| JCEG ID |
JCEG180 |
| Name |
sqv-2
WormBase
NCBI Gene
|
| Human Ortholog |
GGDB:B3GALT6
OMIM:
271640
615291
615349
OrthoList :
B3GALT6
B3GALNT2
(Ensembl Compara)
Option tblastn : Query Worm Protein, Subject GGDB mRNA, E-val < 0.00001
|
| Family Name |
b3GalT1/b3GnT orthologs |
| Locus Tag |
Y110A2AL.14
|
| RNAi phenotype |
|
phenotype
|
Emb
|
|
Microscope observation (Image)
|
|
|
COPAS (Image)
|
Normal
|
|
hsp-4::GFP (Image)
|
|
|
| Sequence Features |
kr:N.D.
gg_motif:M1,M2,M3,M4
tm:Detected
dxd:Detected
|
| Sequence |
CDS
atgagattctaccgaacatatttgctcgtagctggcgctttttgctcatt
gtgcacacttgcagtaatattcaattgtggatgggatgattcaccgccag
caacaccttcagccatcaatggcggtggctccaatgctcctttaatctcc
tctccaactaatcttcccgaaacatttctgtacatttcaattctgacgtc
accaaacgaaacagaacgacgtcaaaatgtccgtgacacatggttccgcc
tatcaactaaaggaccgtccgtttttatcgcaaaattcgccgtcggaacg
atgggcctcgcggccgaagatcgtcggttgctggccgaggaaaatgagaa
attcggcgatttggcgcttctcgaccgccatgaagagtcctatgagaggc
tggcaaagaagactttggcctgttttgtacacgcttttgccaattttaaa
ttcaaatttttcttgaagaccgacatcgactcattcgtccgaatcacccc
actaatcataaatctcaaacaaattcaagatccaatgctctactggggat
tcctagatggtcgagctaaaccattccgtaaaggaaaatggaaagaaccc
gaatggaatctgtgtgatcgttatcttccatatcaacttggcggtggtta
tgtgctctcttatgagctcattcgattcttggcaatcaatgcccaactct
tccgacactatcggaatgaagatgtgtcggtaggcgcctggataggcggc
ctagatgttaaatatgtacatgatccgagatttgataccgaatggagatc
ccgtggatgtaataatgagtatttaattactcataagcacacggagcaag
agatgcaagagatgtttgaaaatttgaagaaaactggaaaactttgtgct
aaagagttccaaaaacatccatcctacgtgtacgatttctcgaaagcacc
cagcgaatgttgtacaagagtcaacggatcgaatattccataa
|
Protein
MRFYRTYLLVAGAFCSLCTLAVIFNCGWDDSPPATPSAINGGGSNAPLISSPTNLPETFL
YISILTSPNETERRQNVRDTWFRLSTKGPSVFIAKFAVGTMGLAAEDRRLLAEENEKFGD
LALLDRHEESYERLAKKTLACFVHAFANFKFKFFLKTDIDSFVRITPLIINLKQIQDPML
YWGFLDGRAKPFRKGKWKEPEWNLCDRYLPYQLGGGYVLSYELIRFLAINAQLFRHYRNE
DVSVGAWIGGLDVKYVHDPRFDTEWRSRGCNNEYLITHKHTEQEMQEMFENLKKTGKLCA
KEFQKHPSYVYDFSKAPSECCTRVNGSNIP
|
| References |
Herman T, Horvitz HR
Cold Spring Harb. Symp. Quant. Biol.
(1997)
62
:353-9
[PMID : 9598369]
Mutations that perturb vulval invagination in C. elegans.
Herman T, Hartwieg E, Horvitz HR
Proc. Natl. Acad. Sci. U.S.A.
(1999)
96
(3)
:968-73
[PMID : 9927677]
sqv mutants of Caenorhabditis elegans are defective in vulval epithelial invagination.
Maeda I, Kohara Y, Yamamoto M, Sugimoto A
Curr. Biol.
(2001)
11
(3)
:171-6
[PMID : 11231151]
Large-scale analysis of gene function in Caenorhabditis elegans by high-throughput RNAi.
Sugahara K, Mikami T, Uyama T, Mizuguchi S, Nomura K, Kitagawa H
Curr. Opin. Struct. Biol.
(2003)
13
(5)
:612-20
[PMID : 14568617]
Recent advances in the structural biology of chondroitin sulfate and dermatan sulfate.
Hwang HY, Olson SK, Brown JR, Esko JD, Horvitz HR
J. Biol. Chem.
(2003)
278
(14)
:11735-8
[PMID : 12584198]
The Caenorhabditis elegans genes sqv-2 and sqv-6, which are required for vulval morphogenesis, encode glycosaminoglycan galactosyltransferase II and xylosyltransferase.
Wang H, Spang A, Sullivan MA, Hryhorenko J, Hagen FK
Mol. Biol. Cell
(2005)
16
(9)
:4202-13
[PMID : 15987734]
The terminal phase of cytokinesis in the Caenorhabditis elegans early embryo requires protein glycosylation.
Sternberg PW
WormBook
(2005)
:1-28
[PMID : 18050418]
Vulval development.
Bender AM, Kirienko NV, Olson SK, Esko JD, Fay DS
Dev. Biol.
(2006)
302
(2)
:448-62
[PMID : 17070797]
lin-35/Rb and the CoREST ortholog spr-1 coordinately regulate vulval morphogenesis and gonad development in C. elegans.
Franks DM, Izumikawa T, Kitagawa H, Sugahara K, Okkema PG
Dev. Biol.
(2006)
296
(2)
:409-20
[PMID : 16828468]
C. elegans pharyngeal morphogenesis requires both de novo synthesis of pyrimidines and synthesis of heparan sulfate proteoglycans.
Berninsone PM
WormBook
(2006)
:1-22
[PMID : 18050430]
Carbohydrates and glycosylation.
Shaye DD, Greenwald I
PLoS ONE
(2011)
6
(5)
:e20085
[PMID : 21647448]
OrthoList: a compendium of C. elegans genes with human orthologs.
Berninsone PM, Hirschberg CB
Glycoconj. J.
19
(4-5)
:325-30
[PMID : 12975612]
The nematode Caenorhabditis elegans as a model to study the roles of proteoglycans.
|
| Functional Descriptions |
sqv-2
sqv-2 encodes a glycosaminoglycan galactosyltransferase II, biochemically active in vitro, that is required for cytokinesis of one-cell embryos and for vulval morphogenesis; the common requirement for SQV-2 in both cytokinesis and morphogenesis may be to promote filling an extracellular space with hygroscopic proteoglycans (either in the eggshell, or underneath the L4 cuticle), which in turn may cause the space to fill with fluid.
|
| Deletion Mutants |
tm2235
|
| In Situ |
|
| Expression |
Expression
| db_name |
wbbt |
name |
def |
reliability |
expr_pattern |
paper |
WormAtlas |
| WB |
WBbt:0005278
|
DA neuron |
"Neuron class of nine ventral cord motor neuron, innervates dorsal muscle." [WB:rynl] |
Enriched |
WBPaper00037950 : A-class-motor-neurons_embryo_SelectivelyEnriched, A-class-motor-neurons_embryo_enriched
|
WBPaper00037950
|
|
| WB |
WBbt:0005339
|
VA neuron |
"Neuron class of twelve motoneurons, distributed along the ventral cord, which innervate ventral body muscles." [WB:Paper00000938] |
Enriched |
WBPaper00037950 : A-class-motor-neurons_embryo_SelectivelyEnriched, A-class-motor-neurons_embryo_enriched
|
WBPaper00037950
|
|
| WB |
WBbt:0005772
|
intestine |
"A chain of very large cuboidal cells forming a wide central lumen in which food arrives from the posterior pharynx, is digested, and from which waste products proceed to the rectum. Intestinal rings form in groups of two and four cells surrounding the common lumen; thus the epithelium is only one cell deep at any point, with neighboring cells firmly secured to their neighbors by apical adherens junctions. These cells have very large nuclei and many large vacuoles, yolk granules, and other inclusions; the latter increase in number and electron density as the animal ages." [WBPaper:00038216] |
Certain |
WB:Expr3522
|
WBPaper00026630
|
WormAtlas
|
| WB |
WBbt:0005772
|
intestine |
"A chain of very large cuboidal cells forming a wide central lumen in which food arrives from the posterior pharynx, is digested, and from which waste products proceed to the rectum. Intestinal rings form in groups of two and four cells surrounding the common lumen; thus the epithelium is only one cell deep at any point, with neighboring cells firmly secured to their neighbors by apical adherens junctions. These cells have very large nuclei and many large vacuoles, yolk granules, and other inclusions; the latter increase in number and electron density as the animal ages." [WBPaper:00038216] |
Enriched |
WBPaper00040985 : AIN-2_L4_intestine
|
WBPaper00040985
|
WormAtlas
|
| WB |
WBbt:0006874
|
Psub1 |
"embryonic founder cell" [WB:rynl] |
Enriched |
WBPaper00046691 : P1_enriched
|
WBPaper00046691
|
|
|
WBGene00005020
Phenotype
Homology_paralog
|
|
|
| Phenotype |
Definition |
RNAi / Allele |
bloated
|
"Worms appears turgid or swollen as a result of an excess number of eggs being retained in the uterus." [WB:WBPerson2021, WB:WBPerson557]
|
|
clear
|
"Animals appear unusually transparent when compared to control." [WB:cab, WB:WBPaper00004402, WB:WBPaper00005654]
|
|
comma arrest emb
|
"Cessation of development during the middle stage in embryogenesis of the worm in which the embryo is slightly folded within the eggshell (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557]
|
|
cytokinesis variant emb
|
"Any variation that disrupts the cytoplasmic division of a cell during embryonic development compared to control." [GO:0000910, WB:WBPerson2021]
|
|
egg laying variant
|
" Animals exhibit variations in the stage of eggs laid, egg laying cycle, number of eggs or egg laying in response to stimuli compared to control." [pmid:11813735, pmid:9697864, WB:cab]
|
|
embryonic lethal
|
"Animals die during embryonic development. In C. elegans, often assayed as refractile eggs that fail to hatch; when applied to large-scale RNAi screens in C. elegans, more than 10% of embryos die." [WB:cab, WB:WBPaper00000179, WB:WBPaper00004403, WB:WBPaper00004540, WB:WBPaper00004651, WB:WBPaper00004769, WB:WBPaper00005654, WB:WBPaper00024497, WB:WBPaper00024925, WB:WBPaper00025054]
|
|
hermaphrodite self sterile
|
"Hermaphrodites fail to produce any viable progeny via self-fertilization. However, such hermaphrodites can successfully reproduce if mated to control males." [WB:WBPaper00001075, WB:WBPerson2021]
|
|
hermaphrodite sterile
|
"Hermaphrodites fail to generate viable self-progeny and/or cross-progeny." [WB:WBPerson2021, WB:WBPerson557]
|
|
|
larval arrest
|
"The developmental program of the animals halts at any larval stage and thus fails to reach adulthood. In C.elegans, this occurs anytime during L1-L4 stage." [WB:WBPaper00002958, WB:WBPerson2021]
|
|
|
larval lethal
|
"The animal dies at any time between hatching and onset to adulthood." [GO:0002119, WB:WBPerson712]
|
|
late embryonic arrest
|
"Cessation of development during the final stages of embryogenesis. In C. elegans, this stage normally occurs 620-800 min after the first cleavage at 20C and is the stage after elongation." [WB:WBPerson101]
|
|
|
lethal
|
"Animals die prematurely at any stage of the life cycle." [WB:WBPaper00001109, WB:WBPerson2021]
|
|
locomotion variant
|
"Animals exhibit deviations in self-propelled movement on a solid medium compared to control animals." [GO:0040011, WB:cab, WB:WBPaper00024949, WB:WBPerson712]
|
|
lumpy
|
"Animals have protrusions or bumps on their exterior which are not characteristic of control animals." [WB:WBPerson557]
|
|
|
maternal sterile
|
" Animals produce no or very few embryos as a result of experimental treatment. This is in contrast to sterility due to genetic perturbations (maternal effect sterility)." [WB:cab, WB:cgc5599, WB:cgc7141, WB:WBPerson557]
|
|
multiple nuclei early emb
|
"Embryos contain more than one nucleus per cell in the inviable one- to four-cell embryo." [WB:cab, WB:cgc5599]
|
|
one cell arrest early emb
|
"Embryos fail to divide and arrest as one-cell embryos." [WB:cab, WB:cgc5599]
|
|
oocyte morphology variant
|
"Haploid female germ cells (oocytes) exhibit variations in their overall structure, appearance or contents compared to control." [WB:WBPaper00001883, WB:WBPerson2021]
|
|
|
organism morphology variant
|
"Animals exhibit variations in the form, structure or composition of any part of their anatomy compared to control animals." [WB:cab, WB:WBPaper00004402, WB:WBPaper00004403, WB:WBPaper00004651, WB:WBPaper00005654, WB:WBPaper00006395]
|
|
|
pharyngeal development variant
|
"Variations in the progression of the pharynx (feeding organ) over time, from its formation to the mature structure compared to control. In C. elegans the pharynx is divided into the anterior and posterior regions. The anterior region includes the corpus (procorpus and metacorpus - first bulb) and the posterior region includes the isthmus and terminal bulb (second bulb)." [GO:0043282, WB:WBPerson2021]
|
|
|
postembryonic development variant
|
"Any variation in the progression of an animal over time, from hatching to adulthood, compared to control." [WB:WBPerson2021]
|
|
reduced brood size
|
"The characteristic number of offspring produced is lower compared to that of control animals." [WB:WBPerson557]
|
|
|
slow growth
|
"Any variation that causes a reduction in growth rate compared to control." [WB:cab, WB:WBPaper00004402, WB:WBPaper00004403, WB:WBPaper00004651, WB:WBPaper00004769, WB:WBPaper00005654, WB:WBPaper00006395, WB:WBPaper00024497, WB:WBPerson557]
|
|
small
|
"Animals are shorter and thinner than control animals at the same developmental stage." [WB:cab, WB:cgc31]
|
|
squashed vulva
|
"The apparent partial collapse of the vulval invagination and the elongation of central vulva cells often leading to a flattened appearance." [WB:WBPaper00003405]
|
|
sterile
|
"Animals generate defective gametes, are otherwise unable to reproduce or they generate progeny that are unable to reproduce." [GO:0000003, WB:WBPerson712]
|
|
|
sterile progeny
|
"Any variation that compromises the reproductive ability of the progeny of an animal." [WB:WBPerson2021, WB:WBPerson557]
|
|
|
Variant
|
"Animals exhibit variations compared to a given control." [WB:WBPerson557]
|
|
vulval invagination variant L4
|
"The characteristic Christmas-tree shaped invagination formed by the terminal vulval cells at the mid-late L4 stage is altered." [WB:WBPaper00001738, WB:WBPerson2021]
|
|
