NO30G01100, NO30G01100 (gene) Nannochloropsis oceanica

Overview
NameNO30G01100
Unique NameNO30G01100
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length1414
Alignment locationchr30:405853..407266 +

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Properties
Property NameValue
DescriptionU6 snRNA-associated Sm-like protein LSm3
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr30genomechr30:405853..407266 +
Analyses
This gene is derived from or has results from the following analyses
Analysis NameDate Performed
PRJNA7699582024-08-13
GSE1786722023-12-15
PRJNA9336932023-10-26
PRJNA9434492023-07-19
PXD0160542021-01-14
PXD0166992021-01-08
GSE1499042020-10-10
NoIMET1_WT_HS2020-09-29
PXD0100302020-03-16
GSE1396152020-03-11
PRJNA2413822020-03-11
BLASTP analysis of N. oceanica IMET1 genes2019-07-11
InterPro analysis for N. oceanica IMET1 genes2019-07-11
GO annotation for IMET1v2 genes2019-07-10
PRJNA1821802019-04-25
Gene prediction for N. oceanica IMET12017-10-24
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR010920LSM_dom
IPR001163Ribonucl_LSM
Vocabulary: Biological Process
TermDefinition
GO:0016043cellular component organization
GO:0009056catabolic process
GO:0006139nucleobase-containing compound metabolic process
Vocabulary: Cellular Component
TermDefinition
GO:0005737cytoplasm
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
Homology
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: CBJ32339.1 (U6 snRNA-associated Sm-like protein LSm3 [Ectocarpus siliculosus])

HSP 1 Score: 160.2 bits (404), Expect = 3.100e-36
Identity = 76/92 (82.61%), Postives = 90/92 (97.83%), Query Frame = 0 
Query:    1 MSSSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            MSSSV+EPLDLIRLSLDER++VKCRGERELRGKLH++D+HLNM+LGDVEETVTT E+DE+T EEI+RTS+R++EMLFVRGDVVILVSPP+RT
Sbjct:    1 MSSSVEEPLDLIRLSLDERIHVKCRGERELRGKLHSYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPVRT 92
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: XP_004367680.1 (LSM Smlike protein family member, putative [Acanthamoeba castellanii str. Neff] >ELR22424.1 LSM Smlike protein family member, putative [Acanthamoeba castellanii str. Neff])

HSP 1 Score: 152.5 bits (384), Expect = 6.400e-34
Identity = 74/92 (80.43%), Postives = 86/92 (93.48%), Query Frame = 0 
Query:    1 MSSSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            + S+V+EPLDLIRLSLD+R+YVK RGERELRGKLHA+D+HLNM+LGDVEETVTT E+DEETDEEII+  +RTVEMLFVRGD VILVSPP+RT
Sbjct:   11 LGSTVEEPLDLIRLSLDDRIYVKLRGERELRGKLHAYDQHLNMVLGDVEETVTTVEMDEETDEEIIKRRKRTVEMLFVRGDGVILVSPPVRT 102
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: OQR97738.1 (U6 snRNA-associated Sm-like protein LSm3 [Achlya hypogyna])

HSP 1 Score: 148.7 bits (374), Expect = 9.200e-33
Identity = 70/91 (76.92%), Postives = 85/91 (93.41%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRTG 94
            +S+DEPLDLI+LSLDER+YVKCRG+RELRGKL A+D+HLNMIL DVEETVT+ EID+ET EEI++ ++R VEMLFVRGDVV+LV+PPLRTG
Sbjct:    2 ASIDEPLDLIKLSLDERIYVKCRGDRELRGKLQAYDQHLNMILSDVEETVTSHEIDQETYEEIVKQAKRQVEMLFVRGDVVVLVAPPLRTG 92
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: OQS00581.1 (U6 snRNA-associated Sm LSm3 [Thraustotheca clavata])

HSP 1 Score: 148.7 bits (374), Expect = 9.200e-33
Identity = 70/91 (76.92%), Postives = 85/91 (93.41%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRTG 94
            +S+DEPLDLI+LSLDER+YVKCRG+RELRGKL A+D+HLNMIL DVEETVT+ EID+ET EEI++ ++R VEMLFVRGDV+ILV+PPLRTG
Sbjct:    2 ASIDEPLDLIKLSLDERIYVKCRGDRELRGKLQAYDQHLNMILSDVEETVTSHEIDQETYEEIVKQAKRQVEMLFVRGDVIILVAPPLRTG 92
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: OEU20632.1 (like-Sm ribonucleo protein [Fragilariopsis cylindrus CCMP1102])

HSP 1 Score: 148.3 bits (373), Expect = 1.200e-32
Identity = 70/88 (79.55%), Postives = 81/88 (92.05%), Query Frame = 0 
Query:    5 VDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            ++EPLDLIRLS+DERVYVKCRG RELRGKLHA+D+HLNMILG+VEETVTT EIDEETDEEI++   R V MLFVRGD+++LVSPPLRT
Sbjct:    1 MEEPLDLIRLSIDERVYVKCRGSRELRGKLHAYDQHLNMILGEVEETVTTTEIDEETDEEIVKKQTRKVGMLFVRGDIIVLVSPPLRT 88
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: XP_008610013.1 (U6 snRNA-associated Sm-like protein LSm3 [Saprolegnia diclina VS20] >XP_012205738.1 U6 snRNA-associated Sm-like protein LSm3 [Saprolegnia parasitica CBS 223.65] >EQC36592.1 U6 snRNA-associated Sm-like protein LSm3 [Saprolegnia diclina VS20] >KDO23590.1 U6 snRNA-associated Sm-like protein LSm3 [Saprolegnia parasitica CBS 223.65])

HSP 1 Score: 147.9 bits (372), Expect = 1.600e-32
Identity = 68/91 (74.73%), Postives = 85/91 (93.41%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRTG 94
            +S+DEPLDLI+LSLDER+YVKCRG+RELRGKL A+D+HLNMIL DVEETVT+ E+D+ET EEI++ ++R VEMLFVRGDV++LV+PPLRTG
Sbjct:    2 ASIDEPLDLIKLSLDERIYVKCRGDRELRGKLQAYDQHLNMILSDVEETVTSHEVDQETYEEIVKQAKRQVEMLFVRGDVIVLVAPPLRTG 92
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: XP_002889106.1 (sm-like protein LSM3B [Arabidopsis lyrata subsp. lyrata] >EFH65365.1 hypothetical protein ARALYDRAFT_895567 [Arabidopsis lyrata subsp. lyrata])

HSP 1 Score: 147.1 bits (370), Expect = 2.700e-32
Identity = 72/90 (80.00%), Postives = 83/90 (92.22%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            ++V EPLDLIRLSLDER+YVK R +RELRGKLHAFD+HLNMILGDVEET+TT EID+ET EEI+RT++RT+E LFVRGD VILVSPPLRT
Sbjct:    7 ATVREPLDLIRLSLDERIYVKLRSDRELRGKLHAFDQHLNMILGDVEETITTVEIDDETYEEIVRTTKRTIEFLFVRGDGVILVSPPLRT 96
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: NP_177812.1 (Small nuclear ribonucleoprotein family protein [Arabidopsis thaliana] >Q9C6K5.1 RecName: Full=Sm-like protein LSM3B; Short=AtLSM3B; AltName: Full=U6 snRNA-associated Sm-like protein LSM3B >AAG51149.1 Sm-like protein [Arabidopsis thaliana] >AAM64339.1 Sm-like protein [Arabidopsis thaliana] >ABF58993.1 At1g76860 [Arabidopsis thaliana] >AEE35896.1 Small nuclear ribonucleoprotein family protein [Arabidopsis thaliana] >OAP19292.1 LSM3B [Arabidopsis thaliana])

HSP 1 Score: 147.1 bits (370), Expect = 2.700e-32
Identity = 72/90 (80.00%), Postives = 83/90 (92.22%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            ++V EPLDLIRLSLDER+YVK R +RELRGKLHAFD+HLNMILGDVEET+TT EID+ET EEI+RT++RT+E LFVRGD VILVSPPLRT
Sbjct:    7 ATVREPLDLIRLSLDERIYVKLRSDRELRGKLHAFDQHLNMILGDVEETITTVEIDDETYEEIVRTTKRTIEFLFVRGDGVILVSPPLRT 96
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: GAX28631.1 (U6 snRNA-associated Sm-like protein LSm3 [Fistulifera solaris])

HSP 1 Score: 147.1 bits (370), Expect = 2.700e-32
Identity = 67/89 (75.28%), Postives = 82/89 (92.13%), Query Frame = 0 
Query:    5 VDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRTG 94
            ++EPLDLIRLS+DERVYVKCRG+REL+GKLHA+D+HLNM+LGDVEETVT+ E+D ETDEEI++   R V MLFVRGD+++LVSPPLRTG
Sbjct:    1 MEEPLDLIRLSIDERVYVKCRGDRELKGKLHAYDQHLNMVLGDVEETVTSTEVDPETDEEIVKKHTRKVGMLFVRGDIIVLVSPPLRTG 89
[Close]
BLAST of NO30G01100 vs. NCBI_GenBank
Match: XP_008441520.1 (PREDICTED: sm-like protein LSM3B [Cucumis melo] >XP_004140968.2 PREDICTED: sm-like protein LSM3B [Cucumis sativus] >KGN46145.1 hypothetical protein Csa_6G057110 [Cucumis sativus])

HSP 1 Score: 146.7 bits (369), Expect = 3.500e-32
Identity = 74/90 (82.22%), Postives = 82/90 (91.11%), Query Frame = 0 
Query:    3 SSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEETVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRT 93
            S+V EPLDLIRLSLDER+YVK R +RELRGKLHA+D+HLNMILGDVEE+VTT EID+ET EEI+RTSRRTV  LFVRGD VILVSPPLRT
Sbjct:    7 STVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEESVTTVEIDDETYEEIVRTSRRTVPFLFVRGDGVILVSPPLRT 96
The following BLAST results are available for this feature:
BLAST of NO30G01100 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20
Match NameE-valueIdentityDescription
CBJ32339.13.100e-3682.61U6 snRNA-associated Sm-like protein LSm3 [Ectocarp... [more]
XP_004367680.16.400e-3480.43LSM Smlike protein family member, putative [Acanth... [more]
OQR97738.19.200e-3376.92U6 snRNA-associated Sm-like protein LSm3 [Achlya h... [more]
OQS00581.19.200e-3376.92U6 snRNA-associated Sm LSm3 [Thraustotheca clavata... [more]
OEU20632.11.200e-3279.55like-Sm ribonucleo protein [Fragilariopsis cylindr... [more]
XP_008610013.11.600e-3274.73U6 snRNA-associated Sm-like protein LSm3 [Saproleg... [more]
XP_002889106.12.700e-3280.00sm-like protein LSM3B [Arabidopsis lyrata subsp. l... [more]
NP_177812.12.700e-3280.00Small nuclear ribonucleoprotein family protein [Ar... [more]
GAX28631.12.700e-3275.28U6 snRNA-associated Sm-like protein LSm3 [Fistulif... [more]
XP_008441520.13.500e-3282.22PREDICTED: sm-like protein LSM3B [Cucumis melo] >X... [more]

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Relationships

This gene is member of the following syntenic_region feature(s):

Feature NameUnique NameSpeciesType
ncniR073ncniR073Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR098ngnoR098Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


The following polypeptide feature(s) derives from this gene:

Feature NameUnique NameSpeciesType
NO30G01100.1NO30G01100.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


The following gene feature(s) are orthologous to this gene:

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|610486gene_10224Nannochloropsis oceanica (N. oceanica CCMP1779)gene


The following mRNA feature(s) are a part of this gene:

Feature NameUnique NameSpeciesType
NO30G01100.1NO30G01100.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO30G01100 ID=NO30G01100|Name=NO30G01100|organism=Nannochloropsis oceanica|type=gene|length=1414bp
CAGAAAGCGTGTCTGTGTGTGGCTTGTGATTGTGGGTGTAGGATGGAAAG
TTTAGAGGGGTGGCTTTTCTTGCTTCATCGTCTCCCGACCTCCCGTTACA
CTGCAATAATTCCTTTTTGCCTTCCCTGTACTTCACAGCGAGAGACCTCA
CGCACATGAATGAACCTCTTGCCTGTAGCTAATGTCGCTTTCACCACTCT
CCCCCTCACCACTTCCCCCCGTTTTTCACATAGCTGTGATCTGATCTAAC
CCGCCGGTTAGGGTTAGGGCTTTCTAATAATCCTCGCCACCATCATACAC
CACTTAAGCACCCCTCCCTCTCTCTCTCTCCCCCTCCCTCCCTTCCTCCC
CCCCCTGCCTCTCTCGGTACAGCCATGTCCTCTTCGGTCGATGAGCCTTT
GGACCTGATCCGTCTGTCCCTAGATGAAAGGGTTTATGTCAAGTGCCGCG
GGGAGAGGGAGCTGCGAGGAAAGCTGCATgtaagtgggagggagggaaga
aaggagggagagatggatgtagggttgaatatgaagggcgatgaagagat
ccatgtccctgtgtggagggagtgtagaaggtgtagtgagtagggcaaca
ggggacctcgcctcttttttttccgcttaccacagggccctcgtgctcac
cgctctttctccttgcatccatccctctcttcctcctcccccccctctct
tttctccttccccacagGCGTTTGACAGACATCTTAATATGATACTGGGA
GACGTGGAGGAGACAGTGACCACGCCGGAAATCGACGAGGAAACCGACGA
AGAAATAATCAGGgtaagtgtccctttccctcccctcctccctccctcct
tccctcccttccatctattcaaccctgattttggatgatagaggtggaag
agtcccaggataatgtcaccagatatatagataccgacaatgacacagac
aaggcgactctgacggagggagggagggatggagggagagagggagggag
tggtatgtacgacaaatatcgggagagagatcgtgaccatacgcgaaatc
atgcccatgaaacaaattagaagattttgaggatgcactttattctttcc
ctccctccctcccttcctccctccctccctcctttggttcattctccctt
ttcaccatcttcctccctccctccctccctccctccctccagACCTCGCG
TAGGACTGTGGAGATGCTATTTGTCCGGGGGGATGTCGTCATTCTGGTGT
CTCCGCCCTTGCGCACTGGTTGAAGATAAAAAAGAAAGAAAAAAGAAAAA
CATAGATAAGAGCGTGGGAAAGAAGGAGAAGGAGCGAGGGGGGGAGGAAA
GGAGGGAGGGAAGGCGACCGCATGATAAGTAAAACAAAGCAGAACACAGA
AAGCAGAAAACGGA
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protein sequence of NO30G01100.1

>NO30G01100.1-protein ID=NO30G01100.1-protein|Name=NO30G01100.1|organism=Nannochloropsis oceanica|type=polypeptide|length=94bp
MSSSVDEPLDLIRLSLDERVYVKCRGERELRGKLHAFDRHLNMILGDVEE
TVTTPEIDEETDEEIIRTSRRTVEMLFVRGDVVILVSPPLRTG*
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Synonyms
Publications