NO01G04620, NO01G04620 (gene) Nannochloropsis oceanica

Overview
NameNO01G04620
Unique NameNO01G04620
Typegene
OrganismNannochloropsis oceanica (N. oceanica IMET1)
Sequence length2307
Alignment locationchr1:1218954..1221260 +

Link to JBrowse

Properties
Property NameValue
DescriptionRibonucleoprotein LSM
Mutants
Expression

Hover the mouse over a column in the graph to view expression values.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
chr1genomechr1:1218954..1221260 +
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
PXD0160542021-01-14
PXD0166992021-01-08
GSE1499042020-10-10
NoIMET1_WT_HS2020-09-29
PXD0100302020-03-16
GSE1396152020-03-11
PRJNA2413822020-03-11
BLASTP analysis of N. oceanica IMET1 genes2019-07-11
InterPro analysis for N. oceanica IMET1 genes2019-07-11
PXD0087212019-04-30
PRJNA1821802019-04-25
Gene prediction for N. oceanica IMET12017-10-24
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR010920LSM_dom
IPR025762DFDF
IPR025768TFG_box
IPR025761FFD_box
IPR025609Lsm14_N
IPR019050FDF_dom
Homology
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_005854112.1 (hypothetical protein NGA_0450300, partial [Nannochloropsis gaditana CCMP526] >EKU22247.1 hypothetical protein NGA_0450300, partial [Nannochloropsis gaditana CCMP526])

HSP 1 Score: 132.1 bits (331), Expect = 3.500e-27
Identity = 65/84 (77.38%), Postives = 72/84 (85.71%), Query Frame = 0
Query:    1 MAAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPS 85
            M  PGKLIGS ISL+SNKDIRYEG+L++IDQEKS VTLQ+VKC GTEGRT A GQ Y  DD +YDYILFEASDIKDLHVH+A S
Sbjct:    1 MGTPGKLIGSVISLVSNKDIRYEGVLYAIDQEKSSVTLQSVKCFGTEGRTGA-GQEYLPDDKVYDYILFEASDIKDLHVHEAAS 83          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: EWM29417.1 (ribonucleoprotein LSM [Nannochloropsis gaditana])

HSP 1 Score: 131.0 bits (328), Expect = 7.700e-27
Identity = 64/82 (78.05%), Postives = 71/82 (86.59%), Query Frame = 0
Query:    1 MAAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDA 83
            M  PGKLIGS ISL+SNKDIRYEG+L++IDQEKS VTLQ+VKC GTEGRT A GQ Y  DD +YDYILFEASDIKDLHVH+A
Sbjct:    1 MGTPGKLIGSVISLVSNKDIRYEGVLYAIDQEKSSVTLQSVKCFGTEGRTGA-GQEYLPDDKVYDYILFEASDIKDLHVHEA 81          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: OEL20610.1 (Protein decapping 5 [Dichanthelium oligosanthes])

HSP 1 Score: 94.4 bits (233), Expect = 8.000e-16
Identity = 47/88 (53.41%), Postives = 61/88 (69.32%), Query Frame = 0
Query:    2 AAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAAS 90
            AAP   IGS ISL S  +IRYEG+L++I+ E+S + L++V+  GTEGR   DGQ  PA D +Y+YILF  SDIKDLHV  +P    A+
Sbjct:    3 AAPESYIGSVISLTSKSEIRYEGVLYTINTEESSIGLRSVRSFGTEGR-KKDGQQIPASDKIYEYILFRGSDIKDLHVKSSPPAQPAT 89          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_004367978.1 (FFD and TFG box motifscontaining protein [Acanthamoeba castellanii str. Neff] >ELR25223.1 FFD and TFG box motifscontaining protein [Acanthamoeba castellanii str. Neff])

HSP 1 Score: 94.0 bits (232), Expect = 1.000e-15
Identity = 51/89 (57.30%), Postives = 58/89 (65.17%), Query Frame = 0
Query:    3 APGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAASAP 92
            AP   IGS ISLIS   IRYEGILFSID ++S V LQ V+  GTEGR   DGQ  P  + +YDYI+F  SDIKDL V + P  PA   P
Sbjct:    5 APIPYIGSRISLISVSGIRYEGILFSIDPKQSTVALQNVRSFGTEGRR-KDGQQIPPSNNVYDYIIFRGSDIKDLQVCEPPPQPAQPQP 92          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_002438363.1 (protein decapping 5 isoform X1 [Sorghum bicolor] >EER89730.1 hypothetical protein SORBI_3010G138200 [Sorghum bicolor] >OQU76369.1 hypothetical protein SORBI_3010G138200 [Sorghum bicolor])

HSP 1 Score: 92.0 bits (227), Expect = 4.000e-15
Identity = 46/88 (52.27%), Postives = 62/88 (70.45%), Query Frame = 0
Query:    2 AAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAAS 90
            AAP   IGS ISL+S  +IRYEG+L++I+ E+S + L+ V+  GTEGR   DGQ  PA D +Y+YILF  SDIKDL V  +P + +A+
Sbjct:    7 AAPESYIGSLISLMSKSEIRYEGVLYTINTEESSIGLRNVRSFGTEGR-KKDGQQIPASDKIYEYILFRGSDIKDLQVKSSPPSQSAT 93          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_021305220.1 (protein decapping 5 isoform X2 [Sorghum bicolor])

HSP 1 Score: 92.0 bits (227), Expect = 4.000e-15
Identity = 46/88 (52.27%), Postives = 62/88 (70.45%), Query Frame = 0
Query:    2 AAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAAS 90
            AAP   IGS ISL+S  +IRYEG+L++I+ E+S + L+ V+  GTEGR   DGQ  PA D +Y+YILF  SDIKDL V  +P + +A+
Sbjct:    7 AAPESYIGSLISLMSKSEIRYEGVLYTINTEESSIGLRNVRSFGTEGR-KKDGQQIPASDKIYEYILFRGSDIKDLQVKSSPPSQSAT 93          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_016272503.1 (G2/M transition checkpoint protein Sum2 [Rhodotorula toruloides NP11] >EMS21384.1 G2/M transition checkpoint protein Sum2 [Rhodotorula toruloides NP11] >CDR48458.1 RHTO0S18e00496g1_1 [Rhodotorula toruloides])

HSP 1 Score: 90.9 bits (224), Expect = 8.800e-15
Identity = 47/91 (51.65%), Postives = 63/91 (69.23%), Query Frame = 0
Query:    6 KLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAASAPAPKAV 97
            + IGSHISL+S  DIRY+G+L SID   + V+L+ V+ LGTEGR     +  PA DT+YD+I+F ASD+KDL + +AP T   SAP   A+
Sbjct:    4 QFIGSHISLVSKSDIRYQGVLHSIDPAAATVSLERVRSLGTEGRKENPAEEVPASDTVYDFIVFRASDVKDLQI-EAP-TANDSAPQDPAI 92          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_020685502.1 (protein decapping 5 [Dendrobium catenatum] >PKU62102.1 Protein decapping 5 [Dendrobium catenatum])

HSP 1 Score: 90.1 bits (222), Expect = 1.500e-14
Identity = 48/93 (51.61%), Postives = 63/93 (67.74%), Query Frame = 0
Query:    3 APGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAP---STPAASAPA 93
            +P   IGS I+L SN +IRYEGIL++I+ E+S + L+ V+  GTEGR   DG   PA D +Y+YILF  SDIKDL V  +P   +TPA + PA
Sbjct:   11 SPDSYIGSLITLTSNSEIRYEGILYNINTEESSIGLRNVRSFGTEGR-KKDGSQIPASDKIYEYILFRGSDIKDLQVKTSPPVQTTPAHNDPA 102          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: PRQ75576.1 (Scd6-like Sm domain-domain containing protein [Rhodotorula toruloides])

HSP 1 Score: 90.1 bits (222), Expect = 1.500e-14
Identity = 44/91 (48.35%), Postives = 62/91 (68.13%), Query Frame = 0
Query:    6 KLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAASAPAPKAV 97
            + IGSHISL+S  DIRY+G+L SID   + V+L+ V+ LGTEGR     +  PA DT+YD+I+F ASD+KDL + +AP+   ++   P  V
Sbjct:    4 QFIGSHISLVSKSDIRYQGVLHSIDPAAATVSLERVRSLGTEGRKENPAEEVPASDTVYDFIVFRASDVKDLQI-EAPTANESTPQDPAIV 93          
BLAST of NO01G04620 vs. NCBI_GenBank
Match: XP_006656110.1 (PREDICTED: protein decapping 5-like [Oryza brachyantha])

HSP 1 Score: 89.7 bits (221), Expect = 2.000e-14
Identity = 45/82 (54.88%), Postives = 57/82 (69.51%), Query Frame = 0
Query:    2 AAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRTPADGQAYPADDTLYDYILFEASDIKDLHVHDAP 84
            AAP   IGS ISL S  +IRYEG+L++I+ E+S + L+ V+  GTEGR   DGQ  PA D +Y+YILF  SDIKDL V  +P
Sbjct:    8 AAPESYIGSVISLTSKSEIRYEGVLYTINTEESSIGLRNVRSFGTEGR-KKDGQQIPASDKIYEYILFRGSDIKDLQVKSSP 88          
The following BLAST results are available for this feature:
BLAST of NO01G04620 vs. NCBI_GenBank
Analysis Date: 2019-07-11 (BLASTP analysis of N. oceanica IMET1 genes)
Total hits: 20
Match NameE-valueIdentityDescription
XP_005854112.13.500e-2777.38hypothetical protein NGA_0450300, partial [Nannoch... [more]
EWM29417.17.700e-2778.05ribonucleoprotein LSM [Nannochloropsis gaditana][more]
OEL20610.18.000e-1653.41Protein decapping 5 [Dichanthelium oligosanthes][more]
XP_004367978.11.000e-1557.30FFD and TFG box motifscontaining protein [Acantham... [more]
XP_002438363.14.000e-1552.27protein decapping 5 isoform X1 [Sorghum bicolor] >... [more]
XP_021305220.14.000e-1552.27protein decapping 5 isoform X2 [Sorghum bicolor][more]
XP_016272503.18.800e-1551.65G2/M transition checkpoint protein Sum2 [Rhodotoru... [more]
XP_020685502.11.500e-1451.61protein decapping 5 [Dendrobium catenatum] >PKU621... [more]
PRQ75576.11.500e-1448.35Scd6-like Sm domain-domain containing protein [Rho... [more]
XP_006656110.12.000e-1454.88PREDICTED: protein decapping 5-like [Oryza brachya... [more]

Pages

back to top
Relationships

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

Feature NameUnique NameSpeciesType
nonsL005nonsL005Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ncniR047ncniR047Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region
ngnoR091ngnoR091Nannochloropsis oceanica (N. oceanica IMET1)syntenic_region


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

Feature NameUnique NameSpeciesType
NSK007812NSK007812Nannochloropsis salina (N. salina CCMP1776)gene


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

Feature NameUnique NameSpeciesType
NO01G04620.1NO01G04620.1-proteinNannochloropsis oceanica (N. oceanica IMET1)polypeptide


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

Feature NameUnique NameSpeciesType
jgi.p|Nanoce1779_2|243330gene_482Nannochloropsis oceanica (N. oceanica CCMP1779)gene
Naga_100042g3gene1240Nannochloropsis gaditana (N. gaditana B-31)gene


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

Feature NameUnique NameSpeciesType
NO01G04620.1NO01G04620.1Nannochloropsis oceanica (N. oceanica IMET1)mRNA


Sequences
The following sequences are available for this feature:

gene sequence

>NO01G04620 ID=NO01G04620|Name=NO01G04620|organism=Nannochloropsis oceanica|type=gene|length=2307bp
ATGGCGGCACCGGGCAAGCTTATCGGCTCGCACATCAGCCTCATCTCCAA
CAAGGACATCCGGTACGAAGGCATACTCTTCTCTATTGACCAAGAGAAGT
CCTGCGTCACCTTGCAAGCAGTCAAGTGCCTCGGCACCGAAGGCCGGACC
CCCGCAGACGGACAGGCGTATCCGGCTGATGACACCTTGTACGATTACAT
CCTATTCGAGGCTTCGGACATCAAGGACTTGCACGTCCACGACGCCCCCT
CTACCCCAGCCGCTTCTGCTCCCGCACCCAAGGCCGTTCCTGCTTCCCAA
CAGCAGCAGCAGCAACAAGCACCGCCGCAGCCGCAACAAGCTTCGAGACC
ACCATCACAACAGCAGCAGCAGTATCAGCAGCAACGTCCAGTGGGTGCTG
GTGGTCGTGGAGCCCCAAGAGGAGGACGATACAGCACACGAGGAGGAGGA
GGAGGACGAGGAGGAGGGCGAGGGGGAGGGATTGGAGGAGATCGTCCCAC
CGTCTCCGGCCCTTTGCCTGGCACAGGCGGGCATTTATTAAACCGACGAG
GAAAGGTTGAGGGAGCGTCTCAGGGCGGACCGGAGGGAGGGGAGGGTGAG
TTTGATTTCCAAGAGGCGCTGCAGGGTTTTAATAAAGAGGAGGAGTTCTC
GAAGTTGGCTGTTAACGACGACAACACCAGCATCAGCAACAACGATACCG
AGGCAGGTGGAGCGGGAGCCACGGAGGGCGGCGGAAATATCGAGGGTGCG
ACGACGGCGGCAGTAGCAGCAGCGGTGGTTCCGGAAGTAAAGAAATATAA
CAAGAGCTCATTCTTTGACGACCTAAGCTCGGGACAAGGGATGGGAGGGC
GGCCGACCCTGGCAGAGGAGAGGAAGACGAACATGGACACGTTTGGCGTG
GCTGCGCTACACAACCCCAACAATCGTCGGTTCGGAGGAGGGAGAGGAGG
GGGCCGTGGTGGGTCTTTCAGGGGTGGGGGCGGACGGGGTGGGGGGAGGG
GTCGTGGGGGGTATAGGGGAGGGAGGGGGGGAGGGAGGGGATACGCCCCG
GCCGCCCAGGGCGGGGGAGGAGCACCGGTACAGGCTTAAGTGGAGGGAGG
AAAAGAGAAGGGGAGAGATGAGAGGGTTGGTGGTCGTGGATGGGACGAAT
GGAAGAGACGGAGGAGGAGGAGGAGGAGGAGGACGACGACGAGGACGAGA
GGAGGAGTGGAGGTAAGAGTGTCTGTACTTGGCATGCACTGCGGCGACTG
ACATCATTCGCGGGCGGGAGAATGAGGGATCACATTAAAAGGGAAGTCTT
CTTCGAGGAGAAGGAGGAGGAGGACGCACCTTAGCGAGAGGTAGGGAGAA
ACAGGGAGATAGGAGAGATCAGTACGGGAAAGTACATGCTGTGATCTGAT
GAAGAGGCAACAGAGACAACGCAAAAACACGCGCATTTATGGAGAACTTA
CGAAAAGGCTGCATCAGCAGGAGGAGCAGTAGCAGCATCATAGAAAAGCA
CATCCCCCCCCAACAAGAACGAGACAGTCAAATTTTTAAGTGCTGTCGAG
GAGGAGGAAGGGGGAGGAAGAGGAGTAGAGTCAGGAGGAATGAGGGGAGG
ATATGGAATTAAAAGATTATTTCTTTTCATACTTCGAAGGAGTAGTAGAT
GTAAGGACGACGATATAGAGAGGAGGGGGTGAGATAGGCAGAGGAAGAAG
AAAGAAGGATAACATGAAGATGGATCAGAAGGAGAAGCCCGAAGAGTAGA
AAAGAAGTATGAGAGAAGATAAAAGATGAATACGAAGAAAAGAAGGAGTG
GGGGAAAGAACGGTTGAGGCAGGGGTATGGAGACAGCAGACGGAGAACAA
ACCGTCGAAAGGGAGAGCTTGAGGGAGGGAGGGAGGGAGGGAGGGAGAGT
AGGGAACAGAGAGAGAGAAGGAAAGAACGATGGGAAGGGTGTGGTGGCTC
GGCTGGGTCGGGCAGTTCATCAGTTGAATTCTTCGGCAGGGTGGAGGCTT
GTGTGATTGTGCGTTGTATGGGTGTTGGCAGGCAGACAGAGAGACTTGTA
CGACGAAAACGAGCTAGCAGACGGGCAAGCCAGGATAGGATTGCGAGGAG
AAGGGAATAGATTAGTTGAGGGCGAGAATCTGTTCGAAGAGCGATAATGA
TTGCGGCAAGAAGCGCCGCATGGTCGACAACGACGAAGAGAAAGGCAGGG
CTTCCGGGTACCATGTCATCGAACCGTCAAATGTACGCCTGGTAGTGAGC
GGACAGCAAACAAATTCCCAGCTCTGGCCAAAAAGGAACAATGATCGACT
CCCTCGC
back to top

protein sequence of NO01G04620.1

>NO01G04620.1-protein ID=NO01G04620.1-protein|Name=NO01G04620.1|organism=Nannochloropsis oceanica|type=polypeptide|length=363bp
MAAPGKLIGSHISLISNKDIRYEGILFSIDQEKSCVTLQAVKCLGTEGRT
PADGQAYPADDTLYDYILFEASDIKDLHVHDAPSTPAASAPAPKAVPASQ
QQQQQQAPPQPQQASRPPSQQQQQYQQQRPVGAGGRGAPRGGRYSTRGGG
GGRGGGRGGGIGGDRPTVSGPLPGTGGHLLNRRGKVEGASQGGPEGGEGE
FDFQEALQGFNKEEEFSKLAVNDDNTSISNNDTEAGGAGATEGGGNIEGA
TTAAVAAAVVPEVKKYNKSSFFDDLSSGQGMGGRPTLAEERKTNMDTFGV
AALHNPNNRRFGGGRGGGRGGSFRGGGGRGGGRGRGGYRGGRGGGRGYAP
AAQGGGGAPVQA*
back to top
Synonyms
Publications