DmeINT0035733 @ dm6
Intron Retention
Gene
FBgn0003169 | put
Description
The gene punt is referred to in FlyBase by the symbol Dmelput (CG7904, FBgn0003169). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (2 unique). Gene sequence location is 3R:14619030..14625703. Its molecular function is described by 8 unique terms, many of which group under: phosphotransferase activity, alcohol group as acceptor; catalytic activity, acting on a protein; kinase activity; catalytic activity; protein kinase activity. It is involved in the biological process described with 22 unique terms, many of which group under: embryonic development via the syncytial blastoderm; maintenance of cell number; digestive tract development; regulation of synapse structure or activity; multicellular organismal reproductive process. 44 alleles are reported. The phenotypes of these alleles manifest in: secretory vesicle; developing embryonic structure; endomembrane system; morphogenetic furrow; embryonic head. The phenotypic classes of alleles include: increased mortality during development; phenotype; cell number defective; size defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis.
Coordinates
chr3R:14623487-14625703:-
Coord C1 exon
chr3R:14625200-14625703
Coord A exon
chr3R:14623673-14625199
Coord C2 exon
chr3R:14623487-14623672
Length
1527 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TTCCCATTGTCTTCATTTAGTCT
3' ss Score
7.5
Exon sequences
Seq C1 exon
GGTCAGTTATCGCCTATCGGCCATCGCTATCGCCGCCCCGTTGCGACAAAAAAGATTTAATCGAACCGAAAGACGTGCTCGCACTAAAATCGCTTGAAAACAGGCCCGCAGACCTGCGAAAAACGAAAAAGTGCAGCGCGCATATACTTTTTCAACTGTGCCCCTCTAGCTTAAAATTAAGTCGCGGCGAAAAGTCGAGTAAAACCCGCGGAAATGCGCATGCAAACGGCGTGTGGCCAGCAAAATCGCTGCCAAGGCACCGCACACACACTCGGCCACCCACACATACACACTTAGTGCTGTACTCGAAAAGTGCGAAGACAACAGGAACTCTGTGCCAAAATAATATTAACAGTACCCAGTTATTCCATTCCACTGCACCTGTCCCCGAAACATCGAAATATTCGCGTTACGTATACGCAACGAGTGCTGTAAACAAGTTTGCACAGGCGATAACAATGTCCAAATACGATCTGCTTTATCTAACGGCGCAGCTAACGCTGG
Seq A exon
GTATGTATTGCACTGCGAGTGTGTGGGTGCATACTTATTGGCGCCTTAATTCCCAGTCGCTTTATTATGTACATATGTACATAATATTATATTTTGTCTCTGCCTTACGATTTTCCTCTGTAATGCAAGCCGACTTCGATTTATAACCATTCGTGCGTGTGATTTTTGATGATATGGGGTGCGTAATGCTATTACTTTATTAATATCACATGGCGCTTGAAAAGTTCATATATAGGGTGTATAGGCTTTGTGATAGCTTTGTCCTATTAACCAACACATCAGAACATCTTAAATTTTCAGAAATTAGGTATAACGAATGTAAATGCTAGGAATCAAATCTATTTGTGAAGTGAATAATGTATACACTAGATACTCTATTAAAGCACCAACAATTGTACTACACAAATGTAGTAAAATATCGTAAGAATTGTTGACAGTGGGTACTACGAATTCATATGTTGAGCGCCAAACGCATACTCGGTATAAATCGATCGGATACCTAATTCCCAATCTTAATCCATGTGTGTGTGCGCTGAGCATTTCTTTGAATGGATTTTGCTGCATTAGGAACTTGTTGTATGGCAGGTTCTGGTTTCTCCCACCCTTTTGCTCCACCGGCCTCCCTCTCTTTCGCTCGCCATAGCCCTCTCTCTTTCTGTGGCGCAGTGCGCTCTCTTCCCTGTTGCTGCTGTTGTTGTTGTTGTTTCTGCTGCTGCTGTTTCCTTTTTCCGCACAAGCGCCACTTTAAACCCATCCCTTTCTGTGTGCATAATGTGCCTGCTTATGTATCTACTTTACTATAAAGCATGCACGCTTACGAACACACACATACATGGCCAGCGATCCGATTACCTAAAGGACAGTGGGACGAAAAGTGTTTCAAAGGATTGAAAACAGTTTGCTTAGCCAATGGTCAAGAAATATCAATCAATATATCGCAGGCTCGTTGCAATAAACGTTTTCAAAATTAAATTTTTTGTATTTACACATTTAAAAAGTGAATTATCATTTTAATTTTTATCAACAAAAATTTCGGTATTTGGATGAGGATCCCAGATTAAATCGAATTAAAGAATGTAAATAGATTTTCAAGAAACCTTACTGCAGGCCCACTGTGCACTGCATATCCGTGCATTGGGGCCATGCCCACTCAAAGGCTGGTGTGTGGCCAGTGGGGCTAATTCCGTGCCCAAATGGGGTGGCTTTCAATGGCAGAGGCCCCAGCTTAGGACGCTACTCCTGCTACTTCTGGGCATGCGATATGTGTACAAAGGATAGCGCCCACAAAGAGCTCGCTGAGCGCCCTCCCTTTCAGTCTTATTCCCCAAATAGGCTCGACTTTATTTGCCCACCCTTTGAGCACTTCCAACCGATAATTCCATTAACTTTGATCTTTAACTACGTTTTAACTTTTTGAAAGTCTTTACTCATGTTTTAGGACTGCTCAAATATATACTTTAAATATAGATCAGTGCTAATCTAAAACTAGAAAGATTATTAATCTATTTTCCCATTGTCTTCATTTAG
Seq C2 exon
TCTGCTGTCTGATTGGAATCCATGGATCTATTTTGCCCGGAAGTCATGGGATCATAGAATGCGAGCACTTCGACGAGAAGATGTGCAACACAACGCAGCAATGTGAAACACGGATAGAGCACTGTAAGATGGAGGCGGATAAGTTTCCCAGCTGCTATGTCCTTTGGTCGGTCAACGAGACAACGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003169:FBtr0082977:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0106418=Activin_recp=PU(46.3=69.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0303260
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0082436, FBpp0306147
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:
GCCACCCACACATACACACTT
R:
CGTGTTTCACATTGCTGCGTT
Band lengths:
342-1869
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)