NO05G03110, NO05G03110 (gene) Nannochloropsis oceanica

Overview
NameNO05G03110
Unique NameNO05G03110
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length2787
Alignment locationchr5:801677..804463 -

Link to JBrowse

Properties
Property NameValue
DescriptionSmall nuclear ribonucleoprotein f
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr5genomechr5:801677..804463 -
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
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: Cellular Component
TermDefinition
GO:0005732small nucleolar ribonucleoprotein complex
GO:0005634nucleus
Vocabulary: Biological Process
TermDefinition
GO:0000398mRNA splicing, via spliceosome
GO:0016043cellular component organization
GO:0006139nucleobase-containing compound metabolic process
Vocabulary: INTERPRO
TermDefinition
IPR010920LSM_dom
IPR016487Lsm6/sSmF
IPR001163Ribonucl_LSM
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
Homology
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: EWM28091.1 (small nuclear ribonucleoprotein f [Nannochloropsis gaditana])

HSP 1 Score: 170.6 bits (431), Expect = 2.000e-39
Identity = 78/83 (93.98%), Postives = 82/83 (98.80%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDDMDA 84
            MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYN+QLADTEEWIDGAM GNLGEVLIRCNNVLYVRGAP++DM+A
Sbjct:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNLQLADTEEWIDGAMAGNLGEVLIRCNNVLYVRGAPEEDMEA 83
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_002594949.1 (hypothetical protein BRAFLDRAFT_271061 [Branchiostoma floridae] >XP_019626202.1 PREDICTED: small nuclear ribonucleoprotein F [Branchiostoma belcheri] >EEN50960.1 hypothetical protein BRAFLDRAFT_271061 [Branchiostoma floridae])

HSP 1 Score: 134.8 bits (338), Expect = 1.200e-28
Identity = 59/80 (73.75%), Postives = 70/80 (87.50%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            MS + +NPKPFL GLTGKPV +KLKWGMEYKG L+SVD Y N+QLA+TEE+IDGA+ GNLGEVLIRCNNVLY+RG  ++D
Sbjct:    1 MSTLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNLQLANTEEYIDGALAGNLGEVLIRCNNVLYIRGVEEED 80
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BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_008776021.1 (PREDICTED: probable small nuclear ribonucleoprotein F isoform X2 [Phoenix dactylifera] >XP_010914148.1 PREDICTED: probable small nuclear ribonucleoprotein F isoform X2 [Elaeis guineensis] >XP_020100040.1 probable small nuclear ribonucleoprotein F [Ananas comosus])

HSP 1 Score: 134.8 bits (338), Expect = 1.200e-28
Identity = 59/80 (73.75%), Postives = 70/80 (87.50%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            M+AV VNPKPFL  LTGKPV +KLKWGMEYKG L+SVD+Y N+QLA+TEE+IDG   GNLGE+LIRCNNVLY+RG P+D+
Sbjct:    1 MAAVPVNPKPFLNNLTGKPVIVKLKWGMEYKGYLVSVDSYMNLQLANTEEYIDGQFSGNLGEILIRCNNVLYLRGVPEDE 80
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: PFX29483.1 (Small nuclear ribonucleoprotein F [Stylophora pistillata])

HSP 1 Score: 134.8 bits (338), Expect = 1.200e-28
Identity = 60/82 (73.17%), Postives = 71/82 (86.59%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDDMD 83
            M+ + +NPKPFL GLTGKPV +KLKWGMEYKG L+SVD Y NVQLA+TEE+IDGA+ GNLGEVLIRCNNVLYVRG  +++ D
Sbjct:   19 MATMPLNPKPFLNGLTGKPVIVKLKWGMEYKGYLVSVDGYMNVQLANTEEFIDGALTGNLGEVLIRCNNVLYVRGVDEEEED 100
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_022784256.1 (small nuclear ribonucleoprotein F [Stylophora pistillata])

HSP 1 Score: 134.8 bits (338), Expect = 1.200e-28
Identity = 60/82 (73.17%), Postives = 71/82 (86.59%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDDMD 83
            M+ + +NPKPFL GLTGKPV +KLKWGMEYKG L+SVD Y NVQLA+TEE+IDGA+ GNLGEVLIRCNNVLYVRG  +++ D
Sbjct:    1 MATMPLNPKPFLNGLTGKPVIVKLKWGMEYKGYLVSVDGYMNVQLANTEEFIDGALTGNLGEVLIRCNNVLYVRGVDEEEED 82
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_020270060.1 (probable small nuclear ribonucleoprotein F [Asparagus officinalis] >XP_020265854.1 probable small nuclear ribonucleoprotein F isoform X2 [Asparagus officinalis])

HSP 1 Score: 134.4 bits (337), Expect = 1.600e-28
Identity = 58/80 (72.50%), Postives = 70/80 (87.50%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            M+A+ VNPKPFL  LTGKPV +KLKWGMEYKG L+SVD+Y N+QLA+TEE+IDG   GNLGE+LIRCNNVLY+RG P+D+
Sbjct:    1 MAAIPVNPKPFLNNLTGKPVIVKLKWGMEYKGYLVSVDSYMNLQLANTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDE 80
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_023250898.1 (probable small nuclear ribonucleoprotein F [Seriola lalandi dorsalis])

HSP 1 Score: 134.4 bits (337), Expect = 1.600e-28
Identity = 59/80 (73.75%), Postives = 67/80 (83.75%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            MS V VNPKPFL  LTGKP+  KLKWGMEYKG L+SVD+Y N+Q+A TEEWIDG   GNLGEVLIRCNNVLY+RG P++D
Sbjct:    1 MSTVPVNPKPFLNDLTGKPIIAKLKWGMEYKGYLVSVDSYMNLQMASTEEWIDGEFSGNLGEVLIRCNNVLYMRGLPEED 80
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_006848141.1 (probable small nuclear ribonucleoprotein F [Amborella trichopoda] >XP_011624737.1 probable small nuclear ribonucleoprotein F [Amborella trichopoda] >XP_020525349.1 probable small nuclear ribonucleoprotein F [Amborella trichopoda] >ERN09722.1 hypothetical protein AMTR_s00029p00226370 [Amborella trichopoda])

HSP 1 Score: 134.0 bits (336), Expect = 2.100e-28
Identity = 58/80 (72.50%), Postives = 70/80 (87.50%), Query Frame = 0 
Query:    1 MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            M+ V VNPKPFL  LTGKPV +KLKWGMEYKG L+SVD+Y N+QLA+TEE+IDG + GNLGE+LIRCNNVLY+RG P+D+
Sbjct:    1 MATVPVNPKPFLNNLTGKPVMVKLKWGMEYKGYLVSVDSYMNLQLANTEEYIDGQLSGNLGEILIRCNNVLYLRGVPEDE 80
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: OVA07412.1 (Ribonucleoprotein LSM domain [Macleaya cordata])

HSP 1 Score: 134.0 bits (336), Expect = 2.100e-28
Identity = 59/79 (74.68%), Postives = 69/79 (87.34%), Query Frame = 0 
Query:    2 SAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            SAV VNPKPFL  LTGKPV +KLKWGMEYKG L+SVD+Y N+QLA+TEE+IDG   GNLGE+LIRCNNVLY+RG P+D+
Sbjct:   72 SAVPVNPKPFLNNLTGKPVMVKLKWGMEYKGYLVSVDSYMNLQLANTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDE 150
[Close]
BLAST of NO05G03110 vs. NCBI_GenBank
Match: XP_005646946.1 (small nuclear ribo protein F [Coccomyxa subellipsoidea C-169] >EIE22402.1 small nuclear ribo protein F [Coccomyxa subellipsoidea C-169])

HSP 1 Score: 134.0 bits (336), Expect = 2.100e-28
Identity = 60/79 (75.95%), Postives = 68/79 (86.08%), Query Frame = 0 
Query:    2 SAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEEWIDGAMMGNLGEVLIRCNNVLYVRGAPDDD 81
            + V VNPKPFL GLTGKPV IKLKWGMEYKG L+SVD+Y N+QLA TEE+IDG   GNLGEVLIRCNNVLY+RG P++D
Sbjct:    3 ATVPVNPKPFLNGLTGKPVIIKLKWGMEYKGYLVSVDSYMNLQLASTEEYIDGQFTGNLGEVLIRCNNVLYMRGVPEED 81
The following BLAST results are available for this feature:
BLAST of NO05G03110 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20
Match NameE-valueIdentityDescription
EWM28091.12.000e-3993.98small nuclear ribonucleoprotein f [Nannochloropsis... [more]
XP_002594949.11.200e-2873.75hypothetical protein BRAFLDRAFT_271061 [Branchiost... [more]
XP_008776021.11.200e-2873.75PREDICTED: probable small nuclear ribonucleoprotei... [more]
PFX29483.11.200e-2873.17Small nuclear ribonucleoprotein F [Stylophora pist... [more]
XP_022784256.11.200e-2873.17small nuclear ribonucleoprotein F [Stylophora pist... [more]
XP_020270060.11.600e-2872.50probable small nuclear ribonucleoprotein F [Aspara... [more]
XP_023250898.11.600e-2873.75probable small nuclear ribonucleoprotein F [Seriol... [more]
XP_006848141.12.100e-2872.50probable small nuclear ribonucleoprotein F [Ambore... [more]
OVA07412.12.100e-2874.68Ribonucleoprotein LSM domain [Macleaya cordata][more]
XP_005646946.12.100e-2875.95small nuclear ribo protein F [Coccomyxa subellipso... [more]

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Relationships

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

Feature NameUnique NameSpeciesType
nonsL085nonsL085Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR092ncniR092Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR117ngnoR117Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


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

Feature NameUnique NameSpeciesType
NSK003556NSK003556Nannochloropsis salina (N. salina CCMP1776)gene


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

Feature NameUnique NameSpeciesType
NO05G03110.2NO05G03110.2-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide
NO05G03110.1NO05G03110.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|584622gene_3116Nannochloropsis oceanica (N. oceanica CCMP1779)gene


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

Feature NameUnique NameSpeciesType
NO05G03110.2NO05G03110.2Nannochloropsis oceanica (N. oceanica IMET1)mRNA
NO05G03110.1NO05G03110.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO05G03110 ID=NO05G03110|Name=NO05G03110|organism=Nannochloropsis oceanica|type=gene|length=2787bp
TGGATCTTGTAAATCTAAGCCTGTGTTGTGGGTGCGTAAAGTGAGCAAGA
AGTCTTAAGCGATTTTGGAGAAGGGGCTCCTGAGAGCCTTGTATTATTCG
TGTTGCCCTCCCATTCCGAGTGACCATCCTGAGCCCTCAAGCCTATCACC
CATTCCGTTGCCACCATCACACGTACAGGATCTGAAAGTGCCACTCCTGT
AGCTGGCTGTCGACCATCCAGGGGGCTATGGTTTTCGTTGGGCTGGCACG
TGCACTGGTCGCCACTTGCTCGACACGGATATCGCACATCATCTAAGGCA
CCACTTTTTCTTTCGCTCACTCTGCTTGACCTTTACCCCACACATACACA
CCACAAATCAAAAGGGTAGCATCCAACATAATAGCTTCCCTATCAGAAGC
CCCTCGGTCAAATGTCGGCAgtaagtagtgtagcggtggatttgggacag
attttaacaacagactatcctcccacgctcacgccttccgactccccact
cgcactctatcactttatagGTGCTCGTGAACCCCAAGCCCTTCCTGCAA
GGCCTAACAGGCAAGCCAGTCTTCATCAAGCTTAAGTGGGGCATGGAGTA
CAAGGGTATGTCATGGTGTTTCTGGCTCTGTGAATGTACCTTTCCTTCTC
CCTTCCCTCCCATCTTAGCAGGACACCACCACCATCCTGCCAGTCGCGGC
GTATTATCTCACAGCTAATGCGATCAATGGTGCCATACCCTGCCGACATG
CGTGCATGTAATCGCCCTCTTTGTTCTTATCTGCACCTCCCCGCCGTGCT
ATGAAGACCATCCTACTCAAATCAATTTGTTCCTTACCTTGTTTTCCCAC
GTTAGGCATCCTTTTGTCTGTCGATAACTACTACAACGTGCAGCTGGCAG
ATACAGAGGAATGGATTGATGGAGCTATGATGGGAAATTTGGGGGAGGTG
CTCATCAGgtatgaagaacagaaagaaggaagacaggagagggagacagg
gtgaaaggagaaagaggagacagggtgtaaggagaaagaggagagcagga
gcaggaaggggagggtcgctaaggcaacgctaagtaaaaagaatcgacgt
ctcaccccctccctttcctgctcgctcacactcaaacacatacccacccc
ttcccacgaatatgaaaacgaatataaacgtgatagATGCAACAACGTGT
TGTACGTGCGGGGCGCGCCGGATGACGACATGGACGCATAGAAGAGAAGG
GTTGAGAAGAATGAAATTAAATAGCGCACAGAGAGGAAAGAGATGAGAAA
GTGGAGCGTAGAGTGTGGTGTGTACGCTTGGTGTGTAAAAGGCCAAAAGA
GGAAGAAATAAAGGCAACGACGGGGAGTTGAAAAAAAACCCAAAAAGCCT
TGCTGAGACACAATTGACCGCTCGCTACGACCTGCTTTTTGCGGCTACGA
TTTACTACCTTTCCACTATTTCTTTCTGCATTTAACGCCGATTTTGCTGT
CTTTATTTGTCTATGTACACACACGTGCGTATCTTCGTCCCGCCTCCCTC
AAACCTTTTTATAATCATACTTGAGCTTATCCAATAAATCAATCTCTTTC
GTCAATCTCCGCAAGTCCCTATCCACATGTAGGGAAACGGCCAGGACGAA
TAGAGCAGTGACAGGGAGCCACCAGAAACCAATGGCGGGGTAGGGTGTGT
ACTGATAGAAGACGCTGTAATCGTATGGGTGATGAAGGTGCGGAGTAAGG
GATCAAAGTGCCGCATGTTAGTGTGGGGCGGGGAGATGTGGGTGGCCTCC
CTTTCTTTTCCGTCTAAAGTTTCCTTGCACCAGCACAAGATCAGCAAGAA
GCGACCAAGAAAGCAAGACCAAAGAACAAGACCAAGAGAAAACATTTAAA
AAAGACGTGTAAAATAGGATTTTACATTTACTTCCATACCCGAGCCACGC
GACGAGATTTAGAACGCCAACGCCGAAGCCAAGGAAGAGGAGGGTCTTGT
TTGGTCGGCCCTGTGTGTAAAGATAGAAAAGGGTGGTTAGGAGCGAGGTT
TGAAAACCGACAACATCATCCAAATCAATCCATCCAGGCTCCAATAAACG
TACCGCAAACACCGAAATCGCCGCGACGACACACTGGACGTCTGCGAAAT
ATGTGAGTAGAAAGCTGAAGGGGGAGACGGCAGACTGGAAAAAGGCTTGG
TGCTCGAGGAAGTAGGGCATGGTCAGTGTCATCGCGGTGCAGTAGATGAA
GGCCAGGAGCAACAAAACATACAGTGCTTGGAATAGCCGCTGCGTGAGGG
GAAAGTAGGCAAGGGAGAAATGGCAAAGGAGATGAGCGCAGAAGAAGGAA
AGGCAACTGCAGGATGGGAGAAAGGAAAGAAGGAAAATAGTAGGACTATG
ACTATCTAAGCCTGATCTCGCGTGGAGAAAATTCTCTACCACTACCATCT
ACCTGCCTTTCAGGTAGACATCCGACAATCGATGGAACAAAAGGATAGCG
TGCGGACCTGTCGTATCCTCTCTCAGCTGCAGCACATTCTCACCAAATGC
TTTGCCCCTCCCACCGTCCTTCTATCCGACCACCCATCTTACCCGCGTAC
TCTGACTTTGCTCCTCCCCTTTCCGCCGCAGCTCTGCGATTAGCCTCGCC
TGCTCGTCCTCGTCCAGCAAGTCGGGCTGGTTCCCCTCGTCCTCGTCCCC
CGCGTCCTCATTATCCCCGTCCTGCACGGGCCGAGGTCGCCTTCTGTTGC
TCATAGCTAATGTCGTGTGCCTGTGACCGTGTTTTTC
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protein sequence of NO05G03110.2

>NO05G03110.2-protein ID=NO05G03110.2-protein|Name=NO05G03110.2|organism=Nannochloropsis oceanica|type=polypeptide|length=71bp
MKTILLKSICSLPCFPTLGILLSVDNYYNVQLADTEEWIDGAMMGNLGEV
LIRCNNVLYVRGAPDDDMDA*
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protein sequence of NO05G03110.1

>NO05G03110.1-protein ID=NO05G03110.1-protein|Name=NO05G03110.1|organism=Nannochloropsis oceanica|type=polypeptide|length=84bp
MSAVLVNPKPFLQGLTGKPVFIKLKWGMEYKGILLSVDNYYNVQLADTEE
WIDGAMMGNLGEVLIRCNNVLYVRGAPDDDMDA*
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Synonyms
Publications