mRNA_Ecto-sp13_S_contig12327.1947.1 (mRNA) Ectocarpus species13 EcNAP12_S_4_19m

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NamemRNA_Ecto-sp13_S_contig12327.1947.1
Unique NamemRNA_Ecto-sp13_S_contig12327.1947.1
TypemRNA
OrganismEctocarpus species13 EcNAP12_S_4_19m (Ectocarpus species13 EcNAP12_S_4_19m)
Homology
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: D7G8J7_ECTSI (U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=Ectocarpus TaxID=2879 RepID=D7G8J7_ECTSI)

HSP 1 Score: 189 bits (480), Expect = 8.480e-59
Identity = 95/95 (100.00%), Postives = 95/95 (100.00%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRAMGGRGR 288
            LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRAMGGRGR
Sbjct:    2 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRAMGGRGR 96
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A7S2E5C6_9STRA (U6 snRNA-associated Sm-like protein LSm4 (Fragment) n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2E5C6_9STRA)

HSP 1 Score: 143 bits (361), Expect = 2.790e-41
Identity = 71/97 (73.20%), Postives = 83/97 (85.57%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKR--AMGGRGR 288
            LPLSLL+TAQG PMLVELKNGDTYNGRL NCDSWMNI L++VI TSRD D+F K+ E Y+RGNSIKY+ IPE+V+D+VQEEDL +E R  + GGRGR
Sbjct:   16 LPLSLLRTAQGHPMLVELKNGDTYNGRLVNCDSWMNINLREVICTSRDGDRFWKLPECYIRGNSIKYLRIPEDVIDLVQEEDLKQETRNASRGGRGR 112
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A836C9X5_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836C9X5_9STRA)

HSP 1 Score: 143 bits (361), Expect = 9.170e-41
Identity = 70/92 (76.09%), Postives = 80/92 (86.96%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRAMGG 279
            LPLSLL+TAQ  PMLVELKNGDTYNGRLD CD+WMNIKL+DVI+TSRD D+F K+ EVYVRG SIKY+TIP+EVL+MV EE+  KEKRA  G
Sbjct:    2 LPLSLLRTAQSHPMLVELKNGDTYNGRLDMCDNWMNIKLRDVIWTSRDGDRFWKLPEVYVRGTSIKYMTIPDEVLEMVVEEEEGKEKRAAAG 93
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A7S2FS84_9STRA (U6 snRNA-associated Sm-like protein LSm4 (Fragment) n=1 Tax=Florenciella parvula TaxID=236787 RepID=A0A7S2FS84_9STRA)

HSP 1 Score: 139 bits (350), Expect = 7.320e-40
Identity = 66/88 (75.00%), Postives = 77/88 (87.50%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKR 267
            LPLSLL+TAQG PMLVELKNGDTYNGRL NCDSWMNI L++VI TSRD D+F K+ E Y+RGNSIKY+ IPE+V+D+VQEEDL +E R
Sbjct:   15 LPLSLLRTAQGHPMLVELKNGDTYNGRLVNCDSWMNINLREVICTSRDGDRFWKLPECYIRGNSIKYLRIPEDVIDLVQEEDLKQESR 102
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: W7TE23_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TE23_9STRA)

HSP 1 Score: 137 bits (346), Expect = 5.960e-39
Identity = 66/87 (75.86%), Postives = 76/87 (87.36%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEK 264
            LPLSLLKTAQG PMLVELKNGDTYNGRL +CD+WMNI L+DVI TSRD D+F K+ E YVRGNSIKY+ +PEEV+DMV EEDL +E+
Sbjct:    2 LPLSLLKTAQGHPMLVELKNGDTYNGRLVSCDTWMNITLRDVICTSRDGDRFWKIPECYVRGNSIKYLRVPEEVIDMVNEEDLERER 88
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: H3G5G4_PHYRM (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Phytophthora ramorum TaxID=164328 RepID=H3G5G4_PHYRM)

HSP 1 Score: 136 bits (343), Expect = 1.250e-38
Identity = 65/96 (67.71%), Postives = 81/96 (84.38%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSK-EKRAMGGRGR 288
            LPLSLLKTAQG PMLVELKNGDTYNG L NCD+WMN+ L++VI TS+D D+F KM E Y+RGN+IKY+ +P E+LDMV EEDL++ +++A  GRGR
Sbjct:    1 LPLSLLKTAQGHPMLVELKNGDTYNGHLVNCDTWMNVNLREVICTSKDGDRFWKMPECYIRGNTIKYIRVPNEILDMVNEEDLNRRDRQANRGRGR 96
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A7S2UV99_9STRA (U6 snRNA-associated Sm-like protein LSm4 (Fragment) n=1 Tax=Fibrocapsa japonica TaxID=94617 RepID=A0A7S2UV99_9STRA)

HSP 1 Score: 135 bits (341), Expect = 1.550e-38
Identity = 68/98 (69.39%), Postives = 79/98 (80.61%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKE----KRAMGGRG 285
            LPLSLLKTAQG PMLVELKNGDTYNGRL +CDSWMNI L++VI TSRD D+F ++ E Y+RGNSIKY+ IP+EV+DMV EE + KE     R  GGRG
Sbjct:    2 LPLSLLKTAQGHPMLVELKNGDTYNGRLVSCDSWMNINLREVICTSRDGDRFWRLPECYIRGNSIKYLRIPDEVIDMVNEEAMQKEVRMATRGRGGRG 99
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: G4ZVC6_PHYSP (U6 snRNA-associated Sm-like protein LSm4 n=7 Tax=Peronosporaceae TaxID=4777 RepID=G4ZVC6_PHYSP)

HSP 1 Score: 137 bits (345), Expect = 1.800e-38
Identity = 66/96 (68.75%), Postives = 80/96 (83.33%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSK-EKRAMGGRGR 288
            LPLSLLKTAQG PMLVELKNGDTYNG L NCD+WMN+ L++VI TS+D D+F KM E Y+RGN+IKY+ +P E+LDMV EED SK +++A  GRGR
Sbjct:    4 LPLSLLKTAQGHPMLVELKNGDTYNGHLVNCDTWMNVNLREVICTSKDGDRFWKMPECYIRGNTIKYIRVPNEILDMVNEEDFSKRDRQANRGRGR 99
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BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A7S2W2A9_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Rhizochromulina marina TaxID=1034831 RepID=A0A7S2W2A9_9STRA)

HSP 1 Score: 136 bits (343), Expect = 2.600e-38
Identity = 68/97 (70.10%), Postives = 79/97 (81.44%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRA--MGGRGR 288
            LPLSLL+TAQG PMLVELKNGDTYNGRL NCDSWMNI LK+VI TSRD D+F K+ E Y+RGNSIKY+ IPEEV+DMV E++   +K +    GRGR
Sbjct:   10 LPLSLLRTAQGHPMLVELKNGDTYNGRLVNCDSWMNINLKEVICTSRDGDRFWKLAECYIRGNSIKYLRIPEEVIDMVPEDNFKADKHSGRHAGRGR 106
[Close]
BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Match: A0A6A3LNI3_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Phytophthora fragariae TaxID=53985 RepID=A0A6A3LNI3_9STRA)

HSP 1 Score: 134 bits (337), Expect = 1.080e-37
Identity = 62/88 (70.45%), Postives = 73/88 (82.95%), Query Frame = 1 
Query:    4 LPLSLLKTAQGQPMLVELKNGDTYNGRLDNCDSWMNIKLKDVIFTSRDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKR 267
            LPLSLLKTAQG PMLVELKNGDTYNG L NCD+WMN+ L++VI TS+D D+F KM E Y+RGN+IKY+ +P E+LDMV EED SK  R
Sbjct:    2 LPLSLLKTAQGHPMLVELKNGDTYNGHLVNCDTWMNVNLREVICTSKDGDRFWKMPECYIRGNTIKYIRVPNEILDMVNEEDFSKRDR 89
The following BLAST results are available for this feature:
BLAST of mRNA_Ecto-sp13_S_contig12327.1947.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7G8J7_ECTSI8.480e-59100.00U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=E... [more]
A0A7S2E5C6_9STRA2.790e-4173.20U6 snRNA-associated Sm-like protein LSm4 (Fragment... [more]
A0A836C9X5_9STRA9.170e-4176.09U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=T... [more]
A0A7S2FS84_9STRA7.320e-4075.00U6 snRNA-associated Sm-like protein LSm4 (Fragment... [more]
W7TE23_9STRA5.960e-3975.86U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=N... [more]
H3G5G4_PHYRM1.250e-3867.71U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=P... [more]
A0A7S2UV99_9STRA1.550e-3869.39U6 snRNA-associated Sm-like protein LSm4 (Fragment... [more]
G4ZVC6_PHYSP1.800e-3868.75U6 snRNA-associated Sm-like protein LSm4 n=7 Tax=P... [more]
A0A7S2W2A9_9STRA2.600e-3870.10U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=R... [more]
A0A6A3LNI3_9STRA1.080e-3770.45U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=P... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
Ecto-sp13_S_contig12327contigEcto-sp13_S_contig12327:1524..2925 -
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
Ectocarpus species13 EcNAP12_S_4_19m OGS1.02022-07-08
Properties
Property NameValue
Stop0
Start1
Model size489
Hectar predicted targeting categoryother localisation
Exons3
Cds size285
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1681462656.21003-CDS-Ecto-sp13_S_contig12327:1523..17481681462656.21003-CDS-Ecto-sp13_S_contig12327:1523..1748Ectocarpus species13 EcNAP12_S_4_19mCDSEcto-sp13_S_contig12327 1524..1748 -
1681462656.2190664-CDS-Ecto-sp13_S_contig12327:2149..22091681462656.2190664-CDS-Ecto-sp13_S_contig12327:2149..2209Ectocarpus species13 EcNAP12_S_4_19mCDSEcto-sp13_S_contig12327 2150..2209 -


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

Feature NameUnique NameSpeciesTypePosition
1681462656.2302897-UTR-Ecto-sp13_S_contig12327:2209..22671681462656.2302897-UTR-Ecto-sp13_S_contig12327:2209..2267Ectocarpus species13 EcNAP12_S_4_19mUTREcto-sp13_S_contig12327 2210..2267 -
1681462656.245224-UTR-Ecto-sp13_S_contig12327:2781..29251681462656.245224-UTR-Ecto-sp13_S_contig12327:2781..2925Ectocarpus species13 EcNAP12_S_4_19mUTREcto-sp13_S_contig12327 2782..2925 -


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

Feature NameUnique NameSpeciesTypePosition
mRNA_Ecto-sp13_S_contig12327.1947.1prot_Ecto-sp13_S_contig12327.1947.1Ectocarpus species13 EcNAP12_S_4_19mpolypeptideEcto-sp13_S_contig12327 1524..2209 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_Ecto-sp13_S_contig12327.1947.1

>prot_Ecto-sp13_S_contig12327.1947.1 ID=prot_Ecto-sp13_S_contig12327.1947.1|Name=mRNA_Ecto-sp13_S_contig12327.1947.1|organism=Ectocarpus species13 EcNAP12_S_4_19m|type=polypeptide|length=95bp
MLRFQKRCWTWCKKKTSPKRSAPWAGEVAVAGEADGTAAGAAAGGGATGE
VVAAGEAGGTGAGVGAGGGGAKGGAGAEGGARGEVPPGGETAAGE
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mRNA from alignment at Ecto-sp13_S_contig12327:1524..2925-

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_Ecto-sp13_S_contig12327.1947.1 ID=mRNA_Ecto-sp13_S_contig12327.1947.1|Name=mRNA_Ecto-sp13_S_contig12327.1947.1|organism=Ectocarpus species13 EcNAP12_S_4_19m|type=mRNA|length=1402bp|location=Sequence derived from alignment at Ecto-sp13_S_contig12327:1524..2925- (Ectocarpus species13 EcNAP12_S_4_19m)
CAGCTTCCGCTCTCGTTGCTCAAGACGGCCCAGGGCCAGCCTATGCTGGT
GGAGTTGAAGAACGGCGACACCTACAACGGGCGACTCGACAACTGCGACA
GCTGGATGAACATCAAGCTGAAGGACGTCATTTTCACCTCAAGGGTAAGG
GGGAACGACGGACGGACGGTGTTTGGCGCCAGCGGCGCGCCTTGCTGGTG
TGTATTGCCGTAAGGGCGGCACGGGGCCCCGAAGCGTTTACCGTCTCTTT
CGGGCTCCATCTTATCTTATACCTGCTTGCTGCAAAGAAGCGCACGACGA
CACGTCCCCAACGGTTGAAAGCGGACAATAAGAAAAGGCACGGGAAAGAC
AATGCAAGGAGGGCTGTCGCATCCAAACCTGTGTCCCGTGGTGTCCTGTC
GTTGTCTGCCCCTTGTCGCCTCTCACAAAGCACTCTCAAGAGTCGCCAAG
AACCTGCTTTTTTCCTCTGTAGCGTCCTCTGCATTCTCATCTTATCTCTT
GCACGTCGCACAGCAGTCTGAACTCGTTCCCATCACTTGCCGTGTCTTCG
ACCCTGACCTCTCTTGCACGTTGCAAAGCAGTCTCGACTCATTCCACCAC
CTGCCTTGTCTTTACCTGACCCCTCACCCCGCCCCTCTGCTCGTTATAAT
ACGCACAGGACGCCGACAAGTTCGTGAAGATGGTAGAAGTGTACGTTCGC
GGCAACAGCATCAAGTATGTTACGATTCCAGAAGAGGTGTTGGACATGGT
GCAAGAAGAAGACCTCTCCAAAGAGAGTGAGTTAACTGTAAAATCTGCGT
TTTCTGTTTCGTGTTGCGTTCTTGTTTCTTGAGCACGTGGGAACGTCGGC
AGTTTGTGCGCGCCACTGCTGGCCGTTTGTTCGCCGCAGCCGGAGCCATC
TGTATGTTCCCCTTTGTTTCGGCATCGTAAAACAGTATTAGCGGCAGCTT
TCGACGAGCTGGTTGTGGAGGTTGAGCATGTTGAGAACTTGAGACACGGC
CATCGTTCTATTTAGAAGCTCGATTCTCAAACGGCAGCTATTTCTGTCTC
GTTGGATCCATGTACAACTTCGGTTGCGACGAGAGGCGCACACCTACTCT
TACGCGTGCTTCTTTTTTACGCACGCCCACTCCTCGATTCTCTGCTGGAT
TTCTTTTGCAAAATCACGCCGTCACAGAGCGCGCCATGGGCGGGAGAGGT
CGCGGTCGCGGGCGAGGCGGACGGGACGGCGGCAGGGGCGGCGGCAGGGG
GCGGGGCGACGGGAGAGGTCGTGGCCGCGGGCGAGGCGGGCGGGACGGGG
GCAGGGGTGGGGGCGGGAGGGGGCGGAGCGAAGGGAGGGGCGGGGGCAGA
GGGAGGGGCGAGGGGAGAGGTGCCGCCGGGCGGGGAGACGGCGGCGGGCG
AG
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Coding sequence (CDS) from alignment at Ecto-sp13_S_contig12327:1524..2925-

>mRNA_Ecto-sp13_S_contig12327.1947.1 ID=mRNA_Ecto-sp13_S_contig12327.1947.1|Name=mRNA_Ecto-sp13_S_contig12327.1947.1|organism=Ectocarpus species13 EcNAP12_S_4_19m|type=CDS|length=285bp|location=Sequence derived from alignment at Ecto-sp13_S_contig12327:1524..2925- (Ectocarpus species13 EcNAP12_S_4_19m)
ATGTTACGATTCCAGAAGAGGTGTTGGACATGGTGCAAGAAGAAGACCTC
TCCAAAGAGAAGCGCGCCATGGGCGGGAGAGGTCGCGGTCGCGGGCGAGG
CGGACGGGACGGCGGCAGGGGCGGCGGCAGGGGGCGGGGCGACGGGAGAG
GTCGTGGCCGCGGGCGAGGCGGGCGGGACGGGGGCAGGGGTGGGGGCGGG
AGGGGGCGGAGCGAAGGGAGGGGCGGGGGCAGAGGGAGGGGCGAGGGGAG
AGGTGCCGCCGGGCGGGGAGACGGCGGCGGGCGAG
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