Special

DmeEX6001379 @ dm6

Exon Skipping

Gene
FBgn0261549 | rdgA
Description
The gene retinal degeneration A is referred to in FlyBase by the symbol Dmel dgA (CG42667, FBgn0261549). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (11 unique). Gene sequence location is X:8907068..9029476. Its molecular function is described by: diacylglycerol kinase activity; NAD+ kinase activity. It is involved in the biological process described with 14 unique terms, many of which group under: system process; nervous system process; multicellular organismal process; taxis; retina homeostasis. 67 alleles are reported. The phenotypes of these alleles manifest in: tergum; syncytium; plasma membrane bounded cell projection; Z disc; I band. The phenotypic classes of alleles include: flight defective; wild-type; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed during late pupal stages.
Coordinates
chrX:9019405-9021291:+
Coord C1 exon
chrX:9019405-9019783
Coord A exon
chrX:9019851-9020031
Coord C2 exon
chrX:9020882-9021291
Length
181 bp
Sequences
Splice sites
3' ss Seq
TTTCCACAATTTCCTTGCAGCCT
3' ss Score
9.15
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
Exon sequences
Seq C1 exon
GCAACTATGCGCCCATCATTGTGCCGCCATCGTGGATTGTGAAGCTGCCAACCAAGGGCAACTTCAAGTCCTCGATACGCGTGAGCAATAAGAACAATGCCGCATCGGGATCAGGAGGTGGTGGTGCTGGTGGCGGTGCCGGTGGCGGTGGTGGCAAGAGCAAGAAGCAAACGCAGCGGCGACAGAAGGGCAAGGAGGAGAAGAAGGAGCCGCGAGCGTTCATTGTGAAGCCCATTCCATCGCCGGAGGTAATCCCGGTCATTGTGTTTATTAATCCCAAATCGGGCGGCAATCAGGGCCACAAGCTGTTGGGAAAATTCCAGCATCTGCTCAATCCGCGCCAGGTTTTCGATCTTACGCAAGGCGGTCCCAAAATGGG
Seq A exon
CCTGGACATGTTCCGCAAGGCGCCCAATCTGCGGGTGCTGGCTTGCGGTGGCGACGGCACCGTCGGCTGGGTCCTTTCCGTCCTGGATCAAATCCAACCGCCGCTCCAGCCAGCTCCGGCGGTTGGTGTCCTGCCCCTGGGCACTGGCAACGATCTCGCTCGCGCTCTCGGATGGGGAGGG
Seq C2 exon
GGCTACACGGACGAACCGATCGGGAAGATACTGCGCGAGATCGGGATGTCCCAGTGCGTGCTAATGGATCGCTGGCGGGTTAAGGTCACGCCCAACGATGACGTCACCGATGACCATGTCGATCGCAGCAAGCCCAATGTCCCATTGAATGTCATCAACAACTATTTCTCCTTCGGCGTGGACGCGCACATCGCTTTGGAATTCCATGAGGCACGTGAGGCTCATCCGGAGCGCTTCAATTCGCGCCTGCGCAACAAGATGTACTACGGCCAGATGGGCGGCAAGGATTTGATTCTGCGCCAATACCGCAACCTCTCGCAATGGGTGACGCTCGAGTGTGATGGTCAGGACTTTACCGGAAAATTACGCGATGCCGGCTGCCATGCCGTGCTCTTCCTAAACATTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261549-'33-23,'33-19,34-23=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.439 A=0.016 C2=0.065
Domain overlap (PFAM):

C1:
PF0078119=DAGK_cat=PU(32.3=32.3)
A:
PF0078119=DAGK_cat=FE(47.2=100)
C2:
PF0078119=DAGK_cat=PD(18.9=17.5),PF0060914=DAGK_acc=PU(55.5=62.8)


Main Inclusion Isoform:
FBpp0305779


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0291800, FBpp0291801, FBpp0291802, FBpp0291803, FBpp0291804, FBpp0291805, FBpp0305778, FBpp0310579, FBpp0310580


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGAAGGGCAAGGAGGAGA
R:
CGATCTCGCGCAGTATCTTCC
Band lengths:
242-423
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)