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
BLAST of NO03G04180 vs. NCBI_GenBank
Match: OQR98120.1 (U6 snRNA-associated Sm-like protein LSm1-like isoform X1 [Achlya hypogyna])

HSP 1 Score: 119.4 bits (298), Expect = 2.100e-23
Identity = 58/114 (50.88%), Postives = 85/114 (74.56%), Query Frame = 0
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIELLQESVEAG---AKLEWDFE 325
            PG  S+ E LDKQ++VVLRDGR+LVG+ RSFDQYSN+VL+DT ERHVV + Y D+PLGLY++RG+++V++GE+D  +E+    LVK T +E++    +  +AG    +  W+F+
Sbjct:    5 PGVTSMTELLDKQMLVVLRDGRHLVGMFRSFDQYSNIVLQDTCERHVVGNTYCDIPLGLYIIRGENIVIMGELDQEKEASQVNLVKKTPEEVLAAEADQNDAGVATVRGTWNFD 118          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_008614514.1 (hypothetical protein SDRG_10308 [Saprolegnia diclina VS20] >EQC32112.1 hypothetical protein SDRG_10308 [Saprolegnia diclina VS20])

HSP 1 Score: 119.0 bits (297), Expect = 2.700e-23
Identity = 57/114 (50.00%), Postives = 85/114 (74.56%), Query Frame = 0
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIELLQESVEAGA---KLEWDFE 325
            PG  S+ E LDKQ++VVLRDGR+LVG+ RSFDQYSN+VL+DT ERHVV + Y D+PLGLY++RG+++V++GE+D  +E+    L+K T +E++    +  + GA   +  W+F+
Sbjct:    5 PGVTSMTELLDKQMLVVLRDGRHLVGVFRSFDQYSNIVLQDTCERHVVGNTYCDIPLGLYIIRGENIVIMGELDQEKEASQVNLIKKTPEEVLAAEADLHDTGAVTVRGTWNFD 118          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_001894349.1 (U6 snRNA-associated Sm-like protein LSm [Brugia malayi] >EJW85479.1 LSM1 protein [Wuchereria bancrofti] >CRZ24112.1 BMA-LSM-1 [Brugia malayi])

HSP 1 Score: 118.2 bits (295), Expect = 4.600e-23
Identity = 57/112 (50.89%), Postives = 83/112 (74.11%), Query Frame = 0
Query:  211 LPD-YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARES-EALVKVTADEIIELLQESVEAGAKLE 321
            LPD YLPGA SL EQLDK+++VVLRDGR L+G LR+ DQ++N+VL +T ER  VD+ YGD+  G++L+RG+++V+ GE+D  +E    L+ ++A EI+ L QE +E   + E
Sbjct:    3 LPDPYLPGALSLLEQLDKKLLVVLRDGRTLIGYLRTIDQFANLVLHETLERIHVDNYYGDIERGVFLIRGENVVLAGEIDETKEQLSGLIPLSAKEILSLQQEKIEEKERFE 114          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: KHN77802.1 (U6 snRNA-associated Sm-like protein LSm1 [Toxocara canis])

HSP 1 Score: 117.9 bits (294), Expect = 6.000e-23
Identity = 56/112 (50.00%), Postives = 82/112 (73.21%), Query Frame = 0
Query:  211 LPD-YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESE-ALVKVTADEIIELLQESVEAGAKLE 321
            LPD YLPGA SL +QLDK+++V+LRDGR L+G LR+ DQ++N+VL +T ER  VD  YGD+P G++L+RG+++V+ GE+D  +E    L  V+ DEI+ + +E  EA  + E
Sbjct:    3 LPDPYLPGAISLLDQLDKKLLVILRDGRTLIGYLRTIDQFANLVLHETLERIHVDKYYGDIPRGIFLIRGENVVLAGEIDEQKEKHTGLTCVSVDEILSMQREKTEAKERFE 114          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: OQR92259.1 (hypothetical protein THRCLA_22395 [Thraustotheca clavata])

HSP 1 Score: 117.9 bits (294), Expect = 6.000e-23
Identity = 57/114 (50.00%), Postives = 84/114 (73.68%), Query Frame = 0
Query:  216 PGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA--LVKVTADEIIELLQESVEAG---AKLEWDFE 325
            PG  S+ E LDKQ++VVLRDGR+LVGI RSFDQYSN+VL++T ERHVV + Y D+PLGLY++RGD++V++GE+D  +E+    L+K + +E++    +  E G    +  W+F+
Sbjct:    5 PGVTSMTELLDKQMLVVLRDGRHLVGIFRSFDQYSNIVLQETCERHVVGNTYCDIPLGLYIIRGDNIVIMGELDQEKEASQVNLIKKSPEEVLAAEADQHEEGVVTVRGTWNFD 118          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: GAX94700.1 (Hypothetical protein PINS_002592 [Pythium insidiosum])

HSP 1 Score: 117.9 bits (294), Expect = 6.000e-23
Identity = 54/114 (47.37%), Postives = 83/114 (72.81%), Query Frame = 0
Query:  214 YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEALVKVTADEIIELLQESVEAGA---KLEWDFE 325
            +LPG  SL +QLDK+I+VVLRDGR+LVG++RSFDQYSN++L+DTYERHV    + D+ LGL ++RG+++V+LG+ +  R+   + + T DE+ E  +     GA   + +W+F+
Sbjct:    4 FLPGNISLIDQLDKRILVVLRDGRHLVGVVRSFDQYSNIILQDTYERHVAGGLFCDIELGLNIIRGENIVLLGDEEKERDXXHMKRATMDEVCEAEERLNAEGATSVRTQWEFD 117          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_003144370.1 (U6 snRNA-associated Sm-family protein LSm [Loa loa] >EFO19702.1 U6 snRNA-associated Sm-family protein LSm [Loa loa])

HSP 1 Score: 117.5 bits (293), Expect = 7.900e-23
Identity = 57/112 (50.89%), Postives = 83/112 (74.11%), Query Frame = 0
Query:  211 LPD-YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARE-SEALVKVTADEIIELLQESVEAGAKLE 321
            LPD YLPGA SL EQLDK+++VVLRDGR L+G LR+ DQ++N+VL +T ER  VD  YGD+  G++L+RG+++V+ GE+D  +E S  L+ ++A EI+ L +E +E   + E
Sbjct:    3 LPDPYLPGALSLLEQLDKKLLVVLRDGRTLIGYLRTIDQFANLVLHETLERIHVDKYYGDIQRGVFLIRGENVVLAGEIDETKEQSSGLIPLSAKEILSLQREKIEEKERFE 114          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_009024599.1 (hypothetical protein HELRODRAFT_102128 [Helobdella robusta] >ESN97443.1 hypothetical protein HELRODRAFT_102128 [Helobdella robusta])

HSP 1 Score: 115.5 bits (288), Expect = 3.000e-22
Identity = 55/99 (55.56%), Postives = 78/99 (78.79%), Query Frame = 0
Query:  214 YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARES-EALVKVTADEIIELLQE 312
            +LPG ASL E++DK+++VVLRD R L+G LRS DQ++N+VL+ T ER  V DK+GD+P G+++VRG+++V+LGE+DP  ES   L KV  DEI+ +LQE
Sbjct:    3 FLPGTASLIEEIDKKLLVVLRDSRTLIGYLRSIDQFANLVLQQTIERIYVGDKFGDIPRGIFIVRGENVVLLGEIDPELESMTKLTKVNIDEIL-MLQE 100          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: XP_015752092.1 (PREDICTED: U6 snRNA-associated Sm-like protein LSm1 isoform X2 [Acropora digitifera])

HSP 1 Score: 115.5 bits (288), Expect = 3.000e-22
Identity = 52/99 (52.53%), Postives = 80/99 (80.81%), Query Frame = 0
Query:  214 YLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEALVK-VTADEIIELLQE 312
            +LPG ASL +++DK++MVVLRDGR L+G LRS DQ++N++L+DT ER  V +KYGD+P G++LVRG++MV++GE+D  +E+ + +K V+  EI+E  +E
Sbjct:    3 FLPGTASLIKEIDKKLMVVLRDGRTLIGYLRSIDQFANLLLQDTIERIHVGEKYGDIPRGIFLVRGENMVLMGEIDEEKEANSKLKEVSVQEILEAQRE 101          
BLAST of NO03G04180 vs. NCBI_GenBank
Match: ADD38614.1 (U6 snRNA-associated Sm-like protein LSm1 [Lepeophtheirus salmonis])

HSP 1 Score: 115.2 bits (287), Expect = 3.900e-22
Identity = 56/101 (55.45%), Postives = 78/101 (77.23%), Query Frame = 0
Query:  210 MLPDYLPGAASLFEQLDKQIMVVLRDGRNLVGILRSFDQYSNMVLEDTYERHVVDDKYGDLPLGLYLVRGDSMVMLGEVDPARESEA---LVKVTADEIIE 308
            M   YLPG AS+ E+LDK++MV+LRDGR L+GILRS DQY+N+VL    ER  V + YGD+P G+++VRG+++V+LGE+D  RESEA   L +V+ +EI+E
Sbjct:    1 MSDHYLPGTASIMEELDKKLMVLLRDGRTLIGILRSVDQYANLVLHRAIERIHVGNDYGDIPRGIFVVRGENVVLLGEIDEVRESEANSKLREVSLEEILE 101          
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
OQR98120.12.100e-2350.88U6 snRNA-associated Sm-like protein LSm1-like isof... [more]
XP_008614514.12.700e-2350.00hypothetical protein SDRG_10308 [Saprolegnia dicli... [more]
XP_001894349.14.600e-2350.89U6 snRNA-associated Sm-like protein LSm [Brugia ma... [more]
KHN77802.16.000e-2350.00U6 snRNA-associated Sm-like protein LSm1 [Toxocara... [more]
OQR92259.16.000e-2350.00hypothetical protein THRCLA_22395 [Thraustotheca c... [more]
GAX94700.16.000e-2347.37Hypothetical protein PINS_002592 [Pythium insidios... [more]
XP_003144370.17.900e-2350.89U6 snRNA-associated Sm-family protein LSm [Loa loa... [more]
XP_009024599.13.000e-2255.56hypothetical protein HELRODRAFT_102128 [Helobdella... [more]
XP_015752092.13.000e-2252.53PREDICTED: U6 snRNA-associated Sm-like protein LSm... [more]
ADD38614.13.900e-2255.45U6 snRNA-associated Sm-like protein LSm1 [Lepeopht... [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