NO08G03890, NO08G03890 (gene) Nannochloropsis oceanica

Overview
NameNO08G03890
Unique NameNO08G03890
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length2127
Alignment locationchr8:1094911..1097037 +

Link to JBrowse

Properties
Property NameValue
DescriptionB chain of rna processing factor scaf8
Mutants
Expression

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr8genomechr8:1094911..1097037 +
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
PRJNA1821802019-04-25
Gene prediction for N. oceanica IMET12017-10-24
Annotated Terms
Homology
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BLAST of NO08G03890 vs. NCBI_GenBank
Match: EWM26848.1 (protein scaf8 [Nannochloropsis gaditana])

HSP 1 Score: 235.3 bits (599), Expect = 4.500e-58
Identity = 111/134 (82.84%), Postives = 125/134 (93.28%), Query Frame = 0 
Query:    5 DDKELLDLKTLLDNMCAAPLPITKEQISGVAECAMRHVQKYKKVVHLIERYAKHYAGARYRSAIICVIDSLCTKAHRAHKEKDVFIPRFRLRLLDTVQGLTALEGRSEKKLMDRIFLEWRKRGWFDVPSLAVLA 139
            DD+EL  LK LLD++CA+PLPITKE+IS VAECA+R+VQKYKKVVH+IERYAKHYAG RYRSA+ICVIDSLCTKAHRAHKEKDVFIPRFRLRLL+T+QG+T LEGRSE+ LMDRIF+EWRKRGWFDVP LA LA
Sbjct:   81 DDEELRPLKDLLDDLCASPLPITKEKISKVAECALRYVQKYKKVVHMIERYAKHYAGVRYRSAVICVIDSLCTKAHRAHKEKDVFIPRFRLRLLETLQGVTTLEGRSERALMDRIFVEWRKRGWFDVPPLATLA 214
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BLAST of NO08G03890 vs. NCBI_GenBank
Match: XP_005854008.1 (b chain of rna processing factor scaf8, partial [Nannochloropsis gaditana CCMP526] >XP_005854243.1 b chain of rna processing factor scaf8, partial [Nannochloropsis gaditana CCMP526] >EKU22116.1 b chain of rna processing factor scaf8, partial [Nannochloropsis gaditana CCMP526] >EKU22351.1 b chain of rna processing factor scaf8, partial [Nannochloropsis gaditana CCMP526])

HSP 1 Score: 232.3 bits (591), Expect = 3.800e-57
Identity = 110/134 (82.09%), Postives = 124/134 (92.54%), Query Frame = 0 
Query:    5 DDKELLDLKTLLDNMCAAPLPITKEQISGVAECAMRHVQKYKKVVHLIERYAKHYAGARYRSAIICVIDSLCTKAHRAHKEKDVFIPRFRLRLLDTVQGLTALEGRSEKKLMDRIFLEWRKRGWFDVPSLAVLA 139
            DD+EL  LK LLD++CA+ LPITKE+IS VAECA+R+VQKYKKVVH+IERYAKHYAG RYRSA+ICVIDSLCTKAHRAHKEKDVFIPRFRLRLL+T+QG+T LEGRSE+ LMDRIF+EWRKRGWFDVP LA LA
Sbjct:   25 DDEELRPLKDLLDDLCASSLPITKEKISKVAECALRYVQKYKKVVHMIERYAKHYAGVRYRSAVICVIDSLCTKAHRAHKEKDVFIPRFRLRLLETLQGVTTLEGRSERALMDRIFVEWRKRGWFDVPPLATLA 158
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BLAST of NO08G03890 vs. NCBI_GenBank
Match: CBN77033.1 (Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To Different Phosphorylated Forms Of The Carboxy-Terminal Domain Of Rna-Polymerase Ii pdb|3D9I|B Chain B, Snapshots Of The Rna Processing Fa (Partial), partial [Ectocarpus siliculosus])

HSP 1 Score: 68.9 bits (167), Expect = 5.600e-8
Identity = 42/129 (32.56%), Postives = 68/129 (52.71%), Query Frame = 0 
Query:    1 MNQNDDKELLDLKTLLDNMCAAPLPITKEQISGVAECAMRHVQKYKKVVHLIERYAKHYAGARYRSAIICVIDSLCTKAHRAHKEKDVFIPRFRLRLLDTVQGLTALEGRSEKKLMDRIFLEWRKRGWF 130
            M  +D      +   L  +  +  PI+  ++   A  A+ +V++YK+VVH IERY +  A  ++R     VIDS+C +A      KDVF PRF  R+ +TV+ L  +    +K  + R+  EW ++G F
Sbjct:    1 MTNDDWDGAASMHKALKVLATSSRPISASRVKTAAARALDNVKEYKRVVHAIERYIRK-AQPQHRIGGCFVIDSVCRQAQSKWGHKDVFTPRFAQRMSETVENLRNVPD-GDKPPVFRVIREWHEKGMF 127
The following BLAST results are available for this feature:
BLAST of NO08G03890 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 3
Match NameE-valueIdentityDescription
EWM26848.14.500e-5882.84protein scaf8 [Nannochloropsis gaditana][more]
XP_005854008.13.800e-5782.09b chain of rna processing factor scaf8, partial [N... [more]
CBN77033.15.600e-832.56Chain A, Snapshots Of The Rna Processing Factor Sc... [more]
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Relationships

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

Feature NameUnique NameSpeciesType
nonsL109nonsL109Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR083ncniR083Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR141ngnoR141Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


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

Feature NameUnique NameSpeciesType
NSK008610NSK008610Nannochloropsis salina (N. salina CCMP1776)gene


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

Feature NameUnique NameSpeciesType
NO08G03890.1NO08G03890.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|553192gene_3726Nannochloropsis oceanica (N. oceanica CCMP1779)gene
Naga_100097g12gene3683Nannochloropsis gaditana (N. gaditana B-31)gene


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

Feature NameUnique NameSpeciesType
NO08G03890.1NO08G03890.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO08G03890 ID=NO08G03890|Name=NO08G03890|organism=Nannochloropsis oceanica|type=gene|length=2127bp
AACAGCTTTGAGGACAGCTAGTATCATCTGGATCGCCTGGTCGGGCCGCT
TACTTCCCGGTTCCTGTTAGAATCCGCCTTGTAACGCGCCATCCTTTCCG
GCCATCCTCCCCATCATCACCCTATTGCTCCCCCAGCCCCTCCTTCTTTA
GCAGAATCATAACATCTCTATTACGCAGCTGTCATGAACCAAAACGATGA
TAAGGAACTGCTGGACCTCAAAACTCTCCTAGACAACATGTGCGCCGCTC
CCCTGCCCATCACAAAGGAGCAAATCTCAGGCGTGGCCGAATGCGCCATG
CGACACGTCCAGAAGTACAAGAAAGTGGTGCATCTCATCGAGCGATATGC
CAAGCACTACGCGGGTGCGCGGTACCGTTCTGCTATTATCTGTGTGATTG
ATTCCCTGTGCACCAAAGCCCATCGCGCCCACAAGGAGAAGGACGTTTTC
ATCCCTCGTTTTCGTCTCCGGCTTCTAGATACGGTGCAGGGCCTAACGGC
GTTGGAAGGGCGGTCAGAAAAGAAATTGATGGATCGGATCTTTCTAGAGT
GGCGGAAACGTGGTTGGTTTGACGTTCCAAGTTTGGCTGTCCTGGCCGAG
GGTGGAGGAGGGGGAAAGTCCCGCGGCGCCAGCAGTGCCACCAGCGGCAG
CTCCAGCAGCCCTAGCAGGCATAGCAACCCCTCCGATGCAAACTCCTCGG
GCTTCACGCCACCGTTGCCTCCCCCTCCACCACCTCCTCCTCCATCTGGA
GATGCATGGCACCAGCCGCAACTACAGCCGCAACAACACCGTGAAGAGGA
CAATGGCAGCAGCTCAGGCCTACGTTCCCCTCCTCCCTCCCCGGGCCCCG
ACAGCAGACCTTCTCCCCCCCCTCCTCCTCCCTCCCTCCCTTCCCCTATC
CCCATGAATTTACCCCTCGATGTGCCCGGCCGTTCGACAGCAGTAGCAGC
TCTTGATCCCCGTAAACGTCTTGCTGCTGCTCCTGCTGCTGCTCCTGCTG
CTCCTGCTTCCACCTCCCCCTCTCGTGCAGGAACAGCAGCAGCAGTAGCA
ACAGAAGCAGAAGCTCCGCTTGATCCTCGCAAACGCATCAAGTCCTCTCC
AGCAGCAGCTGCACTAACAACAACAACAACAAAAAGAACAACGGGAGCAC
CGGCTGCACTGGACCTCCCTCCCCCCGTATCTTCTTCGTCTTTCGGTAAT
GGGGGGAGGGGGAGGTTACTCCTGGCAGGCGACAGGGAGGAGGATGAGGA
GGAGGAAGACGAAGAACTCAATTTAGAGGGAGTAGGTATGGGTCAAGCAC
CTCCTCCCTCGTCCTCCTCCTCCAAACACCCCTCCTCTTCATCGCGCCCC
CCCTCACGACCTTCTACTCTTCCCTCCTTCTCCTCCTCCTCCTCCTCCTC
CTTCACCGCCATCGCCATCCCAACCCCATCCCCATCTCTCCTCGCCTCCC
TCCAAGCAAACCCTCCCTCCTACTCCTGCAGCACCACCGCCGATAGCTGT
CGTACGAAAGTGCACACGATGCTCAACAAATTTCTCGCCGGCTTCCAAGG
GAAGGAAGGAGGGAAAATACCTGCCTGGCCCCAGACCTTCCTTTCCTCCC
TCCCCTCCTCGTCCTCCTCGCGTTTCCCCCCCTTGTCCGCTTCGCCTTAC
TTCCCCGTCGTCCCGGGAGGGGAGGGAGGGAGTGGGGGAGCGGGGGAAGA
GCTGCCATCCGTAATGAGTACTGTTCCCGGACTGCACCTGGCGCATCGCA
GGGTCTCCCTCGATGATGGAGCGGGAGCAGGGAAGGCAGGGAGGGAGGGA
GGGAAAGAAGGAACAAAGGGTGTGAAAGTAGAAGCGGTGCCCGTAGTGGC
TCGGCGGTGGGGGAGGGCATCAGCAGCGCCGTCGTAGGGAGGGAGAAAAT
AGAAAAAGGGAGGGGAGATGAGGGAGATGGGATGAAATAGAGCGACTGGG
AATGGGGAAGGGGGGGAGATAGAAGACACGTAAGGTTGAAGACAAAAGAA
AAGGAAAGGAAAGAAAAACACATACAAACCTAAAAACTTGTGTATGAATG
AGGATGTATATATATATATATATGTGTGTGTGTGTGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTATGT
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protein sequence of NO08G03890.1

>NO08G03890.1-protein ID=NO08G03890.1-protein|Name=NO08G03890.1|organism=Nannochloropsis oceanica|type=polypeptide|length=568bp
MNQNDDKELLDLKTLLDNMCAAPLPITKEQISGVAECAMRHVQKYKKVVH
LIERYAKHYAGARYRSAIICVIDSLCTKAHRAHKEKDVFIPRFRLRLLDT
VQGLTALEGRSEKKLMDRIFLEWRKRGWFDVPSLAVLAEGGGGGKSRGAS
SATSGSSSSPSRHSNPSDANSSGFTPPLPPPPPPPPPSGDAWHQPQLQPQ
QHREEDNGSSSGLRSPPPSPGPDSRPSPPPPPPSLPSPIPMNLPLDVPGR
STAVAALDPRKRLAAAPAAAPAAPASTSPSRAGTAAAVATEAEAPLDPRK
RIKSSPAAAALTTTTTKRTTGAPAALDLPPPVSSSSFGNGGRGRLLLAGD
REEDEEEEDEELNLEGVGMGQAPPPSSSSSKHPSSSSRPPSRPSTLPSFS
SSSSSSFTAIAIPTPSPSLLASLQANPPSYSCSTTADSCRTKVHTMLNKF
LAGFQGKEGGKIPAWPQTFLSSLPSSSSSRFPPLSASPYFPVVPGGEGGS
GGAGEELPSVMSTVPGLHLAHRRVSLDDGAGAGKAGREGGKEGTKGVKVE
AVPVVARRWGRASAAPS*
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Synonyms
Publications