DmeINT0038268 @ dm6
Intron Retention
Gene
FBgn0040066 | wds
Description
The gene will die slowly is referred to in FlyBase by the symbol Dmelwds (CG17437, FBgn0040066). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:2585980..2588217. Its molecular function is described by: histone binding; protein binding. It is involved in the biological process described with 7 unique terms, many of which group under: developmental process; animal organ development; multicellular organism development; multicellular organismal process; macromolecule methylation. 60 alleles are reported. The phenotypes of these alleles manifest in: female reproductive system; female organism; cellular anatomical entity; wing vein L3; female-specific anatomical entity. The phenotypic classes of alleles include: lethal; increased mortality during development; phenotype; increased mortality. 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
chrX:2586761-2587878:+
Coord C1 exon
chrX:2586761-2587386
Coord A exon
chrX:2587387-2587440
Coord C2 exon
chrX:2587441-2587878
Length
54 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCACAAGCGTCCATTGTAGTGG
3' ss Score
2.19
Exon sequences
Seq C1 exon
CCGCTGATAAACTAATCAAAATCTGGGGAGCATACGATGGCAAGTTCGAGAAGACCATTTCGGGCCACAAGCTGGGCATCAGCGATGTGGCCTGGAGCTCAGACTCGCGACTCCTCGTGAGCGGCAGTGATGACAAGACGCTCAAGGTCTGGGAGCTGAGCACCGGGAAGAGCTTGAAAACTCTGAAGGGCCACAGCAACTATGTGTTCTGCTGCAACTTTAATCCGCAGTCCAATCTGATCGTCTCCGGCAGCTTCGACGAGAGCGTTCGCATATGGGATGTGCGCACCGGCAAGTGTCTGAAGACTCTACCCGCCCATTCCGATCCCGTTTCGGCGGTACATTTCAATCGCGACGGATCGCTGATCGTGAGCAGCAGCTACGACGGCCTCTGTCGCATATGGGACACGGCCAGTGGACAGTGCTTGAAAACCCTGATCGACGACGACAATCCGCCCGTCAGCTTTGTAAAGTTCTCGCCCAATGGCAAGTACATTTTGGCCGCCACGCTGGATAATACGCTCAAGTTGTGGGACTACTCGAAGGGCAAGTGCCTGAAGACGTATACGGGTCACAAGAATGAGAAGTACTGCATATTCGCCAACTTCTCGGTGACGGGAGGAAAG
Seq A exon
GTGAGTTCATATCTTATGCACATTTAGGCTTTAACTCACAAGCGTCCATTGTAG
Seq C2 exon
TGGATCGTGAGTGGCAGCGAGGACAACATGGTCTACATTTGGAATCTGCAGAGCAAGGAGGTGGTGCAAAAGCTGCAGGGACACACCGATACCGTTCTGTGCACCGCCTGCCATCCCACGGAGAACATCATTGCTTCCGCGGCGCTCGAGAACGACAAGACCATCAAGCTGTGGAAGTCGGATACATAGAGTGGCTGGTATCCAGCTGGAGGACGTTCGATCGGAACACACACATACATTTCTTGGATAATATTATTTTAAAGCGAACAGCCTAATCGTAATTGTAACACCCCCACACCCCCCCACCACGAGCCCCCTTTTTTTTTTGTACGCATAATTTAAAAAAGAAAAGGAACTCTAAAATTCTACGTTTAAATCACACTTTAAACCTCACATTCTACGGCAAAACGGAAAAATTACAAACAAACAAACAAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0040066:FBtr0070438:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(23.1=4.3),PF0040027=WD40=WD(100=18.7),PF0040027=WD40=WD(100=18.7),PF0040027=WD40=WD(100=18.7),PF0040027=WD40=WD(100=19.1),PF0040027=WD40=PU(61.9=12.4)
A:
NA
C2:
PF0040027=WD40=PD(33.3=22.2),PF0040027=WD40=WD(100=65.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0070422

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0300790
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:
TGCCTGAAGACGTATACGGGT
R:
CCTCCTTGCTCTGCAGATTCC
Band lengths:
136-190
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)