rab-8
D1037.4 | RAB family 8
rab-8 encodes a rab related protein of the Ras GTPase superfamily that affects ovarian morphology and function, thereby affecting fertility; acts downstream of let-60 with respect to vulval development based on genetic analysis.
Graphics for rab-8
3'UTR Zoom
Locus
see this gene in GBrowse
3'UTR mapped for rab-8
If available, we display here the 3'UTRs sequences we obtained by our analysis (in FASTA format). Putative canonical PAS sites, if found, are highlighted in yellow.1
ID: 3467 -
Tier: 1 -
Name: rab-8 -
Cosmid: D1037.4 -
WBGeneID: WBGene00004272 -
Length: 383 -
PAS: attgca
Cluster Coverage (%): 6546 reads (100.00%)
(See this 3'UTR in GBrowse!) (See this Gene in GBrowse!)
id | Name | Chr | Strand | Start | End | Length | PAS | Coverage |
---|---|---|---|---|---|---|---|---|
3467 | rab-8 | I | - | 3682890 | 3683271 | 383nt | attgca (-16nt) | 6546 reads |
This 3'UTR isoform has been detected in the following tissues:
UTRome v31 | Intestine2 | Pharynx2 | Body Muscle2 | Arcade cells2 | GABA neurons2 | NMDA neurons2 | Hypodermis2 | Seam cells2 |
---|---|---|---|---|---|---|---|---|
  |
2Blazie et al., 2016 - Alternative polyadenylation directs tissue specific miRNA targeting in Caenorhabditis elegans somatic tissues. - under review (mixed stages & tissue-specific datasets)
>|3'UTR|383nt|I:3682890..3683271|PAS:attgca
auuuauugcucucucgccauguucugcccuuuucgaaguugauugugauucaauucaauucaacuucaauaguguaccau aucucuuuucauauuuucuuuccguuugaauuuucuguuccaaaaacuccuccuucgcacauuuuuguaugcaguacggu uauaauucuaaaaauaaccuuuuuucuucucucuucucuucugaccauaauaaccaacacuugcuuuguuuuuaccauuu ucgucccgucuauuucucuguguccgcucucucucgcauauucaauucaccccccuacacccagcauucugaugagauuu cuuuucaggauuucagauuuauuuuuuucgcgaauguaugaaccaaauugcauguuuuccca
Updated miRanda Targets for rab-8 (Murari et al., submitted)
rab-8 transcript has been predicted to be targeted by the following miRNAs:ID | miRNA | Target Gene | Score | Energy | % Binding (Target) | % Binding (miRNA) |
---|---|---|---|---|---|---|
50879 | cel-miR-259-5p | rab-8 | 170 | -21.45 | 84.21 | 84.21 | 148916 | cel-miR-8208-3p | rab-8 | 165 | -20.56 | 70.00 | 80.00 | 150932 | cel-miR-8210-3p | rab-8 | 164 | -15.41 | 72.73 | 77.27 | 84179 | cel-miR-2207-5p | rab-8 | 161 | -16.70 | 75.00 | 87.50 | 8371 | cel-miR-47-5p | rab-8 | 155 | -14.58 | 78.57 | 85.71 | 142864 | cel-miR-8202-5p | rab-8 | 155 | -15.41 | 100.00 | 100.00 | 151306 | cel-miR-2217b-1-5p | rab-8 | 151 | -20.24 | 90.00 | 100.00 | 8372 | cel-miR-47-5p | rab-8 | 150 | -13.23 | 68.42 | 73.68 | 8012 | cel-miR-46-5p | rab-8 | 150 | -13.23 | 68.42 | 73.68 | 20840 | cel-miR-77-3p | rab-8 | 149 | -16.90 | 76.47 | 82.35 | 109362 | cel-miR-4925 | rab-8 | 148 | -12.80 | 68.42 | 73.68 | 8013 | cel-miR-46-5p | rab-8 | 147 | -11.70 | 71.43 | 78.57 | 66001 | cel-miR-792-3p | rab-8 | 145 | -9.38 | 78.57 | 78.57 | 107307 | cel-miR-4923a | rab-8 | 145 | -10.44 | 65.00 | 70.00 | 11712 | cel-miR-55-5p | rab-8 | 143 | -12.28 | 68.75 | 75.00 | 41494 | cel-miR-247-5p | rab-8 | 141 | -9.44 | 90.00 | 90.00 | 5273 | cel-miR-42-5p | rab-8 | 140 | -19.02 | 100.00 | 100.00 |
Predicted or Experimental Interactors for rab-8 (WormBase)
rab-8 has been predicted to interact with the following genes (data from WS200):- agef-1 Lee I et al. (2008)
agef-1 encodes a putative ARF guanine nucleotide exchange factor orthologous to human ARFGEF1 (OMIM:604141) and ARFGEF2 (OMIM:605371); agef-1(RNAi) inhibits CAV-1 body formation in oocytes more severely than arf-1 disruption alone, indicating that activation of both ARF-1 and ARF-3 by AGEF-1 may be required for transport of caveolin from Golgi to CAV-1 bodies during oogenesis; more generally, AGEF-1 is required in mass RNAi assays for embryonic and larval viability, embryonic osmotic integrity, normal neurotransmission, locomotion, and osmoregulation, and normally rapid growth. - arl-8 Lee I et al. (2008)
none available - cct-2 Lee I et al. (2008)
- cct-6 Lee I et al. (2008)
- cdc-42 Lee I et al. (2008)
cdc-42 encodes a RHO GTPase which controls polarity of both individual cells and developing embryos by regulating the localization of PAR proteins; CDC-42 is expressed at hypodermal cell boundaries; cdc-42 expression levels are unusually stable, with relatively little variation between adults, dauers, and L3 larvae, or between wild-type and daf-2(e1370ts) or daf-16(m26) mutant adults. - chc-1 Lee I et al. (2008)
chc-1 encodes the C. elegans clathrin heavy chain ortholog; loss of chc-1 activity via RNAi results in defects in receptor-mediated yolk endocytosis and thus, embryonic lethality. - dnj-29 Lee I et al. (2008)
- eft-3 Lee I et al. (2008)
eft-3 encodes a translation elongation factor 1-alpha homolog that is required for embryonic viability, fertility, and germline maintenance; the EFT-3 protein sequence is encoded both by eft-3 (F31E3.5) itself but also by R03G5.1. - eft-4 Lee I et al. (2008)
eft-4 encodes a translation elongation factor 1-alpha homolog that is required for embryonic viability, fertility, and a normal postembryonic growth rate; eft-4 encodes at least one alternatively spliced coding sequence identical to that of eft-3. - elpc-1 Lee I et al. (2008)
Y110A7A.16 is orthologous to the human gene INHIBITOR OF KAPPA LIGHT POLYPEPTIDE GENE ENHANCER IN B-CELLS, KINASE COMPLEX-ASSOCIATED PROTEIN (IKBKAP; OMIM:603722), which when mutated leads to disease.
More on rab-8
Related Papers
SMGL-1/NBAS acts as a RAB-8 GEF to regulate unconventional protein secretion.
J Cell Biol 2022-07-04
J Cell Biol 2022-07-04
Related rab Genes
The APAome Project is currently funded by the School of Life Sciences at Arizona State University