DmeINT0032422 @ dm6
Intron Retention
Gene
FBgn0001180 | hb
Description
The gene hunchback is referred to in FlyBase by the symbol Dmelhb (CG9786, FBgn0001180). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 3R:8690980..8697822. Its molecular function is described by: DNA-binding transcription factor activity, RNA polymerase II-specific; sequence-specific DNA binding; RNA polymerase II cis-regulatory region sequence-specific DNA binding; DNA-binding transcription factor activity. It is involved in the biological process described with 15 unique terms, many of which group under: stem cell fate determination; animal organ development; positive regulation of biological process; central nervous system development; regulation of cell population proliferation. 140 alleles are reported. The phenotypes of these alleles manifest in: tracheal system; embryonic ganglion mother cell; larval metathoracic segment; embryonic/larval proventriculus; neuron projection bundle of ventral nerve cord. The phenotypic classes of alleles include: embryonic/larval segmentation phenotype; lethal - all die before end of larval stage; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of extremely low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr3R:8690980-8694600:-
Coord C1 exon
chr3R:8694456-8694600
Coord A exon
chr3R:8694173-8694455
Coord C2 exon
chr3R:8690980-8694172
Length
283 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGA
5' ss Score
8.6
3' ss Seq
TGTTTTCTTATCCATTACAGCCG
3' ss Score
8.67
Exon sequences
Seq C1 exon
CAGTCAGTCACGAGTTTGTTACCACTGCGACAACACAACAGAAGCAGCACCAATAATATACTTGCAAATCCTTACGAAAATCCCGACAAATTTGGAATATACTTCGATACAATCGCAATCATACGCACTGAGCGGCCACGAAACG
Seq A exon
GTAGGATATTGTTAGCCATTACCAAGTGTCTCCATTTTGAACACAAAATCACTCAAATCGCCTTCAGGGGGTGGGTGCCGCCCAGCCACCCCTGACGTATTTTTTGTTAGGGGTGGTGCCGCAAGCACACCAAAAAAAGAGAAAAAAAAAATAAAAGCGAGGAAAAATAAAATGAAAAACAAGCGGAAAAAAAGAGGAAAAAACTCGACGCAGGCGCAGTGCATGAATGAATAAATGAATATGCCCACTAACCCCACTCTCTCTGTTTTCTTATCCATTACAG
Seq C2 exon
CCGTCTAGAGCCGCCAAGATGCAGAACTGGGAGACGACAGCCACGACCAACTACGAGCAGCACAACGCCTGGTACAACAGCATGTTCGCGGCAAATATCAAACAGGAGCCAGGTCATCATCTCGACGGGAATAGCGTGGCCAGCAGTCCGCGCCAATCGCCCATTCCCTCGACCAATCACCTGGAACAGTTCCTCAAGCAGCAGCAGCAGCAGCTTCAGCAGCAACCCATGGATACCCTGTGCGCCATGACCCCATCACCCAGCCAAAACGATCAAAACAGCCTGCAGCATTACGATGCTAACTTGCAGCAACAGTTGCTGCAGCAACAGCAGTACCAGCAGCATTTCCAGGCAGCCCAGCAGCAACATCATCACCATCACCATCTGATGGGTGGATTCAATCCGCTGACGCCACCTGGTCTGCCCAATCCCATGCAGCACTTCTATGGCGGCAATCTGCGACCCAGTCCGCAGCCCACGCCCACATCTGCCTCCACAATTGCGCCCGTTGCAGTTGCCACTGGCAGCAGCGAGAAGTTGCAGGCACTAACACCACCCATGGATGTCACACCGCCTAAGTCGCCGGCCAAGTCGAGTCAGTCGAATATTGAGCCGGAGAAGGAGCACGATCAGATGTCGAACTCCAGCGAGGACATGAAGTACATGGCCGAGTCCGAGGACGATGATACCAACATCCGGATGCCCATCTACAATTCGCACGGCAAGATGAAGAACTACAAGTGCAAGACCTGCGGCGTGGTGGCCATCACCAAGGTGGACTTCTGGGCGCACACCCGCACCCACATGAAACCAGACAAGATCCTGCAGTGCCCGAAGTGCCCGTTCGTCACCGAGTTCAAGCACCACTTGGAGTACCATATCCGGAAGCACAAGAACCAAAAGCCCTTCCAGTGCGACAAATGCAGCTACACGTGTGTCAACAAATCCATGCTAAACTCGCACCGCAAGTCGCACAGTTCTGTGTATCAGTACCGTTGTGCGGATTGTGATTACGCCACCAAGTATTGCCACAGCTTCAAGCTGCATCTGCGCAAGTATGGTCACAAGCCCGGCATGGTTTTGGACGAGGATGGCACCCCGAATCCCTCGTTGGTCATCGATGTTTACGGCACGCGTCGTGGTCCGAAGAGCAAGAATGGTGGACCGATTGCCAGTGGAGGAAGTGGCAGCGGCAGCCGGAAGTCAAATGTTGCAGCTGTCGCTCCGCAGCAACAGCAATCTCAGCCAGCTCAGCCAGTCGCCACATCTCAGCTGAGTGCCGCCCTGCAAGGATTCCCTCTGGTTCAAGGCAACTCCGCTCCTCCGGCGGCATCTCCAGTGCTCCCGCTGCCCGCCTCTCCTGCCAAGAGTGTGGCCAGTGTGGAACAGACGCCCAGCTTGCCCAGTCCAGCCAATCTTCTGCCTCCTCTGGCCAGCCTTCTGCAGCAGAACCGCAACATGGCCTTCTTCCCCTACTGGAACCTCAATCTCCAGATGCTGGCCGCCCAACAACAGGCCGCTGTCTTGGCCCAATTGTCGCCAAGAATGCGAGAGCAACTGCAGCAACAGAACCAGCAGCAGAGCGACAATGAGGAGGAGGAGCAGGACGATGAGTACGAGCGTAAGTCAGTGGACTCTGCCATGGATCTGTCCCAAGGAACGCCAGTGAAGGAGGATGAGCAGCAGCAACAACCGCAGCAGCCGCTGGCCATGAATCTCAAGGTGGAGGAGGAGGCCACGCCTCTGATGAGCAGCTCGAATGCCTCGAGACGCAAGGGACGCGTCCTCAAGCTGGACACCCTGTTACAACTGCGATCGGAGGCCATGACATCTCCCGAGCAACTGAAAGTACCCAGCACACCCATGCCAACTGCATCCTCGCCCATTGCCGGACGCAAACCCATGCCCGAGGAGCACTGCTCGGGCACCAGTTCGGCAGATGAGTCGATGGAGACGGCCCATGTGCCGCAGGCCAATACCAGTGCCAGTTCGACGGCGTCCAGCTCGGGGAACAGCTCCAATGCCAGCAGCAATAGCAACGGCAACAGCAGCAGCAATTCCAGCAGCAATGGAACCACCTCAGCGGTTGCAGCTCCTCCATCCGGAACTCCGGCGGCGGCGGGTGCCATCTACGAGTGCAAGTACTGTGATATCTTCTTCAAGGACGCCGTGCTCTACACCATTCACATGGGCTACCACAGCTGCGACGATGTGTTCAAGTGCAACATGTGCGGCGAGAAGTGCGACGGACCCGTCGGCCTCTTCGTTCACATGGCCAGGAATGCTCACTCCTAAGTTCCCCATCACCATCACCTTGTTATTATTATTTATCACTATTATCATATAATCGTTGTCCAGAATTGTATATATTCGTAGCATAAGTTTTCCAAACATTATTTTGTTGTCGAAAATTGTACATAAGCCAATTAAGCCGCTAATTCTAGACCTAAGTTTATCTAACTATCCTAACTGTATTGAACTGTAGCCACCTTTCAATCTGTCTCCTATACACTCTTGTATTTTCGAAATCGACTAAAAACCCTGAAAACGGTTTAAAAACTATCATAAATGCATGGAGAAACATAAGCCTAAGTTAAATCTAATTTGTAAGTTGAGTCAAGCGAAACAACCAAACAATACCAACAGTCCAAAGTCAAATTAATAAAATATAGTTTATAACATATACATAATGAGTATGTTTTCTAAAATAATTAATTAGTCTTATTTAACCTAACATATTCGTATATGCGCATAACACTCAGTTCTTTCTCTGATATTATTCTCTCAGTATTTTGTTAGTTGAAAGCGAATTCGAATCGAACGAAATCAAATCAAATAAATCCAATTATTCAATATAATTTCACAAGTTTTTCGCTTTTTTTTTTTGTTGTTAACCTTTTGGCAATAATGACAATATTTTCGATGCAACTGAAACTGACGAAAGAAGAAGTACAAATTTAGAGATTTTTAAAGAGTAGCTAAGATGCGCGAAATCTGAGCAACGGATCAAAATTAGTATTTACCCCATAAAATCTAAGTCGAGGTCATGAAACGAATTTCGAGACTTAAGATGTGAGCCCAGTGTAATCCTTGATAAATCCCATTTTAAGTAAATTAAACTAGTCTAAGATATTTGCCCACGAAATGTTTTTATGCAATAACATAATAAAGATGAAGATATTATTATTATTAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0001180:FBtr0081951:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.6),PF134651=zf-H2C2_2=WD(100=3.4),PF134651=zf-H2C2_2=WD(100=3.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0081431, FBpp0081432
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:
ACACAACAGAAGCAGCACCAA
R:
GTGATTGGTCGAGGGAATGGG
Band lengths:
293-576
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)