Special

DmeEX6004438 @ dm6

Exon Skipping

Gene
FBgn0031495 | GABPI
Description
The gene beta4GalNAcTB pilot is referred to in FlyBase by the symbol DmelGABPI (CG17257, FBgn0031495). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (2 unique). Gene sequence location is 2L:3030539..3032300. Its molecular function is described by: protein-cysteine S-palmitoyltransferase activity. It is involved in the biological process described with: protein targeting to membrane; endoplasmic reticulum to Golgi vesicle-mediated transport; protein palmitoylation; peptidyl-L-cysteine S-palmitoylation. 9 alleles are reported. The phenotype of these alleles manifest in: wing. The phenotypic classes of alleles include: partially lethal; viable; lethal; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-18 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr2L:3030539-3032300:+
Coord C1 exon
chr2L:3030539-3030947
Coord A exon
chr2L:3031000-3031893
Coord C2 exon
chr2L:3031954-3032300
Length
894 bp
Sequences
Splice sites
3' ss Seq
TAAAATTAAATTTACCACAGACT
3' ss Score
5.12
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
Exon sequences
Seq C1 exon
GCTGTGTTGTTGTAGTTGTCGTTATTCCGGAGAAATTGTAAGCAAATTCGTTGTACTCCAATAAAACAATTAAAATGGACCCACCCGGATCTGATAATTACTTTTGAAACATTTCTCCACTCGGCCAGTAGGGCGTGCACTAATCTAATCTAAACTGTTTCCGTACACGCTGCTCGGAACTCATTAAAAAACGTTCGCCGCGCCATTTCCTGTCCAAATCGATGTTCTTGATGACAGCCGGCACCTCCAATTTTCTTTCTGCAGCCTGGAGATCAGAGGCTGAGGAGTCCAAGAGTAAGGAGAACGGGAGTCTCTGCTGCTGCGAGTACGTGGCTGAGGACAGTCGAGAGCGATCCCACATCCTAGGATGCTGTTGTAACTGCGTGGACTTCGACTTAGTTTGCACAAG
Seq A exon
ACTTGTCACCTGCCGAGCCATTGATCGAAGGAACATCGACGGCATGCTCATCGCCTTCCAGGATAGACTGCGCTTGCCATGGCGCGGAGGAGCCAAGCGAATCTCGCCCGCAGCCGTTGCTCCCGCCTTCATTGTCCCCCTCATGCTGGGATTGGCCACTCTGAACTCAAAGACCGCCATAGTGCTGATGCTCACGCTGGTGGGCTTCACCATCTGGGGCATGGAGCTGGCTAAGCGGACCGCCACGCGGACAAACTTCTTTTTGAGCTGGCTGGTCTTCTCGGTGTTCTACATGATCATCATATTTGAGTTTCAGGTTCCTCTGCTGGAGCTGGCTCCGGAGGAGAACTACGCGTTAATGTTCTTCTCCTGTGCCGCTTTGTACTGCCTCTATTCCGCCAAGGCACTGTCGCCCTTGAATCTTGTTTCTGCTCAATACGGAACCACGCCCAAGGATGAGCTGCCTGGGATCGCCGAGGCTTCGAGTGGCGAGGAGCAGGCAGAGGCCCAGACCACACTCCAGATGGAGAGTGTGCTGAGTTTGGATGATGACGAGGTGGGGGATATGGACACTGCTGAGCGATCTGGCTTGATGCACGGTCAGCCCAATATCTGCGAGATCTGCCGGAAGGTTACTCCAAGGCGGGCATACCACTGTCCCGTCTGCGGAACCTGCGTGAAGAGGCGCGATCATCACAGCTACTGGCTAAACTGCTGCATTGGCGAGCGGAACTACGTGTGGTACATTGTTGGACTGGCCCTGTCGGAGATCGCTCTGCTGCTCGGCGCAAACTTGACCCTCACTTCCATTTGCCATCCGTTTATGGTGGTGCGACCGCTTGGTTATCCAGTTCTTTTGCCCGACGACTGCAGTGAGGTGTTCGAAGGCTTCGA
Seq C2 exon
CCTCGGAATCTCCTTTGTGGTGGCTTGCTACGCTCTGCTCATTTCTTCCTACATAGCCTTTATACTCGCTAGACAGGCTTACTTGTGGTGGAAGGGATCCACCTTGCACGAATACAAGCGCACCTCCAACGCCGCAGGACGCAACAGAATCTGGAGCAACTGGCGAGCCATCTTAAAGTGACTACTCACACACCAAAAAGCAAAAAGCACAAGCATGTCGCTTAGATACTAAAGTATTTCAAATCTTAACGCTGTTCTCGGTAGTCGTACTTAGTCGTACCGCTTTGAAGTCTTTATTGCAATTTAAAATTGATTTAAAATAAATATAATTAAGTAACTCAAAACGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0031495-'2-5,'2-4,3-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.015 A=0.027 C2=0.000
Domain overlap (PFAM):

C1:
PF0152915=zf-DHHC=PU(73.6=42.3)
A:
PF0152915=zf-DHHC=PU(75.0=43.1)
C2:
PF0152915=zf-DHHC=PD(24.4=68.9)


Main Inclusion Isoform:
FBpp0077336


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0077337, FBpp0311066, FBpp0311067


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTCTTGATGACAGCCGGC
R:
TGCTCCAGATTCTGTTGCGTC
Band lengths:
346-1240
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)