DmeINT0027774 @ dm6
Intron Retention
Gene
FBgn0027363 | Stam
Description
The gene Signal transducing adaptor molecule is referred to in FlyBase by the symbol DmelStam (CG6521, FBgn0027363). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2L:10858536..10862006. Its molecular function is described by: ubiquitin binding. It is involved in the biological process described with 7 unique terms, many of which group under: system development; tissue migration; movement of cell or subcellular component; epithelium migration; regulation of cell cycle. 10 alleles are reported. The phenotypes of these alleles manifest in: adult head; intracellular; eo support cell; developing material anatomical entity; imaginal tissue. The phenotypic classes of alleles include: increased mortality; some die during pupal stage; phenotype; cell death 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 during late larval stages, during early pupal stages.
Coordinates
chr2L:10859707-10862006:+
Coord C1 exon
chr2L:10859707-10860910
Coord A exon
chr2L:10860911-10860976
Coord C2 exon
chr2L:10860977-10862006
Length
66 bp
Sequences
Splice sites
5' ss Seq
ACTGTTAGT
5' ss Score
-3.84
3' ss Seq
ATTTTCAATCGTCTTTCCAGCGC
3' ss Score
8.42
Exon sequences
Seq C1 exon
AAAATGCGCCAAGTGCTGAAGAACTGGGCTGAAAACGACTATAAGAACGATCGAGAGCTCGACTTGATACCCGCACTCTATGCCAAGCTGCGCCAAGAGGGATATGATTTCAAGAATCTTGGCGATAAGACTAGCAAGACTGTTGCCGAAAAGGCCGCCGCCCTGCCCAAAGATCCGAATGTGGTCAGCAGCCAGCAGGAAGAGGATGACATCGCCAAGGCCATCGAATTGTCGCTGAAGGAGAACAAGGGCAGTCCAAAGACTGGGAGTGTAGCAAGTACCGGCACCGCCAGTGCCTATCCCTCATTGTATCCATCTTTCGCTGGAACCGGCTCGAGTGCACCGAGCGCCGAAGCCAGTTCCGCACCAGCGCCAGAGCCGAGAAAGGTTCGAGCTCTGTACGATTTCGAAGCTGCCGAGGAAAACGAATTGACCTTCTTTGCCGGCGAGATCATTCATGTGCTGGATGATAGTGATCCAAACTGGTGGAAGGGATACAATCAACGCGGCGAGGGTCTCTTCCCCTCGAACTTTGTCACTGCCGATCTGTCCGTCGATCCCGAGCGGCTGGACATCAATCAGCAGCATAAGTCGGCCGCCGCAGCCGGGCAACGAGAGTTGGATTCCGCTGCGGCACTGCAGCAAAAGACTGAAGCGGCAGCAGCTGCCGCCGCAGCTCAGCCTGTGGAGATCGACGAGTCAAAGATCGACCGGCTGCTGCATTTGCTGCACGAGGCGAATCCCGAAGATCCCTCGCAGGACAGCGACGAAATGCTGCAGCTGGAGCAGGAGGTCCATCAGATGGGACCGCTGATCGATGCCGAGCTGGAACGCGTCGACCGCAAGCACGCTCAACTGACGCAGTTGTCCAGCGACCTCGTCGACGCCATTAATCTGTACCATACCTTGATGCGGGATGACCGTGCTGCGGCTGGACATTTTGCCGCCGCTGCTGGCGGCTTTATGCCTGGACTTGCTGGTTTCCCGGGTGCCGCTCTGTACGGTGCTCCAGGTTATCCTGCAGCGGGTGGATTCCCACCGGCCCAAAATTATCCGGGCATGCACTCGATGCCATATGGCCCCGTACCAAATCCTCCCACTTCTGCTCCATCTCAGGCACCTGGAGCTCCTGGTGGCTATCTGGGTCAACCGCAGGGGCAGGTGCCACTGCCCTATCAGAACGGACATGCCGCACAGATGAACT
Seq A exon
GTTAGTACAAAGGATTAAAATACTTATTATATTTACCTATAATAACATTTTCAATCGTCTTTCCAG
Seq C2 exon
CGCTGCCAGCCCATTTGACTCAACCCACTGGCACTGCACCCATGCCCCAGCCAATCTACACTCAGCCGACTCCCGTGACCACCCAACAGCAGCAGCAGCCACTTCCACAGCACCCTCAACAGCCGCCACAGCAGCAAGGCCAGCAGCCCCCACAGCATCCCCAGAACAGCTACCACATCGACCCCCAGTCACAGTACGCCCAAGTTCCGCCCGCAGTCACACAAATCCAGCAGCCGCAGCAGCCACCGGCTCCGCACGCTTACATGTCGCCGCAGCATCAGCAGGCACCGCCACCACAGGGATACCAGCCAGGACCAAATCTTTATGGACCGAACGGATCGCCGGCCGTCGTCAACCCGCAGAGCTACATGTCCCCACAGCAGCAGCAGCAACAACACCCACCACCACACGATCAGTTTAGTCAGCTGCATCAGCAGATGGCCGCCATGTCCATGGCTGGCGGACCGCCAGTTGGGGCGCCCGGCTATCACATGCAGAACGATGCTGTCAAGAACAACATTCCTATCTACCAGCAGCAGCGGTAAGACCGCTGCACTAAAACAGAGACCTTCACTTGGTTCGCTTTGAATTGCCCGAGCAACTTTAAGCTTTGTCTTCATTCTGACAAAAGGATGTCATCGAGTATGTTAGTTTTGGCCAACTTGCCGAGAAACGGAAGTTGTCAAATCTCTGCTATGTACATTTTGAGAAGAGCAATTGTCAGTGAACCAAATATGTCGACTATCCTTTAAAATAACGAAAGAAGCCAAATTAATATCAAGTATACCCTTACGAGTTTTCGTTTTTTGTGTTTATATTTGGTCCAACGAAATGATATATTTTTCTGGAAGTAAGGCAATACCAGTCGAAAAAGATATATATACCATATAAATAATCTGTATTCAACAGCACGTATAACTTTGTATTTAGTGCAGGGGAGATAACTATTATGTATTATGTTTATTGTACGGATTATGATAAATCTAACGAAACGAATCACATTCATTAAAATCATAAAAATATACTAAGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0027363:FBtr0080143:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.575 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0079014=VHS=PD(24.1=8.2),PF0280915=UIM=WD(100=4.5),PF0001823=SH3_1=WD(100=11.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0079732
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:
ACTTCTGCTCCATCTCAGGCA
R:
GGGAGTCGGCTGAGTGTAGAT
Band lengths:
180-246
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)