NO05G04980, NO05G04980 (gene) Nannochloropsis oceanica | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	NO05G04980
Unique Name	NO05G04980
Type	gene
Organism	Nannochloropsis oceanica (N. oceanica IMET1)
Sequence length	2154
Alignment location	chr5:1297792..1299945 +

Link to JBrowse

Properties


Property Name	Value
Description	Regulator of nonsense transcripts UPF2

Mutants

Expression

Analysis:

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Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
chr5	genome	chr5:1297792..1299945 +

Analyses

This gene is derived from or has results from the following analyses


Analysis Name	Date Performed
PRJNA769958	2024-08-13
GSE178672	2023-12-15
PRJNA933693	2023-10-26
PRJNA943449	2023-07-19
GSE149904	2020-10-10
NoIMET1_WT_HS	2020-09-29
GSE139615	2020-03-11
PRJNA241382	2020-03-11
BLASTP analysis of N. oceanica IMET1 genes	2019-07-11
InterPro analysis for N. oceanica IMET1 genes	2019-07-11
GO annotation for IMET1v2 genes	2019-07-10
PRJNA182180	2019-04-25
Gene prediction for N. oceanica IMET1	2017-10-24

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0003723	RNA binding

Vocabulary: **Biological Process**
Term	Definition
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

Homology

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: CBN74240.1 (putative hUPF2 [Ectocarpus siliculosus])

HSP 1 Score: 113.2 bits (282), Expect = 1.600e-21
Identity = 75/180 (41.67%), Postives = 98/180 (54.44%), Query Frame = 0

Query:  128 QLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            QL+ ++K E AR  LR ++ P A++ SR  HEA   KLKSDLK+TTA  KKVK AL EDQR  + +D+  LNL  +VSE+V  V E +LK ADV  AV +C  +HQRY  F   L+  L    L   G                       R  LRLL EL+  GV     L++R+V+S+
Sbjct:  417 QLDLLQKEERARRELREKHTPEALKASRDAHEANKPKLKSDLKKTTAFTKKVK-ALSEDQRSALTKDVETLNLNRYVSEVVDAVAENRLKNADVSVAVHLCCLMHQRYAEFAEDLIPKLAAPFLSAPG---------GEEEREEKELLRRKRSNLRLLTELHASGVFDGSRLIVRIVRSL 586

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_010658462.1 (PREDICTED: regulator of nonsense transcripts UPF2 isoform X1 [Vitis vinifera])

HSP 1 Score: 101.7 bits (252), Expect = 4.700e-18
Identity = 70/185 (37.84%), Postives = 105/185 (56.76%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAG-LKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILL-DKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE +K+ EA+ ALR  N    +   R E ++G L+ L S +KR TA+IKK+K  + E+QRE ++ D+  +NL+ FVSE V  + +AKLK +D+ AAVQ+CS LHQRY  F+  L+  L  +    K G                       R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   23 AVARLEEFKKSMEAKMALRRTN----LNPERPETDSGFLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRGVNLSKFVSEAVTAICDAKLKTSDIQAAVQICSLLHQRYKDFSPSLIQGLLKVFFPGKSG---------DELDLDRNLKAMKKRSTLKLLLELYFVGVVEDSGIFINIIKDL 193

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_021648638.1 (regulator of nonsense transcripts UPF2-like isoform X1 [Hevea brasiliensis])

HSP 1 Score: 99.8 bits (247), Expect = 1.800e-17
Identity = 67/184 (36.41%), Postives = 102/184 (55.43%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILL-DKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEEM+K+ EA+ ALR  N    +   R      L+ L S +KR TA+IKK+K  + E+QRE ++ ++  +NL+ FVSE V  + +AKL+ +D+ AAVQ+CS LHQRY  F+  L+  L  +    K G                       R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   23 ALARLEEMKKSVEAKVALRQSN----LNPERPADSGFLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDELRNVNLSKFVSEAVTAICDAKLRTSDIQAAVQICSLLHQRYKDFSPSLVQGLLKVFFPGKSGE---------DLEVDRNSKAMKKRSTLKLLLELYFVGVIEDSSIFINIIKDL 192

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_002900183.1 (regulator of nonsense transcripts 2, putative [Phytophthora infestans T30-4] >EEY60387.1 regulator of nonsense transcripts 2, putative [Phytophthora infestans T30-4])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 71/193 (36.79%), Postives = 103/193 (53.37%), Query Frame = 0

Query:  121 VQLAAIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGIL------LDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            VQ  A+ QL E+++  E R+ALR  +A +   V+    +    KLKSD+KR++A +KK++  L E   + +LRD + LNLT +VSE V  + +A LK AD+PAAV+V S LHQRY  F  G++ AL           DKG                        R +LRLL ELYL GV  D  ++  +++ +
Sbjct:   10 VQAQALSQLRELQRQREVRSALR--SANSVTNVAAVREQLATLKLKSDIKRSSAFVKKLR-VLSEANADSLLRDAAELNLTRYVSECVAALADAPLKAADLPAAVKVASLLHQRYEDFAPGMVRALVSSFEASYTSEDKG-------------------KMLRRRLLLRLLCELYLAGVFDDVQVIAHIIQRV 180

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: CDY24973.1 (BnaC03g21990D [Brassica napus])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   20 ALARLEEIKKSIEAKMALRQNN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSAEDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 188

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: CDY07661.1 (BnaA03g18500D [Brassica napus])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   17 ALARLEEIKKSIEAKMALRQSN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSADDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 185

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_009133350.1 (PREDICTED: regulator of nonsense transcripts UPF2 [Brassica rapa])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   17 ALARLEEIKKSIEAKMALRQSN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSADDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 185

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_013629078.1 (PREDICTED: regulator of nonsense transcripts UPF2 [Brassica oleracea var. oleracea])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   20 ALARLEEIKKSIEAKMALRQNN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSAEDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 188

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_022571701.1 (regulator of nonsense transcripts UPF2 [Brassica napus])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   17 ALARLEEIKKSIEAKMALRQSN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSADDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 185

[Close]

BLAST of NO05G04980 vs. NCBI_GenBank
Match: XP_013734602.2 (LOW QUALITY PROTEIN: regulator of nonsense transcripts UPF2 [Brassica napus])

HSP 1 Score: 99.4 bits (246), Expect = 2.300e-17
Identity = 69/183 (37.70%), Postives = 103/183 (56.28%), Query Frame = 0

Query:  125 AIKQLEEMEKAEEARAALRLQNAPAAVRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNLTMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGILLDKGGRXXXXXXXXXXXXXXXXXXXXXXRQVLRLLIELYLVGVHQDHPLLLRLVKSI 308
            A+ +LEE++K+ EA+ ALR  N    +   R +  A L+ L S +KR TA+IKK+K  + E+QRE ++ D+ ++NL+ FVSE V  + EAKLK +D+ AAVQ+CS LHQRY  F+  L   L  + L                           R  L+LL+ELY VGV +D  + + ++K +
Sbjct:   20 ALARLEEIKKSIEAKMALRQNN----LNPERPD-SAYLRTLDSSIKRNTAVIKKLK-QINEEQREGLMDDLRSVNLSKFVSEAVTAICEAKLKSSDIQAAVQICSLLHQRYKEFSPSLTQGLLKVFL--------PGKSAEDVDADRNSKAMKKRSTLKLLLELYYVGVIEDSNIFISIIKDL 188

The following BLAST results are available for this feature:

BLAST of NO05G04980 vs. NCBI_GenBank

BLAST of NO05G04980 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20

Position :

Zoom :

x 1


Match Name	E-value	Identity	Description
CBN74240.1	1.600e-21	41.67	putative hUPF2 [Ectocarpus siliculosus]	[more]
XP_010658462.1	4.700e-18	37.84	PREDICTED: regulator of nonsense transcripts UPF2 ...	[more]
XP_021648638.1	1.800e-17	36.41	regulator of nonsense transcripts UPF2-like isofor...	[more]
XP_002900183.1	2.300e-17	36.79	regulator of nonsense transcripts 2, putative [Phy...	[more]
CDY24973.1	2.300e-17	37.70	BnaC03g21990D [Brassica napus]	[more]
CDY07661.1	2.300e-17	37.70	BnaA03g18500D [Brassica napus]	[more]
XP_009133350.1	2.300e-17	37.70	PREDICTED: regulator of nonsense transcripts UPF2 ...	[more]
XP_013629078.1	2.300e-17	37.70	PREDICTED: regulator of nonsense transcripts UPF2 ...	[more]
XP_022571701.1	2.300e-17	37.70	regulator of nonsense transcripts UPF2 [Brassica n...	[more]
XP_013734602.2	2.300e-17	37.70	LOW QUALITY PROTEIN: regulator of nonsense transcr...	[more]

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Relationships

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


Feature Name	Unique Name	Species	Type
nonsL085	nonsL085	Nannochloropsis oceanica (N. oceanica IMET1)	syntenic_region
ncniR092	ncniR092	Nannochloropsis oceanica (N. oceanica IMET1)	syntenic_region
ngnoR117	ngnoR117	Nannochloropsis oceanica (N. oceanica IMET1)	syntenic_region

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


Feature Name	Unique Name	Species	Type
NO05G04980.1	NO05G04980.1-protein	Nannochloropsis oceanica (N. oceanica IMET1)	polypeptide

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


Feature Name	Unique Name	Species	Type
jgi.p\|Nanoce1779_2\|670060	gene_3316	Nannochloropsis oceanica (N. oceanica CCMP1779)	gene

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


Feature Name	Unique Name	Species	Type
NO05G04980.1	NO05G04980.1	Nannochloropsis oceanica (N. oceanica IMET1)	mRNA

Sequences

The following sequences are available for this feature:

gene sequence
protein sequence

gene sequence

>NO05G04980 ID=NO05G04980|Name=NO05G04980|organism=Nannochloropsis oceanica|type=gene|length=2154bp
ATGCAAAAAGGCGGCGATGATAAAGGTGGGGGAGCCATTAGCAGTGGCGA
TGGAGCCGGCAAAGgtatcggtggtacctgtccctttctcgtttcttccc
tcccttcctccctcccccccatccgcgcaccctctcgccacgcgccatac
tcacatgccccattccacccctcataacctacacagAACGGCGCCAACGC
GGCGACCGTAATGGCAGCGGTAGTGGTAGAGGCACACGCAAGTCTAGCGG
CAGGACGACGAAAGCCAGCAAGGACATTCCCGTGACCCTTCTCAGCAAAG
AAAAACCTCCGGTAGCTGCTGTTGCTGCCCTTTCTCCTCCACCACCACCA
AGCGCCGAAGAAAGAGCAGCGGCGCAGCAAAAACAACGAGACGATGACGC
AGAGGCAGCGGCAGCCAAGGCTGCAGCCATGCAGAAGCGGAAGGAAGAGG
AAGAGGCAAGGAGGAAGGAACAAGAAAAGGAGGTCCAATTGGCGGCGATC
AAGCAGCTGGAGGAGATGGAGAAGGCAGAGGAGgtaggacgtgaaaagaa
agggaaaaggggagggattgcaggacgagatcggtgccctatttatttga
ttccgctcgaaagcatacacctggttgcctttttttcacgccgcatgtca
atcaacggttttgtgggtcagtttcacacacacacacacacacacacaca
cacacacaccacacacacacacacacacacacacacacacacacacacac
acacacacacaccacacacacacacacacaccacacacacacacacacac
acacacacacacacacacacacacacacacacacacacacaccacacaca
cacacacacacacacacacacacacacacacacacacacacacacacaca
cacattcacacacacacacacacacatctacacatcacccctccccaaat
acatatccgtacatttcgacatccaacattccgacatccgtgcacacatt
ctcccctccctcccctcacccttaagGCCCGCGCCGCCCTCCGTCTCCAA
AATGCACCGGCCGCCGTGCGTGTTTCTCGTGCCGAGCACGAAGCCGGGCT
GAAGAAGTTGAAGTCGGATCTAAAGAGGACAACAGCGTTGATTAAGAAGG
TCAAGACGGCCCTGGGGGAAGATCAGCGGGAGATTATTTTGAGgtagggc
gtaggacgagggggagggagggagggagggagggagtggaaagagggaag
agaggtaagaaggactttccgtcggggtgtaaatgtaccgtgcttgtcgt
gccaggagccccatgccttgaaaactcataaaccctcccttcctccctcc
ctccgtctctccgtccctcctccaagGGACATCTCGGCATTGAACCTGAC
CATGTTCGTGTCGGAACTCGTCCAGGGCGTGATAGAAGCCAAGCTTAAGC
CAGCCGACGTCCCTGCTGCGGTGCAGgtagggagcgagggaggaagggag
gaggcaagggagggaggaaaagagggagggaggggcggagggagggaaga
agtgagggtttggagcgcttatatatttttttggtaaccttttcttccct
ccctccctccctccctccctccctccctcccccctcccttcttcggtagG
TGTGCTCGGCTCTGCATCAGCGATACGGCGCGTTCACTACAGGGCTCATG
GCGGCCTTGCCCGGCATCCTTCTCGACAAGGGAGGGAGGGAGGGAGGGAG
GGAGGGAGGGGGGCCAGCTGCGGGAGAGGATGCCAAGGAGGCCGGGAGGC
GAAAGCGCCAGgtagggaggaaggaagggagggagggagggagggaggga
gggagggagggagggaggacaggatctgctcatattttgggtgactcata
caatctccctcttttcctacccttccctccctccctccctccctccctcc
ctccctcctttcctcttgtagGTCCTCCGCCTCCTGATCGAGCTCTATCT
TGTGGGCGTGCATCAAGATCACCCCCTCCTCCTCCGCCTCGTCAAATCCA
TCCTCCCTCCCGTCCCCCCCTCTTCGCCCCCCCCCCCTCGACGGACCAGG
ACAACAGCACCACTGGAGGCGGCGGCGGCGGCGGTGGCGGAGGCAGGAGC
CTGA

protein sequence of NO05G04980.1

>NO05G04980.1-protein ID=NO05G04980.1-protein|Name=NO05G04980.1|organism=Nannochloropsis oceanica|type=polypeptide|length=341bp
MQKGGDDKGGGAISSGDGAGKERRQRGDRNGSGSGRGTRKSSGRTTKASK
DIPVTLLSKEKPPVAAVAALSPPPPPSAEERAAAQQKQRDDDAEAAAAKA
AAMQKRKEEEEARRKEQEKEVQLAAIKQLEEMEKAEEARAALRLQNAPAA
VRVSRAEHEAGLKKLKSDLKRTTALIKKVKTALGEDQREIILRDISALNL
TMFVSELVQGVIEAKLKPADVPAAVQVCSALHQRYGAFTTGLMAALPGIL
LDKGGREGGREGGGPAAGEDAKEAGRRKRQVLRLLIELYLVGVHQDHPLL
LRLVKSILPPVPPSSPPPPRRTRTTAPLEAAAAAVAEAGA*

Synonyms

Publications