Special

DmeEX0008973 @ dm6

Exon Skipping

Gene
FBgn0265297 | pAbp
Description
The gene poly(A) binding protein is referred to in FlyBase by the symbol DmelpAbp (CG5119, FBgn0265297). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is 2R:18140078..18147191. Its molecular function is described by 6 unique terms, many of which group under: organic cyclic compound binding; binding; heterocyclic compound binding; nucleic acid binding; RNA binding. It is involved in the biological process described with 12 unique terms, many of which group under: regulation of cellular macromolecule biosynthetic process; chemical synaptic transmission; compound eye photoreceptor development; cellular aromatic compound metabolic process; cytokinesis. 26 alleles are reported. The phenotypes of these alleles manifest in: ganglion mother cell; sarcomere; neuromuscular junction; adult thorax; cellular process. The phenotypic classes of alleles include: sterile; cell cycle defective; increased mortality; phenotype.
Coordinates
chr2R:18140777-18144897:+
Coord C1 exon
chr2R:18140777-18140954
Coord A exon
chr2R:18141488-18141672
Coord C2 exon
chr2R:18143413-18144897
Length
185 bp
Sequences
Splice sites
3' ss Seq
TTAATTGTTAAAAATTGCAGGTA
3' ss Score
6.02
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
CTATGAGTCGTGTAGAGTCCGTTTACGTGAGCGGTCGTGGATTCGCTTTCAGCACACGGCTTATCACATATTTTTTGTGAAGAAAAAACATATAAAAAATAAAAAAAAATATTAAAACACAAAAACGTAACAAAAAAAATTGTAAAAAGTAGCAAAAAAAATCGAGCGTGTTTGAGAA
Seq A exon
GTAGACCTGATCACCAAATATGGCTTCTCTATACGTCGGTGATCTCCCACAGGACGTCAACGAATCGGGACTTTTTGACAAGTTCTCGTCTGCTGGTCCAGTGCTGTCCATTCGTGTCTGCCGCGATGTGATTACCCGTCGCTCGTTGGGCTATGCCTACGTCAACTTCCAGCAGCCAGCCGATG
Seq C2 exon
CTGAGCGTGCTTTGGACACCATGAACTTTGACCTGGTTCGCAACAAGCCCATTCGCATTATGTGGTCTCAGCGTGATCCTTCTCTTCGTCGCTCAGGTGTGGGCAACGTGTTCATCAAGAACTTAGATAGGGCCATCGACAACAAGGCAATCTACGACACTTTCTCCGCCTTCGGCAACATTTTAAGCTGCAAGGTAGCCACCGATGAAAAGGGCAACTCAAAGGGCTATGGATTCGTCCACTTCGAGACCGAGGAGGCCGCAAACACGTCCATCGACAAAGTCAATGGCATGTTGCTCAACGGCAAGAAGGTCTACGTGGGTAAGTTCATCCCGCGCAAGGAGCGCGAGAAGGAGCTGGGCGAGAAGGCTAAGCTCTTCACCAATGTATATGTGAAGAACTTCACTGAGGATTTCGACGATGAAAAACTGAAGGAATTCTTTGAGCCCTACGGCAAGATAACCAGCTACAAGGTCATGTCCAAGGAGGATGGCAAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0265297-'1-5,'1-2,3-5
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref, Alt. ATG (>10 exons))

No structure available
Features
Disorder rate (Iupred):
  C1=NA A=0.000 C2=0.284
Domain overlap (PFAM):

C1:
NA
A:
PF0007617=RRM_1=PU(73.2=92.9)
C2:
PF0007617=RRM_1=PD(25.4=3.6),PF0007617=RRM_1=WD(100=14.1),PF0007617=RRM_1=WD(100=13.9),PF0007617=RRM_1=WD(100=14.1)


Main Inclusion Isoform:
FBpp0085915


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0085917, FBpp0085919


Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
Zebrafish
(danRer10)
Zebrafish
(danRer10)
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTGGATTCGCTTTCAGCAC
R:
CACCTGAGCGACGAAGAGAAG
Band lengths:
243-428
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)