DmeINT0030548 @ dm6
Intron Retention
Gene
FBgn0000289 | cg
Description
The gene combgap is referred to in FlyBase by the symbol Dmelcg (CG8367, FBgn0000289). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (10 unique). Gene sequence location is 2R:14173693..14182838. Its molecular function is described by: DNA binding; DNA-binding transcription factor activity. It is involved in the biological process described with: regulation of transcription, DNA-templated; imaginal disc-derived wing morphogenesis. 41 alleles are reported. The phenotypes of these alleles manifest in: adult antennal segment; adult central brain; embryonic/larval digestive system; alimentary canal; imaginal tissue. The phenotypic classes of alleles include: partially lethal; increased mortality; phenotype; increased mortality during development. 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 00-18 hour embryonic stages, in adult female stages.
Coordinates
chr2R:14178894-14179254:+
Coord C1 exon
chr2R:14178894-14179041
Coord A exon
chr2R:14179042-14179111
Coord C2 exon
chr2R:14179112-14179254
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TAAATTACAAACTCAAGCAGCTA
3' ss Score
-1.06
Exon sequences
Seq C1 exon
GCGGGTGCATACCGGCGAGCAGGCGCATCCCTGCGTCAGCTGTGGCGAGGGATTCCTCACCAAGGCCGAACTGCATCAGCATGTGAGGACGGCGCACAATGGCGTCAATCCCAACACGAGCAGTGCCACCATCATAGCAAATCAACAG
Seq A exon
GTTTGTAGGATGAGCCTTTATTAAAACCATTTCATAGAAATTGACTGATTTAAATTACAAACTCAAGCAG
Seq C2 exon
CTACAGCAGGCCCATCATCACCAAGCTGGACAGCAAACGCATCCGCAGACCATAACCGTGGTGAGCAATCCGGGCAACTCTACGTTGCTGACTGTATCCACCACGGATGCCAATGGCGTGGCACGACCGCAGTTTGTGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0000289:FBtr0087529:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.626
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(74.1=40.0)
A:
NA
C2:
PF0009621=zf-C2H2=PU(13.0=6.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0308983
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086655, FBpp0086656, FBpp0086657, FBpp0086658, FBpp0111707, FBpp0288474
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:
GATTCCTCACCAAGGCCGAAC
R:
GTAGAGTTGCCCGGATTGCTC
Band lengths:
181-251
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)