DmeINT0035040 @ dm6
Intron Retention
Gene
FBgn0038418 | pad
Description
The gene poils au dos is referred to in FlyBase by the symbol Dmelpad (CG10309, FBgn0038418). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3R:16342318..16345829. Its molecular function is described by: zinc ion binding; DNA binding. It is involved in the biological process described with: chaeta morphogenesis; negative regulation of transcription by RNA polymerase II. 12 alleles are reported. The phenotypes of these alleles manifest in: scutellar bristle; leg; microchaeta; appendage; anterior scutellar bristle. The phenotypic classes of alleles include: viable; visible; fertile; lethal - all die before end of pupal stage; some die during pupal stage. 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 within 00-06 hour embryonic stages.
Coordinates
chr3R:16344926-16345829:+
Coord C1 exon
chr3R:16344926-16345127
Coord A exon
chr3R:16345128-16345188
Coord C2 exon
chr3R:16345189-16345829
Length
61 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GACCTCTCATCGCATCCAAGGCG
3' ss Score
2.98
Exon sequences
Seq C1 exon
AATTCACACGCAGACATCAACCGAAACCTTATACTGTTGCGATGTTTGCAACAAAAACTTTGCCACCAAGTTGCACTACGAGAAGCATCGGGAGATGCATAAGAAAATTCGACCGGAAAGCGCGGCTCCGGGTGCAACTGCATCGCCTGCAGCAGCACCTGCGCTAACTCACGTTCGAAGCAATGGTCAGGTGCCCAATAAG
Seq A exon
GTGAGTCCGTAATACCATTCATATTTTAAAAGTGCTAATCCGACCTCTCATCGCATCCAAG
Seq C2 exon
GCGGTTTTCGAAATCAAACAAGAACGTTCTGCTCAGCAGACGCAAACACAGCAGCCACCGGCCCAGGTAATGCATGTTGTGACTACCCAGGATCTGGCCGGAAACACAATAACGATCACACAAGCTCCCGACTCCAATATGCCCGGATCTCTGGCCAATTACGTCCAGCTGGGCTTTTCTCAGTTCCAGAATCCCAGCGCATCAGTCGCAAAGTAATTAGTCCTTAAGCTCGAAAAGTGAATCCACCTTACCTCGTATCCTAGTCCGCGGTCTATTCCAACATCTGGTCGCCAGTTCCTTGTATTGTATAGTTTTCGGTAAATTTTCCTTTTAATTTTCTTTGTGCAATATTATTTATAGCAAATTTGAAGCGCGTTTTCACGTTTCTTTTATTTCCTTAACTTATTTTAGTGTTATATGTGTTATTCTTTTTATCAGTAAATCGCAAAAGTTTTATTAGCATAAGTCCCTAGAGCGTTTGTGTAAAGATTCCTATTTTAAGGATAATTGTAAGGCATTGTAAATATCTGTGTATCTATTATGTATGTACAAGCTGTAGCTGTAAACAATGGTAAAAATACCTTTTTTGGGTGAAGAAAATGATTCCATTGCAAAAATAAATATAATGTATAATTTATGGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0038418:FBtr0301514:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.647 A=NA C2=0.704
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=PD(8.7=2.9),PF138941=zf-C2H2_4=WD(100=35.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0290729
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:
GCAATGGTCAGGTGCCCAATA
R:
ATTGTGTTTCCGGCCAGATCC
Band lengths:
133-194
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)