DmeINT0036418 @ dm6
Intron Retention
Gene
FBgn0002573 | sens
Description
The gene senseless is referred to in FlyBase by the symbol Dmelsens (CG32120, FBgn0002573). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3L:13396228..13401125. Its molecular function is described by: bHLH transcription factor binding; DNA-binding transcription factor activity, RNA polymerase II-specific; sequence-specific DNA binding; DNA-binding transcription activator activity, RNA polymerase II-specific. It is involved in the biological process described with 11 unique terms, many of which group under: negative regulation of nucleic acid-templated transcription; peripheral nervous system development; chaeta development; animal organ formation; negative regulation of cell death. 63 alleles are reported. The phenotypes of these alleles manifest in: posterior wing margin; tertiary pigment cell; digestive system; adult metathoracic sensillum; late extended germ band embryo. The phenotypic classes of alleles include: lethal; increased mortality during development; 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 within 06-12 hour embryonic stages.
Coordinates
chr3L:13397304-13400466:-
Coord C1 exon
chr3L:13399385-13400466
Coord A exon
chr3L:13397455-13399384
Coord C2 exon
chr3L:13397304-13397454
Length
1930 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GTCTATGTCTTTCTTTTTAGTGC
3' ss Score
10.44
Exon sequences
Seq C1 exon
ATCTGCCCTTTTTGTACAACCCGCTGCTCTACTCGAGTGCCCTACTGTGGCCCCAATTTTTGTTGTCCTCGGCCACGGCTCTGGGTACACCACTGACCCCCATGACCCCCAAATCGCCCGCCTCTGTGGTTTTGGGTCAGCGGGATCGTGACTTTGCCTTGACGCCCGAAAAGGAGCATGAACTCCAAATGAACAATAACAATGAGAACAGCAAGCAGGACTATCAGGAGCAGGATGAGGATATGCCACTAAATCTAAGCACCAAGGAGCGCATCACATCGGATGATTCCAACCGAGATCAGTATCACAGCAGCAGCAACAACAGCAGCAGGAGCAGTTCCAGCAGTGAAGTGGAGCAACTGCATCCGATGACCTCGCTGAACGTTACCCCGCCTCCCCTGAGCGCTGTGAATCTAAAGAGTTCGAGTACACCACAGCAACAGCGCCAGAGATCGCAGGGTAACATCATCTGGTCACCGGCCTCGATGTGCGAGAGATCGGCGAGAAGGGAGCAGTACGGCCTGAAGATGGAGGAGCAGGGCGATGAGGAGGAGCACCAGGTGGATCCTATTGTGCGAAAGTTCAAGTATGAGCGCAGAACTGCATCCATATCCTCGCTGCAATCGCCGATCTCCTCGCTGTCCGCTCCCGCCTCGAATGCCGTCCAGGATCTGGAGTTCGAGGTGGCCCAACAGCAGTTGTATGCCCATCGCAGCGCATTCATGGCCGGATTGACGGGCAACAATCTGGAGCTGCTCACCCAGCACTTGAAGCTGAAGAGCGAGCAGCCGCAGCAGCAGCAGCAACAGCATCGCATCAAGGACGAGCAGCAGCAGGATAACCGCTCGGCAGCGGCACTCATGAATTTGGTGGCAGCCGCCGAATTCGGCTACATGCGTAATCAACACCAACAGCCGCAGCAGCAGCAGCAACAACAGTTGCATCACCAGCAGCAGCCGCAGCAACATCAGCATCAGCAGCAACATCCTGACTCGACGGCCACAGATGTTGCGCGTCGTTCGTCCTCCTCGTCATCTTACCAAGGAGAAAACGAAGAGAAGCGCAGCGGCAGGAATTTCCAG
Seq A exon
GTAAGCAAACTCAAACAGGATAAACGCGTCGAGGGGTAGGGAAATATGAAGAGGAAATCGAGGGCAAATCGCTTGAAAATCTCTGAGCCCCCAGCCCGCTTTAATGGGCTTATCACGTGTCCTGAAGGACCATGATCTATAACCCAAAACGAATACTGTTCGTATCATTGCATAAGGTTGCGTGTCCTCGACAATTCCCCTGTGTTAATTGTTTCATATTTTGTCCGTGCGGGTTTTAATTGTCGCCGAGCCGAAAACCCCACCAATACCACTTTCAATTTGGAAAAGTGGCACAGCAAATACTGTCATAAAGTTGGTAATACAAGCCAAACCGATAGAGCTCTATGGAAATTCAATTAAGTCCCATCGAAATCACGCAATTAGTTAATCAAATAATTTTGATTAGCGCCAGTGCGGTGGGGGGCATAACTCGCCCTCGAAGATTTATGTACAAATTACAATCATAATAATTCGATATTGGATTGTGCAAAAGGTAAGAGGGCACACGACCCTCAGGAATTTGAGACGACTTACCCTAATAGGCCTTATGCCTACCCCGATGTCATATTGCGTTTATATCCATCAACACCCGCCGCGAGTCCTTATTTTTTTTTTTTTTAACATCTTTTTCCAGTTTTTTTTTCACACATTAAAGGGTCAGAGTGAAATGCGATAGGTTTTCGGGCTTCAGTACCGGACCGACATATGGTCAAAAAGCCGACGAAGACAGTTGCCAGAGTCCTTTGCGCAGGCGCAGTCACTGTTCTTCAGCTGTTTATGTATAAAATCGAATTTTTTCTGTAATTCGTGCTTTACATCTGTTCACCATTGGAGGCCCACCCGGCTGACTCAGACTTTGGGGTTTCTCCTTAACTCTTTTTTTGTTTCCCTGCTCGTTTTTTCTTTTTTTTTTTGCCTTTCGAGCTTTGCCAACTTCCGTTCCGTTGTCAGAGCTAAGCAAATTGACATTATGGCTCAGGCAGTTGAGCGCAGCTTAACAATAGAGCAACTAATTGGGTCTGAGTCTAGCCAATGTGTGTAGTGGATATGGTCCACGCGAATGCAATGCGCAAATAGAAAATCCCAAAAACAAGGCTAAAAAAAAACGTAAAAAATAAAAAAATAAGAGAACATAAAAATCAATAAGAAAGAAATTTTAAAAAACCGACACTTGTGTCAATTTACAATTACGCGTAGACCATGCGGGTTTTTCAAAAAAAAAATTGTCTCACATTTTTTTCACCCATTTCTGTGTTTTACTTTTCGTTGTTTTCATGTTTTCGTGTTTAATATAAATGTCGCCCACGTAGGCCGACGATTTGAGTTGTGTTATGTCAATGTTTGGTTACTTGCAACGTTGCTGCAACTGGCAAACTGTTCAAACATTTAATCTGACAACCGAAGATGTTACAGCCACTGGATTCGTCCAATCCCCGCGATCGATTCCCCGTGGATCCCAGCTGTGTTTGGCCCACAAATACTGCGGTATATACAATGTATGTACATATATGCATGGCTAAAGCTCCCTGGAAAGTGTCTCACTTGAGATTTAGCATTGGGCCGAGATATTTACCTAGCTGGTTTCAGCGCTGAGAAATGGCTAAGGTTCTAGATTATTTGTCGCCTGGATGTGGGCTAACCAAGTTTGGCTTGGTTTGGGTTTTCCCTTGTCGTCACTTGTCTAACAAATATTTGAGCACTCACAAATCTAGTTTAATTCATGTTGCCACTGCGAATTTGGCTCAGGCACACAAAAACGGTGAATTTATATATAAATTCTTTTCTGATTTTTTGATTATTTGGCTTTTTGGTGTGAATATGCTCAAGCTGTGCAAATATGGGGTATTCTGAGTTCCAATAATCATGACTCGTTCTGTCTGAATGTGGTGTTAATAATGTATTTTTCTATTGTCTATGTCTTTCTTTTTAG
Seq C2 exon
TGCAAACAGTGTGGCAAGAGCTTCAAGCGTTCGTCCACCCTGTCCACACATCTGCTCATCCACAGCGATACACGGCCATATCCCTGCCAATATTGTGGCAAGCGGTTCCACCAAAAGTCGGACATGAAAAAGCACACGTACATACATACCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0002573:FBtr0075862:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.792 A=NA C2=0.235
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=PU(4.3=0.3)
A:
NA
C2:
PF0009621=zf-C2H2=PD(87.0=39.2),PF134651=zf-H2C2_2=PU(38.5=19.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0075596
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:
GCAGCGGCACTCATGAATTTG
R:
TGTCCGACTTTTGGTGGAACC
Band lengths:
358-2288
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)