DmeINT0036525 @ dm6
Intron Retention
Gene
FBgn0013733 | shot
Description
The gene short stop is referred to in FlyBase by the symbol Dmelshot (CG18076, FBgn0013733). It is a protein_coding_gene from Dmel. It has 23 annotated transcripts and 23 polypeptides (21 unique). Gene sequence location is 2R:13864237..13942110. Its molecular function is described by: microtubule binding; actin binding; protein binding; calcium ion binding; structural molecule activity. It is involved in the biological process described with 23 unique terms, many of which group under: cytoplasmic microtubule organization; wound healing; branching involved in open tracheal system development; cilium organization; regulation of microtubule polymerization or depolymerization. 114 alleles are reported. The phenotypes of these alleles manifest in: membrane-bounded organelle; endocuticle; cellular anatomical entity; stomodeal invagination late; embryonic/larval integumentary system. The phenotypic classes of alleles include: 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 18-24 hour embryonic stages.
Coordinates
chr2R:13921547-13925503:-
Coord C1 exon
chr2R:13925310-13925503
Coord A exon
chr2R:13922174-13925309
Coord C2 exon
chr2R:13921547-13922173
Length
3136 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGA
5' ss Score
4.23
3' ss Seq
TTCGACAACTCCAACTTCAGGTC
3' ss Score
5.2
Exon sequences
Seq C1 exon
AGTCAAATTTGAACCGCGATACCGAGCGGTTGGGCGTTTATCTGCTAGAACTTCGTTCCCTTACCAGTGACTGTGTGTGTGCGTGCGTTGCGTCCGTATATGAATGCATATATGTGTGTGTATAGTGTGGCAACAACAATTTGTTAACGCACACACTTACGCGCAGTTAACGAACGCAACTTGGCCCTTTAAAA
Seq A exon
GTGAGAAGAAACCTCAAGCAAAGTGCAAAATTATAATCAAATTGCCATCAAAATCAACACTCAAAACTTATATAAAACAAACCGCGTTTATCTTTAGTGCAAAAATTGTGTTGAAGCAGCAGTAAAGACGTCAAAACACTATAAAAATAAATAAATGACTAAATCGAGTGGACTGTGATGTCCATCGTTGCGTTATCGTCCTAAATAAACTTAACCGATAAAGGAAATCATAAATGGAAACCATGAACTCAGAACTACAGAGTTCTCAAAAGCAAAAAAAGAATCCAAGCAGCTGTGTTGCATTTCTAAGATATTTGCTTGTCGCAAACGAGAAATTTTCAACTTCTCCCAACTTCTTTTTAGTTGTGCGTTGTTGTTTTTGCCATTTTTTTGTGGTTCTTGTTATTGTTGTTGTTCTTGTTGTTGTTGTCTGTCGTCGGCTGGCTTTTCATTCAATAACCAGTTTTTGTCAGATTTTTTTTCCTTTAGATTTTGGTGAGCTTGAATTGCTCTTTAGGGGCGATCTGGTCTCGGATTTTTGATCGCTGCACACGCACTAAAATCCACAAAGTCGCAATGTAGTGTGTATTTCATTTCATTTAGGTTTTTCCTTTATAAAGACAATTTAGTCATGCCAAACGCATGCACCGCTCTATACACCTAAAGAAAATATATATAAAAAATGTGTTTCAAACACAAATATATTGTATCGTAACTGTTTCGAATAACTGTAAAAGTAAAAGAGTAAAAGAAAAAAAGAGTAAAAAGTAAAACTGTAAAAGTAAAAAGAGTAACTGTAAAAGAATATAGAAAATATAAGTATTTCATTTTTTTAAAGCTAAAATCAAAAATTCTACATATAGAATAGAATACTATAGGATTTATCTAAAGAAAAGGAGTTAAGTAAATTAGATAGCTGGATTAAAAACCATTTAAATTTTCCTCCAATTCAATAAGATTTTTCTCAGTGCACCCTCTTTTCCGCCCCTATCTCTTCACCGCGTTCTCTCTTTCTTTTTACCTGTTAGTTCTGAACACACGGCTTTCTTGACATGCCAGGCATACTTAATTCCGGCTCTCCCGTTTAAACCTGGCTTAGAAAATGAGAGAAAATGCACAACTGCCATAACTGTGCCACAAAGTGGGGGAGGAAGAGGCGGTGGTGAAGGTGGAGGAAGAGGTGTGGGAGGAGAAGTGGAAGGAGGGAGAAAGAGAGAGGCGAAAAGCCAAGTTCAGACAGTGGCAGTGGGGAAATATTTTCCGTGAATTTATTGTGTGAAATTTTGCATGTGAATGGAAAATGCACACGGAACAAGCAGCCAGCAAATAACAATAACAAAAAACCCATAATAATAACAAGCAACAAAAAATATGAGTGAAAATTATTGAAAGCCACTTGCAGCAAAGTGAAAGATGCAAAAAAGACACAAAAAACTGTTGACGATGGAAAATATAAACAAAAACCGTGAAAAAAAAACCAAAAAATCTTTAAAAAAAATGAGCCAAAACTAAAAACTAAACCAAAATTCAAGTAAAAGTTCACAGAAACGGCCAAGAAAAATTGTTTGTTTGTCATTTAGCTACGTTACGCCCAGCGTTTGCATAAATAAATTAAAAATTTAAAGCAGACAATGCAAACAAATTGACAAAAGTGCAGAAGGCATGCCGAAGTTTATACACCCTTTCAATTAAAGTAGTATTTTAACAACTGAACAATAAAATTTAGTTAATTCAAGTTACTTTCTGTAGGAATATTAATTTGTTAATAGGTACCTATAGCTATGAATTGATTAACAATAAACAATTCGATTTTGTACTACAAACTTCAGATTAGAATCCATGTACCTCATTGGAAAAGTAAATAAACTACACAAACTTTGAATGAAAAATGAGTTGAGAGAGCGAAAGAAATTTCGTACATATCTACATACGACTTTTGGGTATATATAAATGTATTCGTATCTAATCAGAGCGACAACCCGTCTCCTGGGCCCGCAGCTGTTTGCGTGTCTAGGCATTTATTTATTTATACTTATTGTGTGCTTACGGGTCCGAGCCAGAAATACAGCTCCAAGCTGACCTCATGAATTGAATGGAATCACCCGCCAAAAAACAAAGCACCGAAAGTAACTTTAAAATCGGGGCAAAAGTGGAGATTTTGCAAATGAAAGTACACGAATAAAATTGGATCGCAGTTTTGTCATTGTGAAGATTGCAAAAATGGAAGAAGAAATGAAATACAACATGAGAAAAAAAAAAGTGGACACGGAATGAAATGAATTAAGTGCTCGCTTTTACTTGAGCTTTGTGTGGTGCAGCTGCGTCTGATTTCAGTTTCAATTTATCTCTATAAGTTTCAATTTGGCTGTCGGGTAAAAGTGAAGCGATCTCGATCGCGCCCTTCTCCCATTGTGTTCCACTATCTCGGTATCCCATATCTCTGGCTGTATCTGATGGATACATGGCGTCGCCAGTTCGTTCGCCCCTGGCGACAAATGCACCATGTACACCAGTGTATCTGCTAGATACATTTCGCCCAGCACGTTTTCTTTTGGCCAACGGCCAATTGGAACAAAATGCCGGCAACGCACAAAAACATAAAGTCAACTACACCAGCTATATACAAAACGCTTCTGAGATACACAGTAAAAATGATGGAATAATATTTATTTAAAATATTAAACTTGATCTTGGGGTTAGCAATGGATATTGAGGAGTAAAGTTTAAAGGGACCTTTAACACAAGTAACAAGTCTTAACATAACAAAGAATTAATACTTGGTATGAGGAACATCTTGTACAAAAAGAAAAACTTCTACAGATTGTTAAATGTTTCAGAATGGAATTGCTTTAAAAATAGACAACATTTATATTTTTGCAAGTTTTCATAGATCTTTTTTTTTTGCGTGTGCAAATAGTCGACTTCCTGAACGAGAACTTTTACTTAAATTTAGTTTAGTGCTTAGTACACTCGAATTTGGTATCTCGCTAATTGCAACTCATTTGCAATTGCTGTTTTCTGATGATTTCACGTTCAAGTACGCGGATCGCTGCGTCTGCAGCTGAATCATCTCAGCTAATTTAGGCGTACAAAATTCACAATCATTTGTATTTAAATTCGACAACTCCAACTTCAG
Seq C2 exon
GTCCATCCAACCGAGAGCAATAAAAATAAAAATCACAAAGTGCCATCGCAAAACAAACATAAACTCCAAAACGTGCTAAAAATCGTAAAAAAAAGATCGACAGCGAAAAAGAATTTGCGGCGAAAGTTGAGGAGTGTGTTGTTCATCACCCAAAGTGTTTCGAGTGTATCCGAGTCTTTTAATGTGCCACCCGCAAGATGACATCGCATTCCTACTATAAAGACCGCCTGGGCTTCGATCCCAATGAGCAGCAGCCGGGCAGCAACAACTCCATGAAACGAAGCAGCTCCCGCCAGACGACGCACCATCATCAGAGCTACCATCATGCCACCACCAGTAGCAGTCAGTCACCGGCAAGAATTTCCGTTTCGCCGGGTGGCAACAATGGAACGCTGGAGTACCAGCAGGTCCAGCGGGAGCAGCGGGATCGGGAGCTGTACAGCAACAACGGCAGTCTTCACCACCACCAACATCATCATCATCATCATCGCCACTCGACGACGGGCAGTGCATCATCGCCGCTGTACGAGAACAGCAGCAGTCCGGCTGCTCCCAAAAAGGCCAAGCACTCGTCCACCCAGGCGCAGCCGCAGGGTGGCTACGAGGATGCACTCACTCAGTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0013733:FBtr0087619:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.993
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086744, FBpp0086745, FBpp0271733, FBpp0271734, FBpp0290807
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)