DmeINT0021551 @ dm6
Intron Retention
Gene
FBgn0001218 | Hsc70-3
Description
The gene Heat shock 70-kDa protein cognate 3 is referred to in FlyBase by the symbol DmelHsc70-3 (CG4147, FBgn0001218). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (1 unique). Gene sequence location is X:11801696..11807117. Its molecular function is described by 7 unique terms, many of which group under: protein binding; binding; nucleoside-triphosphatase activity; drug binding; protein folding chaperone. It is involved in the biological process described with 10 unique terms, many of which group under: protein folding; multicellular organismal process; 'de novo' posttranslational protein folding; organic substance catabolic process; intestinal stem cell homeostasis. 50 alleles are reported. The phenotypes of these alleles manifest in: larva; central nervous system; pupa; interneuron; sensory organ cell. The phenotypic classes of alleles include: lethal - all die before end of larval stage; increased mortality during development; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of high expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chrX:11804897-11806353:-
Coord C1 exon
chrX:11806244-11806353
Coord A exon
chrX:11805043-11806243
Coord C2 exon
chrX:11804897-11805042
Length
1201 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
AATCCCTTTCTTATTTGCAGTTT
3' ss Score
8.36
Exon sequences
Seq C1 exon
CAGATAAGCAGCAGCCACATATTCTACTGCTCTGTCAGTTCACTTTGAAGCGTCGAGAAAGCACATTAAATCGAAACCAATTTGAAATTATTAACCGCTCAGCGATAAGT
Seq A exon
GTAAGTGTTAGTTCAAAGAAAAGGCTTAAATACGAGCTGGACGTTAGCACAAATAGCTGGAAAGTGCACTTGCACTGCTAGAATATTCGTGTAAAGGAACGGACGGCAAAGAGGGACACCAATACACTGCAATTTTACAGTCGCCATATTGGCAAAAGTAAAAGAGGTCTGCTACAAAAAGTTTGCCCGCACGTGCCCTTAAAGAAATAGAAACGTATGAAATTAGTTTCCTTTATAGTTGAAACCAATAAAGGCCAACCAATGACGTGGTGGTCGTGACAAGTGACAAGTTCGGTGAATGAACTTTGTCTTCTTCTTCGTATTAGTTTCTTACAGCCTAAGCTTGCATTTAGGTGAAGTTCTTGTTTTCCTTTTACAGTAATTTACGGTTAATTTTGCTTACATTTACTTCTTTTTTTTAAAAGACCGCGAAGCGCCTGCGCATTTTGCCGTCTGTGTGAGTGGGAGTAGGCCTATCTGTGTGCGTTTGTCTGCGTTCAATCCGCTTGGTACACGTCATTTATTTGGCTGATTTATAAGCACTCGCTTTGCTCTCTCTGTGTGTCTCTCTCCGATGGTCGCAAAGTACACGTCAGTGTGGCATAGAAAAAAGAATAAAATACCTAAGTGGTTAAGCCACAAACAGCTGTGCAAATCCAGCTTTCCTTCTGGAATTGTGCGTTGGGAGGGGGACTTTCTTGCGGTGCGTGAAATAACGAAAAGAATTAAACCAGTTATTTGGCCGCTCTCTCACCGGCAGCAGCAAAGAAAGAACCAGAAAAATGTTACACGTATACAAATTTCGCTGCTCTCTCTCTCTCGCTTTCCGGCGACGTCGGCGTCGGTCAATGTCAGCAGAACGGAGATGAGCGCACCGCTTAGCAGTTGCCGGGCAGTTAGCCATTGGAGTAGACGTGTTCTTTATCCGATCTTGACTACTAGTAAGATTTATAAGGTACTGAATCTGGTAGAATCGTGTTTAAAATAATAATGTTGCCAAAGTGGCACAGCTAACGGTACATGTTAACAGTTGACAATCTGGCCGACGTCATCAGTACTGGTTCTCTCGCAGAGGGAGAGCGAGAGCCAAAAAGAACACTGGCCATTTATGTTTGCGTGTGTGTGATTGTGTTGACGTGTACAAAAAGCCGAGGTTGAAATAATTGGGCGAAAATTAACGCAATCCCTTTCTTATTTGCAG
Seq C2 exon
TTTTCCTGAGAGATCTTCAATATGAAGTTATGCATATTACTGGCCGTCGTGGCCTTCGTTGGCCTCTCGCTGGGCGAGGAGAAGAAGGAAAAGGACAAGGAGCTGGGCACAGTGATCGGCATTGATTTGGGCACCACGTATTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0001218:FBtr0073609:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0001215=HSP70=PU(1.8=26.2)
Main Inclusion Isoform:
FBpp0311376

Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0073445, FBpp0073446, FBpp0073447, FBpp0073448
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:
CAGATAAGCAGCAGCCACATA
R:
CAGGAATACGTGGTGCCCAAA
Band lengths:
256-1457
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)