCCCATATTCATTAACGCCAACACAGGAACATTCCGAAACTACGCCACTATCTCGCTTGGTGCTCGTGGGGACTCCTACTATGAGTACTTGCTCAAACAGTGGATTCAGACCGGCCGCAAGGATAATGATAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0039634:FBtr0085416:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(25.7=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.1=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0084785
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCGAAGTGGTCTCCTGATA
R:
CCAGATCATGCACCTTCTCGT
Band lengths:
138-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)