NO19G00050, NO19G00050 (gene) Nannochloropsis oceanica

Overview
NameNO19G00050
Unique NameNO19G00050
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length432
Alignment locationchr19:12497..12928 +

Link to JBrowse

Properties
Property NameValue
DescriptionTranscription initiation factor iif subunit
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr19genomechr19:12497..12928 +
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
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:0006366transcription by RNA polymerase II
GO:0006367transcription initiation from RNA polymerase II promoter
GO:0009058biosynthetic process
GO:0006139nucleobase-containing compound metabolic process
Vocabulary: Cellular Component
TermDefinition
GO:0005674transcription factor TFIIF complex
Vocabulary: INTERPRO
TermDefinition
IPR036390WH_DNA-bd_sf
IPR003196TFIIF_beta
Homology
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BLAST of NO19G00050 vs. NCBI_GenBank
Match: EWM23495.1 (transcription initiation factor iif subunit [Nannochloropsis gaditana])

HSP 1 Score: 170.6 bits (431), Expect = 3.500e-39
Identity = 94/144 (65.28%), Postives = 107/144 (74.31%), Query Frame = 0 
Query:    1 MLPTASLDYRAFAKKRQIQHHRKERRLELL------VGGGERGNGG-VRKMIDLNAPLDGXXXXXXXXXXXXXXXXKRARLDEAALRTTLFQCFKLKAAWAARELVQRLGQPEGSVKAALREIADYQSQGEHFGKYLLKPAWTG 138
            +LPTASLDYR FAKKRQIQHHRKERR+ELL       G G RG GG VRKMIDLNAPL G                +R RLD+A LRT LF+CF+LK+AW ARELV RLGQPEGSVK+ALREI+DYQ+QG++FGKYLLK  + G
Sbjct:   33 LLPTASLDYRVFAKKRQIQHHRKERRVELLRDDWGPGGEGGRGAGGAVRKMIDLNAPLSG---AGVGRGTGGRDGPQRVRLDQAGLRTALFKCFQLKSAWTARELVARLGQPEGSVKSALREISDYQTQGDYFGKYLLKTEFRG 173
The following BLAST results are available for this feature:
BLAST of NO19G00050 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 1
Match NameE-valueIdentityDescription
EWM23495.13.500e-3965.28transcription initiation factor iif subunit [Nanno... [more]
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Relationships

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

Feature NameUnique NameSpeciesType
nonsL014nonsL014Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR075ncniR075Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR038ngnoR038Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


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

Feature NameUnique NameSpeciesType
NO19G00050.1NO19G00050.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
Naga_100198g6gene6962Nannochloropsis gaditana (N. gaditana B-31)gene


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

Feature NameUnique NameSpeciesType
NO19G00050.1NO19G00050.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO19G00050 ID=NO19G00050|Name=NO19G00050|organism=Nannochloropsis oceanica|type=gene|length=432bp
ATGCTGCCCACAGCCTCCCTGGACTATCGGGCCTTTGCCAAGAAGAGGCA
GATACAGCATCATCGGAAGGAGAGGCGGCTGGAGCTGTTGGTTGGAGGAG
GAGAAAGAGGAAACGGAGGGGTACGAAAAATGATTGACCTTAACGCCCCT
CTCGATGGGGGGGCAGGAGGAGGAGGGGGAGGAGGGGGAGGAGGGGAAGG
GGGGATGAAGAGAGCTAGGCTCGACGAAGCGGCGCTGCGGACGACCTTGT
TCCAGTGCTTCAAGCTCAAAGCGGCCTGGGCGGCGCGGGAGCTGGTGCAG
CGCTTGGGGCAGCCGGAGGGCAGTGTTAAGGCGGCGCTGCGGGAGATAGC
CGACTACCAGAGCCAGGGTGAGCATTTCGGGAAGTATCTACTCAAGCCGG
CCTGGACGGGGGCGGGTTTGAAAAAGGGGTAA
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protein sequence of NO19G00050.1

>NO19G00050.1-protein ID=NO19G00050.1-protein|Name=NO19G00050.1|organism=Nannochloropsis oceanica|type=polypeptide|length=144bp
MLPTASLDYRAFAKKRQIQHHRKERRLELLVGGGERGNGGVRKMIDLNAP
LDGGAGGGGGGGGGGEGGMKRARLDEAALRTTLFQCFKLKAAWAARELVQ
RLGQPEGSVKAALREIADYQSQGEHFGKYLLKPAWTGAGLKKG*
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Synonyms
Publications