NO03G04180, NO03G04180 (gene) Nannochloropsis oceanica

Overview
NameNO03G04180
Unique NameNO03G04180
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length975
Alignment locationchr3:1208864..1209838 -

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Properties
Property NameValue
DescriptionU6 snrna-associated sm-like protein lsm1
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr3genomechr3:1208864..1209838 -
Analyses
This gene is derived from or has results from the following analyses
Analysis NameDate Performed
GSE1786722023-12-15
PRJNA9336932023-10-26
PRJNA9434492023-07-19
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:0009056catabolic process
GO:0006139nucleobase-containing compound metabolic process
Homology
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: EWM29828.1 (u6 snrna-associated sm-like protein lsm1 [Nannochloropsis gaditana])

HSP 1 Score: 219.5 bits (558), Expect = 1.500e-53
Identity = 103/129 (79.84%), Postives = 120/129 (93.02%), Query Frame = 0 
Query:  196 PGPHYMLPPRPFMAMLPDYLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEALVKVTADEIIELLQESVEAGAKLEWDFE 325
            PGPHYMLPPRPF+A+LPDYLPGAASL EQLD++++VVLRDGRNLVG++RSFDQ+SNMVLEDTYERHVVD KYGDLPLGLYLVRGD++V+LGEV+  RE ++L KVT +EI+ELLQ S EAGAKLEWDFE
Sbjct:  244 PGPHYMLPPRPFVAVLPDYLPGAASLVEQLDRRVLVVLRDGRNLVGVMRSFDQFSNMVLEDTYERHVVDGKYGDLPLGLYLVRGDAVVLLGEVEAEREGKSLEKVTTEEILELLQGSGEAGAKLEWDFE 372
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: CBN80133.1 (Sm-like protein LSm1 [Ectocarpus siliculosus])

HSP 1 Score: 140.6 bits (353), Expect = 8.700e-30
Identity = 70/113 (61.95%), Postives = 93/113 (82.30%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPAR-ESEALVKVTADEIIELLQES---VEAGAKLEWDFE 325
            PG+ASLFEQLDK++MVVLRDGR+LVG++RS+DQ+SN+VLEDT+ERH V D +GD+ LGLYLVRGD++V++GE+D  R E+  L +V+ADEIIE  QE+       AKL+W F+
Sbjct:   23 PGSASLFEQLDKRVMVVLRDGRHLVGVMRSYDQFSNIVLEDTHERHFVRDIFGDISLGLYLVRGDALVLMGELDETREETPRLRRVSADEIIEAQQEASAEERQDAKLDWLFQ 135
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_008868775.1 (hypothetical protein H310_05739 [Aphanomyces invadans] >ETW02170.1 hypothetical protein H310_05739 [Aphanomyces invadans])

HSP 1 Score: 129.8 bits (325), Expect = 1.500e-26
Identity = 62/114 (54.39%), Postives = 88/114 (77.19%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIELLQESVEAGAKL---EWDFE 325
            PG +SL EQLDKQ++VVLRDGR+LVG+LRSFDQ+SN+VLE T ERH+V + Y D+PLGLY++RG+++V++GE+DP +E+E   LV+  A+E++    E  E G      EW+F+
Sbjct:    8 PGVSSLVEQLDKQLLVVLRDGRHLVGMLRSFDQFSNIVLEGTCERHIVGNTYCDIPLGLYIIRGENIVLMGELDPVKEAEGVNLVQKDAEEVLTAEMEQNEQGVSTVRDEWNFD 121
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_009833853.1 (hypothetical protein, variant 1 [Aphanomyces astaci] >ETV76942.1 hypothetical protein, variant 1 [Aphanomyces astaci])

HSP 1 Score: 125.2 bits (313), Expect = 3.800e-25
Identity = 61/114 (53.51%), Postives = 88/114 (77.19%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESE--ALVKVTADEIIELLQESVEAG---AKLEWDFE 325
            PG +SL EQLDKQ++VVLRDGR+LVGI+RSFDQ+SN+VLE T ERHVV + Y D+PLGLY++RG+++V++GE+D A+E+E   L + +A+E++    E  E G    +  W+F+
Sbjct:    8 PGVSSLVEQLDKQLLVVLRDGRHLVGIIRSFDQFSNIVLEGTCERHVVGNTYCDIPLGLYIIRGENIVLMGELDQAKEAEDVNLTRKSAEEVLTAEMEQNEQGLPTVRDAWNFD 121
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_009530834.1 (hypothetical protein PHYSODRAFT_316685 [Phytophthora sojae] >EGZ13405.1 hypothetical protein PHYSODRAFT_316685 [Phytophthora sojae])

HSP 1 Score: 120.9 bits (302), Expect = 7.100e-24
Identity = 58/114 (50.88%), Postives = 83/114 (72.81%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIEL---LQESVEAGAKLEWDFE 325
            PG +SL +QLDKQ+++VLRDGR+LVG LRSFDQYSN++LEDTYERHV    + D+ LGL ++RGD++V+LGE+D  +E +   + +V  +E++E    L E      + +WDFE
Sbjct:    6 PGNSSLIQQLDKQVLMVLRDGRHLVGYLRSFDQYSNIILEDTYERHVAGGLFCDIELGLNIIRGDNIVLLGELDSDKERDQPHMKRVELEEVLEAEERLNEQGNTSVRQQWDFE 119
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_004347944.1 (LSM1 protein [Capsaspora owczarzaki ATCC 30864] >KJE93313.1 LSM1 protein [Capsaspora owczarzaki ATCC 30864])

HSP 1 Score: 120.6 bits (301), Expect = 9.300e-24
Identity = 57/112 (50.89%), Postives = 87/112 (77.68%), Query Frame = 0 
Query:  214 YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESE-ALVKVTADEIIELL---QESVEAGAKLEW 322
            Y PG+ASL E+LDK++MVVLRDGR L+G LRSFDQ++N+VL+DT ER  V D YGD+P G++L+RG+++V+LGE+D  ++++  L ++  +EI+ L    QE +EA  K+++
Sbjct:    5 YFPGSASLLEELDKKLMVVLRDGRKLIGFLRSFDQFANLVLQDTIERIYVGDAYGDIPRGIFLIRGENVVLLGEIDLQKDAQTTLRQLPVEEILVLQREEQERIEAQQKIQY 116
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_002676482.1 (predicted protein [Naegleria gruberi] >EFC43738.1 predicted protein [Naegleria gruberi])

HSP 1 Score: 120.2 bits (300), Expect = 1.200e-23
Identity = 57/95 (60.00%), Postives = 78/95 (82.11%), Query Frame = 0 
Query:  214 YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEALVKVTADEIIEL 309
            Y PGAASL +QLDK++MV+LRDG+ L+GILR +DQ+ NM LE T ER VV+DKYGDL +GLY+VRG+++V++GEVD +R+  +L +V  DEI+ L
Sbjct:   18 YFPGAASLSDQLDKKVMVILRDGKKLIGILRCYDQFVNMTLEKTVERIVVEDKYGDLDVGLYIVRGENVVLMGEVDESRDL-SLKQVPVDEILML 111
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_009041911.1 (hypothetical protein AURANDRAFT_72740 [Aureococcus anophagefferens] >EGB03380.1 hypothetical protein AURANDRAFT_72740 [Aureococcus anophagefferens])

HSP 1 Score: 119.4 bits (298), Expect = 2.100e-23
Identity = 63/118 (53.39%), Postives = 84/118 (71.19%), Query Frame = 0 
Query:  215 LPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVV--DDK-----YGDLPLGLYLVRGDSMVMLGEV-DPARESEALVKVTADEIIELLQESVEAGAKLEWDFE 325
            LP AASL +QLDK+++++LRDGRNLVG++RSFDQ+SN+VLEDTYER VV  DD+     YGD+PLGLY++RGDS+V+LGEV +    SE   +    E +  L+ S      + WD E
Sbjct:   10 LPAAASLVDQLDKKVLIILRDGRNLVGVMRSFDQFSNVVLEDTYERRVVIPDDESQPAVYGDVPLGLYVIRGDSVVLLGEVAEELEASEDHPRQLPIEDVVALERSGAGTTAVVWDIE 127
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_008911215.1 (hypothetical protein, variant 2 [Phytophthora parasitica INRA-310] >ETI38026.1 hypothetical protein, variant 2 [Phytophthora parasitica P1569] >ETK78240.1 hypothetical protein, variant 2 [Phytophthora parasitica] >ETL31675.1 hypothetical protein, variant 2 [Phytophthora parasitica] >ETM38088.1 hypothetical protein, variant 2 [Phytophthora parasitica] >ETN03442.1 hypothetical protein, variant 2 [Phytophthora parasitica INRA-310] >ETO66795.1 hypothetical protein, variant 2 [Phytophthora parasitica P1976] >ETP07916.1 hypothetical protein, variant 2 [Phytophthora parasitica CJ01A1] >ETP35946.1 hypothetical protein, variant 2 [Phytophthora parasitica P10297])

HSP 1 Score: 119.4 bits (298), Expect = 2.100e-23
Identity = 57/114 (50.00%), Postives = 83/114 (72.81%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIEL---LQESVEAGAKLEWDFE 325
            PG +SL +QLDKQ+++VLRDGR+LVG LRSFDQYSN++LEDT+ERHV    + D+ LGL ++RGD++V+LGE+D  +E +   + +V  +E++E    L E      + +WDFE
Sbjct:    6 PGNSSLIQQLDKQVLMVLRDGRHLVGYLRSFDQYSNIILEDTFERHVAGGLFCDIELGLNIIRGDNIVLLGELDSDKERDQPHMKRVELEEVLEAEERLNEEGNTSVRQQWDFE 119
[Close]
BLAST of NO03G04180 vs. NCBI_GenBank
Match: ETL84905.1 (hypothetical protein, variant 2 [Phytophthora parasitica])

HSP 1 Score: 119.4 bits (298), Expect = 2.100e-23
Identity = 57/114 (50.00%), Postives = 83/114 (72.81%), Query Frame = 0 
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIEL---LQESVEAGAKLEWDFE 325
            PG +SL +QLDKQ+++VLRDGR+LVG LRSFDQYSN++LEDT+ERHV    + D+ LGL ++RGD++V+LGE+D  +E +   + +V  +E++E    L E      + +WDFE
Sbjct:    6 PGNSSLIQQLDKQVLMVLRDGRHLVGYLRSFDQYSNIILEDTFERHVAGGLFCDIELGLNIIRGDNIVLLGELDSDKERDQPHMKRVELEEVLEAEERLNEEGNTSVRQQWDFE 119
The following BLAST results are available for this feature:
BLAST of NO03G04180 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20
Match NameE-valueIdentityDescription
EWM29828.11.500e-5379.84u6 snrna-associated sm-like protein lsm1 [Nannochl... [more]
CBN80133.18.700e-3061.95Sm-like protein LSm1 [Ectocarpus siliculosus][more]
XP_008868775.11.500e-2654.39hypothetical protein H310_05739 [Aphanomyces invad... [more]
XP_009833853.13.800e-2553.51hypothetical protein, variant 1 [Aphanomyces astac... [more]
XP_009530834.17.100e-2450.88hypothetical protein PHYSODRAFT_316685 [Phytophtho... [more]
XP_004347944.19.300e-2450.89LSM1 protein [Capsaspora owczarzaki ATCC 30864] >K... [more]
XP_002676482.11.200e-2360.00predicted protein [Naegleria gruberi] >EFC43738.1 ... [more]
XP_009041911.12.100e-2353.39hypothetical protein AURANDRAFT_72740 [Aureococcus... [more]
XP_008911215.12.100e-2350.00hypothetical protein, variant 2 [Phytophthora para... [more]
ETL84905.12.100e-2350.00hypothetical protein, variant 2 [Phytophthora para... [more]

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Relationships

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

Feature NameUnique NameSpeciesType
nonsL066nonsL066Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR000ncniR000Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR048ngnoR048Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


This gene is orthologous to the following gene feature(s):

Feature NameUnique NameSpeciesType
NSK005467NSK005467Nannochloropsis salina (N. salina CCMP1776)gene


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

Feature NameUnique NameSpeciesType
NO03G04180.1NO03G04180.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|522028gene_1615Nannochloropsis oceanica (N. oceanica CCMP1779)gene
LSm1gene776Nannochloropsis gaditana (N. gaditana B-31)gene


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

Feature NameUnique NameSpeciesType
NO03G04180.1NO03G04180.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO03G04180 ID=NO03G04180|Name=NO03G04180|organism=Nannochloropsis oceanica|type=gene|length=975bp
ATGGAGCAGGCCCAGTCAAAGTCCAAACCACCACCACAGCAGTCCGAAGC
TCCGGGTGGTTTGCCAGGCACCAAGATCGAGCTAAGCGACTTATTTGGCT
CTTATTCCGGGCGAGGGCCACCTATGCCTCCACCGCCGATGGAGCAACAG
CAGCAGCAAAACCCGCGCTCGATGCACGCGCAACAGCAGCAGCAAATGTC
CCCCGAAATGATGATGCAAATGCAGCAACAGCACTTATTTCAACAACACC
AAGCACAGCAAGATCAAGGCCCACCACGACCACCAGGCTTGGCTGGTAGC
CCCAATGGCCCGGGAGGTCCATCGTTGCCGCATCCTTTCCACATGCAGCC
TCCTCTCCCAGGAGTGCCACCAGGCATGATGATGATGCGTCCCCCACCCC
GAGGCCCTCCCGCCCCGCCCGGCTTTTTGCCTCCGCCTGGACATCCTCTC
TATAGCCCCCAGCAACACCAGCAGCAACAGCACCCAAACATGCCCCTTTC
GCCCCACTTTCCCCAGCCTCCTCCGTACATCCAACAGCAGCAGCAGCAGC
AAGTAATGAATACGATGGGTGGTGGAGGTCCTTCCCCTGGCCCTCATTAT
ATGCTCCCACCTCGCCCATTTATGGCGATGTTGCCCGATTACTTGCCAGG
GGCTGCTTCTTTGTTTGAGCAGCTGGACAAGCAAATCATGGTTGTGTTAA
GGGATGGGAGGAATTTAGTTGGGATCTTGCGATCCTTCGATCAGTATTCA
AACATGGTGCTGGAGGATACATATGAGCGGCACGTGGTTGACGACAAGTA
CGGTGACTTACCCTTGGGCTTGTACCTCGTAAGAGGAGACTCGATGGTGA
TGCTTGGAGAGGTGGACCCGGCGAGGGAGAGTGAGGCATTGGTAAAGGTG
ACAGCAGACGAGATCATTGAGTTGTTACAGGAGTCGGTGGAGGCAGGTGC
CAAATTGGAGTGGGACTTTGAGTAG
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protein sequence of NO03G04180.1

>NO03G04180.1-protein ID=NO03G04180.1-protein|Name=NO03G04180.1|organism=Nannochloropsis oceanica|type=polypeptide|length=325bp
MEQAQSKSKPPPQQSEAPGGLPGTKIELSDLFGSYSGRGPPMPPPPMEQQ
QQQNPRSMHAQQQQQMSPEMMMQMQQQHLFQQHQAQQDQGPPRPPGLAGS
PNGPGGPSLPHPFHMQPPLPGVPPGMMMMRPPPRGPPAPPGFLPPPGHPL
YSPQQHQQQQHPNMPLSPHFPQPPPYIQQQQQQQVMNTMGGGGPSPGPHY
MLPPRPFMAMLPDYLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYS
NMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEALVKV
TADEIIELLQESVEAGAKLEWDFE*
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Synonyms
Publications