EWM21598.1, cds9054 (CDS) Nannochloropsis gaditana

Overview
NameEWM21598.1
Unique Namecds9054
TypeCDS
OrganismNannochloropsis gaditana (N. gaditana B-31)
Alignment locationKK037251.1:296063..296313 -
Alignment locationKK037251.1:295912..296017 -
Alignment locationKK037251.1:295743..295829 -

Link to JBrowse

Properties
Property NameValue
Protein idEWM21598.1
Productribonucleoprotein LSM
Orig transcript idgnl|cribi|Naga_100012g36.1930.mrna
GeneLsm5
GbkeyCDS
Mutants
Expression
No biomaterial libraries express this feature.
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
KK037251.1supercontigKK037251.1:296063..296313 -
KK037251.1supercontigKK037251.1:295912..296017 -
KK037251.1supercontigKK037251.1:295743..295829 -
Analyses
This CDS is derived from or has results from the following analyses
Analysis NameDate Performed
GO annotation for N. gaditana B312020-04-08
BLAST analysis for N. gaditana B-312020-04-07
InterPro analysis for N. gaditana B-312020-04-06
Gene prediction for N. gaditana B-312014-02-18
Annotated Terms
The following terms have been associated with this CDS:
Vocabulary: Biological Process
TermDefinition
GO:0006950response to stress
GO:0006139nucleobase-containing compound metabolic process
GO:0042221response to chemical
GO:0009719response to endogenous stimulus
GO:0009628response to abiotic stimulus
Vocabulary: Cellular Component
TermDefinition
GO:0005737cytoplasm
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
Vocabulary: INTERPRO
TermDefinition
IPR010920LSM_dom
IPR001163Ribonucl_LSM
IPR006649Ribonucl_LSM_euk/arc
Homology
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|585101853|gb|EWM21598.1| (ribonucleoprotein LSM [Nannochloropsis gaditana])

HSP 1 Score: 304.679 bits (779), Expect = 7.588e-105
Identity = 147/147 (100.00%), Postives = 147/147 (100.00%), Query Frame = 0
Query:    1 MAGRLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGRLVRFVGRREHDVHLMKCQFLWECVEATATRFPTLDMVLPGLNWGGSPRICSILRKNRQRHTA 147
            MAGRLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGRLVRFVGRREHDVHLMKCQFLWECVEATATRFPTLDMVLPGLNWGGSPRICSILRKNRQRHTA
Sbjct:    1 MAGRLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGRLVRFVGRREHDVHLMKCQFLWECVEATATRFPTLDMVLPGLNWGGSPRICSILRKNRQRHTA 147          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|697097110|ref|XP_009619781.1| (PREDICTED: sm-like protein LSM5 [Nicotiana tomentosiformis] >gi|698473083|ref|XP_009784403.1| PREDICTED: U6 snRNA-associated Sm-like protein LSm5 [Nicotiana sylvestris] >gi|1025245277|ref|XP_016487672.1| PREDICTED: sm-like protein LSM5 [Nicotiana tabacum] >gi|1025336918|ref|XP_016507205.1| PREDICTED: sm-like protein LSM5 [Nicotiana tabacum] >gi|1111069595|ref|XP_019240796.1| PREDICTED: sm-like protein LSM5 [Nicotiana attenuata])

HSP 1 Score: 134.806 bits (338), Expect = 1.358e-38
Identity = 64/79 (81.01%), Postives = 72/79 (91.14%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPE 82
            +LLP EL+D+CIGS++WVIMKGD+ELVGTL+ FD YVNMVLEDVTEYE+TPEGK   KLDQILLNGNNIAILVPG SPE
Sbjct:    8 QLLPSELIDRCIGSKIWVIMKGDKELVGTLRGFDVYVNMVLEDVTEYEITPEGKRVTKLDQILLNGNNIAILVPGGSPE 86          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|299471840|emb|CBN77010.1| (Sm-like protein LSm5 [Ectocarpus siliculosus])

HSP 1 Score: 134.806 bits (338), Expect = 1.634e-38
Identity = 66/84 (78.57%), Postives = 75/84 (89.29%), Query Frame = 0
Query:    1 MAGRLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEG-KVAHKLDQILLNGNNIAILVPGRSPED 83
            MA RLLPLEL+DKCIGSRLW+IMKGD+ELVGTL+ FDDYVNMVL+DVTEYEV  +G K   +LDQILLNGNN+A+LVPG SPED
Sbjct:    1 MAARLLPLELIDKCIGSRLWIIMKGDKELVGTLRGFDDYVNMVLDDVTEYEVDADGTKRRIQLDQILLNGNNVAMLVPGGSPED 84          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|727422124|ref|XP_010439778.1| (PREDICTED: sm-like protein LSM5 [Camelina sativa] >gi|727536460|ref|XP_010442339.1| PREDICTED: sm-like protein LSM5 isoform X1 [Camelina sativa])

HSP 1 Score: 134.806 bits (338), Expect = 1.727e-38
Identity = 64/82 (78.05%), Postives = 73/82 (89.02%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGR 85
            +LLP EL+D+CIGS++WVIMKGD+ELVGTLK FD YVNMVLEDVTEYE+T EG+   KLDQILLNGNNIAILVPG SP+DG 
Sbjct:    7 QLLPSELIDRCIGSKIWVIMKGDKELVGTLKGFDVYVNMVLEDVTEYEITAEGRRVTKLDQILLNGNNIAILVPGGSPDDGE 88          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|297792081|ref|XP_002863925.1| (sm-like protein LSM5 [Arabidopsis lyrata subsp. lyrata] >gi|297309760|gb|EFH40184.1| hypothetical protein ARALYDRAFT_917817 [Arabidopsis lyrata subsp. lyrata])

HSP 1 Score: 134.035 bits (336), Expect = 2.765e-38
Identity = 64/82 (78.05%), Postives = 72/82 (87.80%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGR 85
            +LLP EL+D+CIGS++WVIMKGD+ELVG LK FD YVNMVLEDVTEYE+T EG+   KLDQILLNGNNIAILVPG SPEDG 
Sbjct:    7 QLLPSELIDRCIGSKIWVIMKGDKELVGILKGFDVYVNMVLEDVTEYEITAEGRRVTKLDQILLNGNNIAILVPGGSPEDGE 88          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|15239727|ref|NP_199698.1| (Small nuclear ribonucleoprotein family protein [Arabidopsis thaliana] >gi|75262597|sp|Q9FKB0.1|LSM5_ARATH RecName: Full=Sm-like protein LSM5; Short=AtLSM5; AltName: Full=Protein SUPERSENSITIVE TO ABA AND DROUGHT 1; Short=AtSAD1; AltName: Full=U6 snRNA-associated Sm-like protein LSM5 >gi|9758886|dbj|BAB09440.1| U6 snRNA-associated Sm-like protein-like [Arabidopsis thaliana] >gi|16554971|gb|AAK61592.1| Sm-like protein [Arabidopsis thaliana] >gi|106879147|gb|ABF82603.1| At5g48870 [Arabidopsis thaliana] >gi|332008352|gb|AED95735.1| Small nuclear ribonucleoprotein family protein [Arabidopsis thaliana] >gi|386305005|gb|AFJ05005.1| hypothetical protein [Arabidopsis thaliana] >gi|1032281726|gb|OAO96054.1| SAD1 [Arabidopsis thaliana])

HSP 1 Score: 134.035 bits (336), Expect = 2.985e-38
Identity = 64/82 (78.05%), Postives = 72/82 (87.80%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGR 85
            +LLP EL+D+CIGS++WVIMKGD+ELVG LK FD YVNMVLEDVTEYE+T EG+   KLDQILLNGNNIAILVPG SPEDG 
Sbjct:    7 QLLPSELIDRCIGSKIWVIMKGDKELVGILKGFDVYVNMVLEDVTEYEITAEGRRVTKLDQILLNGNNIAILVPGGSPEDGE 88          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|1173961581|gb|OQS07598.1| (hypothetical protein THRCLA_20104 [Thraustotheca clavata])

HSP 1 Score: 133.65 bits (335), Expect = 4.131e-38
Identity = 61/79 (77.22%), Postives = 72/79 (91.14%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPE 82
            RLLPLEL+DKCIGSR+W+IMKGD+E VGTL+ FDDYVNMVL+DVTEYEVTPEGK   ++DQ+LLNGNN+ +LVPG SPE
Sbjct:    5 RLLPLELIDKCIGSRIWIIMKGDKEFVGTLRGFDDYVNMVLDDVTEYEVTPEGKRKIQVDQVLLNGNNVCLLVPGGSPE 83          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|694415767|ref|XP_009336045.1| (PREDICTED: sm-like protein LSM5 [Pyrus x bretschneideri])

HSP 1 Score: 133.65 bits (335), Expect = 4.938e-38
Identity = 63/79 (79.75%), Postives = 72/79 (91.14%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPE 82
            +LLP EL+D+CIGS++WVIMKGD+ELVGTL+ FD YVNMVLEDVTEYE+TPEG+   KLDQILLNGNNIAILVPG SPE
Sbjct:    8 QLLPSELIDRCIGSKIWVIMKGDKELVGTLRGFDVYVNMVLEDVTEYEITPEGRRITKLDQILLNGNNIAILVPGGSPE 86          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|565430634|ref|XP_006279717.1| (hypothetical protein CARUB_v10027453mg [Capsella rubella] >gi|482548421|gb|EOA12615.1| hypothetical protein CARUB_v10027453mg [Capsella rubella])

HSP 1 Score: 133.265 bits (334), Expect = 5.331e-38
Identity = 63/82 (76.83%), Postives = 72/82 (87.80%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPEDGR 85
            +LLP EL+D+C+GS++WVIMKGD+ELVG LK FD YVNMVLEDVTEYE+T EG+   KLDQILLNGNNIAILVPG SPEDG 
Sbjct:    7 QLLPSELIDRCVGSKIWVIMKGDKELVGILKGFDVYVNMVLEDVTEYEITAEGRRVTKLDQILLNGNNIAILVPGGSPEDGE 88          
BLAST of EWM21598.1 vs. NCBI_GenBank
Match: gi|657961707|ref|XP_008372449.1| (PREDICTED: sm-like protein LSM5 [Malus domestica] >gi|694314460|ref|XP_009371285.1| PREDICTED: sm-like protein LSM5 [Pyrus x bretschneideri])

HSP 1 Score: 133.265 bits (334), Expect = 5.947e-38
Identity = 63/79 (79.75%), Postives = 72/79 (91.14%), Query Frame = 0
Query:    4 RLLPLELVDKCIGSRLWVIMKGDQELVGTLKSFDDYVNMVLEDVTEYEVTPEGKVAHKLDQILLNGNNIAILVPGRSPE 82
            +LLP EL+D+CIGS++WVIMKGD+ELVGTL+ FD YVNMVLEDVTEYE+TPEG+   KLDQILLNGNNIAILVPG SPE
Sbjct:    8 QLLPSELIDRCIGSKIWVIMKGDKELVGTLRGFDVYVNMVLEDVTEYEITPEGRRITKLDQILLNGNNIAILVPGGSPE 86          
The following BLAST results are available for this feature:
BLAST of EWM21598.1 vs. NCBI_GenBank
Analysis Date: 2020-04-07 (BLAST analysis for N. gaditana B-31)
Total hits: 10
Match NameE-valueIdentityDescription
gi|585101853|gb|EWM21598.1|7.588e-105100.00ribonucleoprotein LSM [Nannochloropsis gaditana][more]
gi|697097110|ref|XP_009619781.1|1.358e-3881.01PREDICTED: sm-like protein LSM5 [Nicotiana tomento... [more]
gi|299471840|emb|CBN77010.1|1.634e-3878.57Sm-like protein LSm5 [Ectocarpus siliculosus][more]
gi|727422124|ref|XP_010439778.1|1.727e-3878.05PREDICTED: sm-like protein LSM5 [Camelina sativa] ... [more]
gi|297792081|ref|XP_002863925.1|2.765e-3878.05sm-like protein LSM5 [Arabidopsis lyrata subsp. ly... [more]
gi|15239727|ref|NP_199698.1|2.985e-3878.05Small nuclear ribonucleoprotein family protein [Ar... [more]
gi|1173961581|gb|OQS07598.1|4.131e-3877.22hypothetical protein THRCLA_20104 [Thraustotheca c... [more]
gi|694415767|ref|XP_009336045.1|4.938e-3879.75PREDICTED: sm-like protein LSM5 [Pyrus x bretschne... [more]
gi|565430634|ref|XP_006279717.1|5.331e-3876.83hypothetical protein CARUB_v10027453mg [Capsella r... [more]
gi|657961707|ref|XP_008372449.1|5.947e-3879.75PREDICTED: sm-like protein LSM5 [Malus domestica] ... [more]
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Relationships

This CDS is a part of the following mRNA feature(s):

Feature NameUnique NameSpeciesType
rna9084rna9084Nannochloropsis gaditana (N. gaditana B-31)mRNA


Sequences
Synonyms
Publications