DmeALTA0008948-2/2 @ dm6
Alternative 3'ss
Gene
FBgn0003053 | peb
Description
The gene pebbled is referred to in FlyBase by the symbol Dmelpeb (CG12212, FBgn0003053). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:4617564..4627206. Its molecular function is described by: RNA polymerase II regulatory region sequence-specific DNA binding; RNA polymerase II cis-regulatory region sequence-specific DNA binding; DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription factor activity. It is involved in the biological process described with 20 unique terms, many of which group under: anatomical structure homeostasis; establishment of tissue polarity; cell-cell adhesion; regulation of cell adhesion; protein localization. 45 alleles are reported. The phenotypes of these alleles manifest in: plasma membrane bounded cell projection; stage 7 embryo; neuron projection; cell projection; rhabdomere. The phenotypic classes of alleles include: visible; partially lethal; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-18 hour embryonic stages.
Coordinates
chrX:4617564-4620860:+
Coord C1 exon
chrX:4617564-4618063
Coord A exon
chrX:4619970-4619974
Coord C2 exon
chrX:4619975-4620860
Length
5 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TCTCGAATCTTCTAAATCAGCAC
3' ss Score
2.87
Exon sequences
Seq C1 exon
ACATCAGTCGATTTTCATCTGCCGAATCGGTTGCGCTGCGGCTGCGCTGAGAATAAGATACAAAACTCGTGCGCGGCGCTTCAAGAAACCAACTCAAAAGCAGACAAATCAAATAACTAACTTGTAGAAAATAAAAATATAATAAAACATAAACAGAATTTCTCAATTCTAAGCCTACAAAGAAATATCAAACGCAAACTGCATATTTTTTTCACGTTTTTTTTTTAAACGACAAACCATTGGGAATTTTTGGAATACTAAGCTTTAAGGCCAAAGAAGTGTGAAAAATATTAAGTGAACCAAAAAATAAGTGCTATCTGAATTAAGTTATCTGACAAGAATTAAAAAAAAAACCTACACACTAAACATAAAACACAAAACACCAAAAAGCCACCAAAAATCATTTTTCAACGGGAACCAAGCCTAAAACAGTGCGAAATCCGGAGTTGGAATGCCGTCGCAACTGTTGAACACAATTTCACAACTAAATATCCACTAAG
Seq A exon
CACAG
Seq C2 exon
TTAACTAGCCGTTGGAAAAATGCTCGCCGCACAGCAACAGCACAACAACAGCACAGTGGAATCGGAAATGGAGCGCCAGCGACGGGACTCCACCACATCGGAGTCCTCGCTGGAGCATCTGGATCTGGGACGTACGCCCAAAAAACTGGGCGGTAACAGTGGCTCTACACAGACCACATCCACGCCACATGAGCTGGCTACGGTGACATCTTCGCGCAAGCGCAAAATTCGCCATTTGCAATTGAATCACCATCAGCAGCAGCAGCATCACCAGCAGTCGGATCTGCTGAGTGATGAAGACGTGGCGGAGGCGGAGGCGGAGGAGGATGAGGACGAGGAGGATGGCGACCAGGTGGCCGCCTTGGGCTCAAGGAATCTGGGACGGCACAAGCAGCGTCGCAGTGGTGGCGCCACCACACAGGCATCCATTGTGATGGACTACAGCAGTGGCGATGCCAGTTCGCTGCGCAAGAAATTTCGTCTGAATCGCTCGGCGGCCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003053-1-1,1-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.789
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0070648
Main Skipping Isoform:
FBpp0099653
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:
CGTCGCAACTGTTGAACACAA
R:
CACTGTGCTGTTGTTGTGCTG
Band lengths:
103-108
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)