Special

DmeALTA0005456-1/2 @ dm6

Alternative 3'ss

Gene
FBgn0001215 | Hrb98DE
Description
The gene Heterogeneous nuclear ribonucleoprotein at 98DE is referred to in FlyBase by the symbol DmelHrb98DE (CG9983, FBgn0001215). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (4 unique). Gene sequence location is 3R:28599834..28605777. Its molecular function is described by 7 unique terms, many of which group under: heterocyclic compound binding; organic cyclic compound binding; binding; nucleic acid binding; RNA binding. It is involved in the biological process described with 9 unique terms, many of which group under: reproduction; visual system development; female germ-line stem cell population maintenance; stem cell population maintenance; developmental process involved in reproduction. 35 alleles are reported. The phenotypes of these alleles manifest in: fat body; epidermal cell; skeletal muscle of thorax; larva; intracellular membrane-bounded organelle. The phenotypic classes of alleles include: increased mortality during development; phenotype; visible; flightless. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 00-18 hour embryonic stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chr3R:28600407-28601193:+
Coord C1 exon
chr3R:28600407-28600568
Coord A exon
NA
Coord C2 exon
chr3R:28600718-28601193
Length
0 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TAATTTAGGACTTTCCTCAGGAC
3' ss Score
2.05
Exon sequences
Seq C1 exon
TCACACTGTATTCAGTTTTTTCATTCGTCTCGTGTGTCAGGGGACTTTCTCCATTTGCAATAGCAAAAAAAATAGTTAGATTAGAAGTTGTTCAACTTTTGCATTAGTAAAATGGTGAACTCGAACCAGAACCAGAACGGCAACTCCAATGGCCATGATGAT
Seq A exon
NA
Seq C2 exon
GACTCCATCACCGAGCCGGAGCATATGCGCAAGCTGTTCATCGGTGGCTTGGACTACCGTACCACCGACGAGAACCTAAAGGCTCACTTCGAGAAATGGGGCAACATCGTGGACGTGGTGGTCATGAAGGATCCGCGCACAAAGCGTTCCCGCGGATTCGGATTCATCACCTATTCCCACTCGAGCATGATTGATGAGGCCCAAAAGTCGCGTCCCCACAAGATCGACGGTCGAGTGGTGGAGCCCAAGCGCGCCGTTCCCCGTCAGGACATTGATTCCCCGAATGCCGGAGCCACCGTAAAGAAACTCTTTGTTGGCGCCCTCAAGGACGACCATGATGAGCAGAGCATCCGCGACTACTTCCAGCACTTTGGCAACATCGTCGACATCAACATAGTCATTGACAAGGAGACTGGCAAGAAACGCGGATTCGCCTTCGTCGAGTTCGACGACTACGATCCCGTGGACAAAGTTGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0001215-1-4,1-3-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact

Protein isoform when splice site is used (No Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=1.000 A=NA C2=0.261
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0007617=RRM_1=WD(100=43.8),PF0007617=RRM_1=PU(81.4=35.6)


Main Inclusion Isoform:
FBpp0084671


Main Skipping Isoform:
FBpp0084669


Other Inclusion Isoforms:
FBpp0084668, FBpp0084672


Other Skipping Isoforms:
FBpp0084667, FBpp0084670
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:
GAACCAGAACGGCAACTCCAA
R:
TCGGTGGTACGGTAGTCCAAG
Band lengths:
102-114
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)