DmeINT0036146 @ dm6
Intron Retention
Gene
FBgn0033998 | row
Description
The gene relative of woc is referred to in FlyBase by the symbol Dmel
ow (CG8092, FBgn0033998). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is 2R:15206527..15213634. Its molecular function is described by: nucleic acid binding; protein binding; chromatin binding. It is involved in the biological process described with: regulation of transcription by RNA polymerase II; regulation of transcription, DNA-templated. 10 alleles are reported. The phenotype of these alleles manifest in: wing. The phenotypic classes of alleles include: increased mortality; phenotype; increased mortality during development; lethal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages.
Coordinates
chr2R:15210245-15211667:-
Coord C1 exon
chr2R:15211577-15211667
Coord A exon
chr2R:15211069-15211576
Coord C2 exon
chr2R:15210245-15211068
Length
508 bp
Sequences
Splice sites
5' ss Seq
AACGTTAGT
5' ss Score
1.4
3' ss Seq
GTTAACATCTTCAATTGCAGCTA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTGGCAACCAATCCGTTCAAGGACTGGAGTATTTTGCCGGCCAACTACAAGGAGACACCTGCCAATGCTGCTCCCAAGCGCCTCAAGAAAC
Seq A exon
GTTAGTACTATCGTACTTTTGTAGCAAGTTTTTATTTAGGCCGTGAATAGAATAGTGCGTTATGATAATCTGTTAAGTGCCTGCGTTTCTCACTCCAAACTGAAATGTTTTCGTTTTGTTTGATTAGTTTTGGTTAATCGAACCCAACAGCTGAGCTCAGGTCCACTTATTGTGTTATGTGAATTGTGAATTTATATAATCTATATAGGTGAAATGTATCATTGATATATTCACATATGTACAATTTAAGCATTACTTCCTGACATTTCTCGTGTCTAATTATTTTAAAACAACCCCATTAGAGAAACCATAAATAAACTTGCAAGAAATTTAATAACTGTTTTTATTTGATTTCCTTTTTCATTTGGAGTGATAAAACGCAAGAAAGAATTTACTAATTAAATTGATTGGACCCATTCCACCAGATTCAACAAAAATGGACAAATATGTAATGTTTAAGTTTGTATGTTGAGATTACATCTTTTTAAGTTAACATCTTCAATTGCAG
Seq C2 exon
CTATCAACGATGCTGACTACGTTGTTTCTAACAAGATTCCCAAGAAGGAAAAGGATCGTGATATAGCATCATCTGGAGTCAAGCGCGGCCGTCCACCGAATGCATTAGGCACCCCACCACCTCAATTGCCAATTAAAAAGGGTCCAGGTCGGCCGCCGGGCAGTACCAACCAGACAAAAGGAGACAGAGCAACGACCTCGTCATCTAAATCACTGTCTAAATCTCTGATAGCTAAAGGCCTTGGTAAAAAACCGAAAGAAAAAGATGAAAAGATTCCAATGGTCATTAAGAAAGAAGAGGATGATCTAAGGGGCTTGGAGGAGCTGTACTATGGAATAAGTGATGGTACGGACGAGTACCACGAGATCTTTCCATATAGCACACCCCGTACGGTTCACAACGAACTGGCCAAGACCGTGGAGTGTCCAATCTGCCTGAACGGCGACTCCTTCGATTCCAATGAGAAACTCCAAACGCATTTAGTATCGCATATTTCGCCAGAGGGTAAGCAGCACCAGTTCCAGTGCCTTTTTTGCTTGGAGAAGCATCCCACCGAGTCGGTTTTGGCCAAACACAACCAGATCATGCATCCAACTGAGACAAAAACGGAGGGTTCACCCTCGTACTACTGCCTAATATGCCAGCAGCGTCACAATTCCCTGCATCTGTTGACGGCTCATTTGCAGAAGGTCCACAGCACCCTGGAACTACCATATTGGTGTCACTCCTGCGGCTATCGATCATCTTCGCACCGCGATTTGGTCAGGCATTTTTATGACGACCACAAGCATCAAAACTTTTTACAGTGCCCCTATTGCTTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0033998:FBtr0087402:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.406 A=NA C2=0.418
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0086534
Main Skipping Isoform:
FBpp0302971
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086533
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:
CTCCCAAGCGCCTCAAGAAAC
R:
TAGTACAGCTCCTCCAAGCCC
Band lengths:
352-860
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)