NO05G00470, NO05G00470 (gene) Nannochloropsis oceanica

Overview
NameNO05G00470
Unique NameNO05G00470
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length1248
Alignment locationchr5:173008..174255 +

Link to JBrowse

Properties
Property NameValue
DescriptionTranscription elongation factor spt4
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr5genomechr5:173008..174255 +
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: Biological Process
TermDefinition
GO:0006355regulation of transcription, DNA-templated
GO:0032786positive regulation of DNA-templated transcription, elongation
GO:0006139nucleobase-containing compound metabolic process
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0008270zinc ion binding
GO:0008135translation factor activity, RNA binding
Vocabulary: INTERPRO
TermDefinition
IPR029040RPABC4/Spt4
IPR009287Spt4
IPR022800Spt4/RpoE2_Znf
Homology
BLAST of NO05G00470 vs. NCBI_GenBank
Match: EWM28342.1 (transcription elongation factor spt4 [Nannochloropsis gaditana])

HSP 1 Score: 189.9 bits (481), Expect = 8.200e-45
Identity = 88/95 (92.63%), Postives = 90/95 (94.74%), Query Frame = 0
Query:  118 FAELPQATKGLRACRKCRLIKEFSQFVERGCDNCRQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGEEEFDMGLEE 213
            FAELPQATKGLRACRKCRLIKEF+QFVE GCDNC QFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRY+PGLYALQVEGEEEFD   EE
Sbjct:  125 FAELPQATKGLRACRKCRLIKEFTQFVESGCDNCMQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYRPGLYALQVEGEEEFDRETEE 219          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: CCI39857.1 (unnamed protein product [Albugo candida])

HSP 1 Score: 91.3 bits (225), Expect = 4.000e-15
Identity = 40/88 (45.45%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C L+K F+QF + GC+NC   +  ++++  AE T+ HY GM+AL+ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   16 ADIPNTFRELRACLTCSLVKTFTQFYDTGCENCAFLQMADNRQRVAECTTAHYDGMIALMRPKESWVAKWQRLVRMVPGIYAVSVTGE 103          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: CBJ33539.1 (conserved unknown protein [Ectocarpus siliculosus])

HSP 1 Score: 89.7 bits (221), Expect = 1.200e-14
Identity = 38/88 (43.18%), Postives = 58/88 (65.91%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            AE+P + KGLRAC++C L+K   QFV  GC+NC   +   DQ    + T+ +++G++A++ PE SW  KWQ     +PG+YA++V GE
Sbjct:   23 AEIPTSLKGLRACKRCSLVKGNDQFVNHGCENCPFLQMESDQARVQDCTTTYFSGLIAMMDPESSWVGKWQRISECRPGMYAIEVVGE 110          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: OWZ14457.1 (Transcription elongation factor SPT4 [Phytophthora megakarya])

HSP 1 Score: 89.0 bits (219), Expect = 2.000e-14
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C LIK F+QF + GC+NC   +  ++++  AE TS ++ GM+A++ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   19 ADIPNTFRELRACMTCSLIKTFTQFYDTGCENCNFLQMADNRQRVAECTSAYFEGMIAMMQPKESWVAKWQRIVRLVPGIYAVSVSGE 106          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: XP_009518860.1 (putative transcription protein [Phytophthora sojae] >EGZ23572.1 putative transcription protein [Phytophthora sojae])

HSP 1 Score: 88.6 bits (218), Expect = 2.600e-14
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C LIK F+QF + GC+NC   +  ++++  AE TS ++ GM+A++ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   19 ADIPNTFRELRACMTCSLIKTFTQFYDTGCENCAFLQMADNRQRVAECTSAYFEGMIAMMQPKESWVAKWQRIVRLIPGIYAVSVSGE 106          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: EJK78022.1 (hypothetical protein THAOC_00107 [Thalassiosira oceanica])

HSP 1 Score: 88.6 bits (218), Expect = 2.600e-14
Identity = 37/93 (39.78%), Postives = 59/93 (63.44%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNCRQFE---DQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGEEEFDM 209
            A +P + KGLRAC +C ++K F QF+E+GC+NC   E   + E   + T+  + G +A+  P+DSW+AKW    R+ PG+YA+ + G+   D+
Sbjct:   25 ASVPSSMKGLRACMRCGIVKTFEQFIEQGCENCAILELEGNSERCNQCTTAFFEGQVAVADPQDSWTAKWLRVDRFLPGVYAISITGQFSKDV 117          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: XP_008892419.1 (hypothetical protein, variant [Phytophthora parasitica INRA-310] >ETI49339.1 hypothetical protein, variant [Phytophthora parasitica P1569] >ETK89229.1 hypothetical protein, variant [Phytophthora parasitica] >ETL42640.1 hypothetical protein, variant [Phytophthora parasitica] >ETL95810.1 hypothetical protein, variant [Phytophthora parasitica] >ETM48998.1 hypothetical protein, variant [Phytophthora parasitica] >ETN23226.1 hypothetical protein, variant [Phytophthora parasitica INRA-310] >ETO78068.1 hypothetical protein, variant [Phytophthora parasitica P1976] >ETP19106.1 hypothetical protein, variant [Phytophthora parasitica CJ01A1] >ETP47055.1 hypothetical protein, variant [Phytophthora parasitica P10297] >KUG00210.1 Transcription elongation factor SPT4 [Phytophthora nicotianae])

HSP 1 Score: 88.6 bits (218), Expect = 2.600e-14
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C LIK F+QF + GC+NC   +  ++++  AE TS ++ GM+A++ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   19 ADIPNTFRELRACMTCSLIKTFTQFYDTGCENCAFLQMADNRQRVAECTSAYFEGMIAMMQPKESWVAKWQRIVRLIPGIYAVSVSGE 106          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: KNE56805.1 (hypothetical protein AMAG_02581 [Allomyces macrogynus ATCC 38327])

HSP 1 Score: 88.6 bits (218), Expect = 2.600e-14
Identity = 45/104 (43.27%), Postives = 62/104 (59.62%), Query Frame = 0
Query:  115 QNTFAELPQATKGLRACRKCRLIKEFSQFVERGCDNCRQFED----QEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE--EEFDMGLEE 213
            Q + ++LP+  + LRAC+ C LIK  SQF + GCDNC +  D        AE TS  + G +A++ PE SW AKWQ    Y PGLYA++V G   E+ +  LE+
Sbjct:    2 QQSTSQLPKNKRDLRACKLCSLIKTLSQFKQDGCDNCEEILDLRRHPSRVAECTSSTFEGAIAMLKPERSWVAKWQRVDPYVPGLYAIRVSGRIPEDIEATLEQ 105          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: POM66297.1 (Transcription elongation factor SPT4 [Phytophthora palmivora var. palmivora])

HSP 1 Score: 88.6 bits (218), Expect = 2.600e-14
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C LIK F+QF + GC+NC   +  ++++  AE TS ++ GM+A++ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   19 ADIPNTFRELRACMTCSLIKTFTQFYDTGCENCAFLQMADNRQRVAECTSAYFEGMIAMMQPKESWVAKWQRIVRLIPGIYAVSVSGE 106          
BLAST of NO05G00470 vs. NCBI_GenBank
Match: XP_002999313.1 (transcription elongation factor SPT4 [Phytophthora infestans T30-4] >EEY69459.1 transcription elongation factor SPT4 [Phytophthora infestans T30-4])

HSP 1 Score: 88.2 bits (217), Expect = 3.400e-14
Identity = 38/88 (43.18%), Postives = 59/88 (67.05%), Query Frame = 0
Query:  119 AELPQATKGLRACRKCRLIKEFSQFVERGCDNC---RQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQVEGE 204
            A++P   + LRAC  C L+K F+QF + GC+NC   +  ++++  AE TS ++ GM+A++ P++SW AKWQ   R  PG+YA+ V GE
Sbjct:   19 ADIPNTFRELRACMTCSLVKTFTQFYDTGCENCAFLQMADNRQRVAECTSAYFEGMIAMMQPKESWVAKWQRIVRLIPGIYAVSVSGE 106          
The following BLAST results are available for this feature:
BLAST of NO05G00470 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20
Match NameE-valueIdentityDescription
EWM28342.18.200e-4592.63transcription elongation factor spt4 [Nannochlorop... [more]
CCI39857.14.000e-1545.45unnamed protein product [Albugo candida][more]
CBJ33539.11.200e-1443.18conserved unknown protein [Ectocarpus siliculosus][more]
OWZ14457.12.000e-1444.32Transcription elongation factor SPT4 [Phytophthora... [more]
XP_009518860.12.600e-1444.32putative transcription protein [Phytophthora sojae... [more]
EJK78022.12.600e-1439.78hypothetical protein THAOC_00107 [Thalassiosira oc... [more]
XP_008892419.12.600e-1444.32hypothetical protein, variant [Phytophthora parasi... [more]
KNE56805.12.600e-1443.27hypothetical protein AMAG_02581 [Allomyces macrogy... [more]
POM66297.12.600e-1444.32Transcription elongation factor SPT4 [Phytophthora... [more]
XP_002999313.13.400e-1443.18transcription elongation factor SPT4 [Phytophthora... [more]

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Relationships

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

Feature NameUnique NameSpeciesType
nonsL087nonsL087Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
nonsL086nonsL086Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR092ncniR092Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR119ngnoR119Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR118ngnoR118Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


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

Feature NameUnique NameSpeciesType
NSK003841NSK003841Nannochloropsis salina (N. salina CCMP1776)gene


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

Feature NameUnique NameSpeciesType
NO05G00470.1NO05G00470.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|517150gene_2840Nannochloropsis oceanica (N. oceanica CCMP1779)gene
Naga_100367g6gene2237Nannochloropsis gaditana (N. gaditana B-31)gene


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

Feature NameUnique NameSpeciesType
NO05G00470.1NO05G00470.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO05G00470 ID=NO05G00470|Name=NO05G00470|organism=Nannochloropsis oceanica|type=gene|length=1248bp
AGTATAAGTGCGTATAGGAAAGAACGGTCATCCGAGCGAGTGTGAGTATC
AATCAAATGGCCCGCATGTGCGGGGTGGTGGTGGGTGGGGAGGCCAAAAG
TGCCAAGGCGGATTTCTAAGCCTAGAAGCTTGAAACCTAGCAAGATCTCC
CTCCTTACGAAAAATTTCACATGTACATGTAATAGTCTTGTTGAGCAGTA
AGCGTGCTGAGTGTTGATAGGTGATGAAAGTATCACATCAAAAAGAGGCT
TGGAAAGCGAGGATGGGTTGGGCGGAACGGAGAGGCGGAGAAGAGAAGCA
GCGGGGTTGGGAGGCAACTCTGTCTTGTGTTTTCGACATCGCACACATAT
ATACAGACCACACAGCCTCAAATGCACAATGCCAGCCTGTTTGTTGTCGT
ATTTAAAGCCCCTTGCTTTCCTTGCCGGGCTCATCCTCTCCCTCCCTCCA
CCCTCCTATCATCACTTAGGGGCAAGGAGGGGGACAGTAGGCTCGCTCGG
GACAACAGGAACGAAGCCTGTAACGCACCATGTCATCTTCTTCATCCTCC
GAGGACGAGGATTTCTTGCCGCCCAAGGCCACCCTGAATGATGTGAGCAG
CAGCGACAGCGACAGCAGTGATGAGGAAAACGAGGAGGAAGGGGAAGTGA
CTGGGGAGGAGATCAAGCCCAGCGGTGGTGGCGCCGATAACAATGCTCCG
AAAGCCCGCCCTGTCTTTGACGATGAAGATGACGAGGACAGTGATGATAG
TAGCGATGAGGAGGACGACGACGGCGCATTGCCGACACGGAAGCGACCGG
CGGAGAGTGATGACGACGACGACGACGATGAGGAGGACGAAGAGGAAGAC
GAGGATGATGAGGAGGACGGACAGAACACTTTTGCAGAGCTCCCGCAAGC
GACCAAGGGTCTACGGGCCTGCCGTAAATGCCGTTTGATCAAGGAATTCT
CCCAGTTTGTGGAGCGCGGGTGTGACAATTGCCGACAGTTCGAGGACCAG
GAGGAGGCGGCTGAGTTCACCTCGCCGCATTACACAGGGATGATGGCACT
GGTGCACCCAGAGGACTCGTGGTCAGCCAAGTGGCAGGGGGCAAGGAGAT
ATAAGCCAGGGTTGTATGCATTGCAAGTGGAGGGAGAGGAGGAGTTTGAT
ATGGGGTTAGAGGAGTAGGAGGAGGGAGGGAGGGGGGCAGAGGAGAGCGG
ATGGGAAGGGAAGAGAAAAAGAAAAAACGAAGTGTAAAGGTGCGGGGA
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protein sequence of NO05G00470.1

>NO05G00470.1-protein ID=NO05G00470.1-protein|Name=NO05G00470.1|organism=Nannochloropsis oceanica|type=polypeptide|length=213bp
MSSSSSSEDEDFLPPKATLNDVSSSDSDSSDEENEEEGEVTGEEIKPSGG
GADNNAPKARPVFDDEDDEDSDDSSDEEDDDGALPTRKRPAESDDDDDDD
EEDEEEDEDDEEDGQNTFAELPQATKGLRACRKCRLIKEFSQFVERGCDN
CRQFEDQEEAAEFTSPHYTGMMALVHPEDSWSAKWQGARRYKPGLYALQV
EGEEEFDMGLEE*
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Synonyms
Publications