mRNA_S-dermatodea_contig8243.16442.1 (mRNA) Saccorhiza dermatodea SderLu1190fm monoicous

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

Overview
NamemRNA_S-dermatodea_contig8243.16442.1
Unique NamemRNA_S-dermatodea_contig8243.16442.1
TypemRNA
OrganismSaccorhiza dermatodea SderLu1190fm monoicous (Saccorhiza dermatodea SderLu1190fm monoicous)
Homology
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: D8LPU6_ECTSI (Sm-like protein LSm7 n=2 Tax=Ectocarpus TaxID=2879 RepID=D8LPU6_ECTSI)

HSP 1 Score: 89.4 bits (220), Expect = 8.430e-22
Identity = 42/45 (93.33%), Postives = 43/45 (95.56%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIR 135
            VLDLQKYLDQGVRVKLQGGREV GVLKGFDPLVNVVLD CIE+IR
Sbjct:   12 VLDLQKYLDQGVRVKLQGGREVHGVLKGFDPLVNVVLDECIEFIR 56
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A8C8UNV2_PERMB (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated n=1 Tax=Peromyscus maniculatus bairdii TaxID=230844 RepID=A0A8C8UNV2_PERMB)

HSP 1 Score: 81.6 bits (200), Expect = 5.730e-19
Identity = 36/54 (66.67%), Postives = 44/54 (81.48%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGELRRKNRH 162
            +LDL KY+D+ +RVK QGGRE  G+LKGFDPL+N+VLDG IEY+RGEL    RH
Sbjct:   13 ILDLSKYIDKTIRVKFQGGREASGILKGFDPLLNLVLDGTIEYMRGELWLWGRH 66
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: UPI001C4CA62A (U6 snRNA-associated Sm-like protein LSm7 isoform X2 n=1 Tax=Sceloporus undulatus TaxID=8520 RepID=UPI001C4CA62A)

HSP 1 Score: 80.9 bits (198), Expect = 1.730e-18
Identity = 35/51 (68.63%), Postives = 43/51 (84.31%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGELRRK 153
            +LDL KY+D+ +RVK QGGRE  GVLKGFDPL+N+VLDG IEY+RG  RR+
Sbjct:   18 ILDLSKYIDKTIRVKFQGGREASGVLKGFDPLLNLVLDGTIEYMRGGFRRR 68
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A7J7KTA2_BUGNE (LSM7 n=1 Tax=Bugula neritina TaxID=10212 RepID=A0A7J7KTA2_BUGNE)

HSP 1 Score: 80.9 bits (198), Expect = 2.380e-18
Identity = 34/45 (75.56%), Postives = 40/45 (88.89%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIR 135
            +LDL KY+D+ +RVK  GGREV GVLKGFDPLVN+VLDGCIEY+R
Sbjct:   21 ILDLSKYIDRAIRVKFTGGREVSGVLKGFDPLVNLVLDGCIEYVR 65
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A836C8L6_9STRA (Sm-like protein LSm7 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836C8L6_9STRA)

HSP 1 Score: 79.7 bits (195), Expect = 4.940e-18
Identity = 36/45 (80.00%), Postives = 40/45 (88.89%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIR 135
            VLDL KYLDQGVRVK QGGREV GVLKG+D LVN+VLD C+E+IR
Sbjct:    9 VLDLTKYLDQGVRVKFQGGREVSGVLKGYDQLVNLVLDDCVEFIR 53
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A8C0FRF5_BUBBB (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated n=1 Tax=Bubo bubo TaxID=30461 RepID=A0A8C0FRF5_BUBBB)

HSP 1 Score: 79.0 bits (193), Expect = 4.990e-18
Identity = 34/48 (70.83%), Postives = 41/48 (85.42%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGEL 144
            +LDL KY+D+ +RVK QGGRE  GVLKGFDPL+N+VLDG IEY+RG L
Sbjct:    3 ILDLSKYIDKTIRVKFQGGREASGVLKGFDPLLNLVLDGTIEYMRGNL 50
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A8I6A0C6_RAT (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated n=1 Tax=Rattus norvegicus TaxID=10116 RepID=A0A8I6A0C6_RAT)

HSP 1 Score: 80.5 bits (197), Expect = 5.370e-18
Identity = 34/48 (70.83%), Postives = 42/48 (87.50%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGEL 144
            +LDL KY+D+ +RVK QGGRE  G+LKGFDPL+N+VLDG IEY+RGEL
Sbjct:   50 ILDLSKYIDKTIRVKFQGGREASGILKGFDPLLNLVLDGTIEYMRGEL 97
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A7S2CML5_9STRA (Hypothetical protein n=1 Tax=Florenciella parvula TaxID=236787 RepID=A0A7S2CML5_9STRA)

HSP 1 Score: 79.3 bits (194), Expect = 1.250e-17
Identity = 33/45 (73.33%), Postives = 41/45 (91.11%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIR 135
            +LDL KY+DQGVRVK QGGREV+G+LKG+D LVN+VLD C+EY+R
Sbjct:   31 ILDLNKYVDQGVRVKFQGGREVQGILKGYDQLVNLVLDECVEYLR 75
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BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A8C9LU97_9PRIM (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated n=1 Tax=Piliocolobus tephrosceles TaxID=591936 RepID=A0A8C9LU97_9PRIM)

HSP 1 Score: 78.6 bits (192), Expect = 1.450e-17
Identity = 33/47 (70.21%), Postives = 41/47 (87.23%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGE 141
            +LDL KY+D+ +RVK QGGRE  G+LKGFDPL+N+VLDG IEY+RGE
Sbjct:   12 ILDLSKYIDKTIRVKFQGGREASGILKGFDPLLNLVLDGTIEYMRGE 58
[Close]
BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Match: A0A2P4SFN4_BAMTH (Sm domain-containing protein n=3 Tax=Neognathae TaxID=8825 RepID=A0A2P4SFN4_BAMTH)

HSP 1 Score: 77.4 bits (189), Expect = 1.930e-17
Identity = 33/47 (70.21%), Postives = 41/47 (87.23%), Query Frame = 1 
Query:    1 VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGE 141
            +LDL KY+D+ +RVK QGGRE  GVLKGFDPL+N+VLDG IEY+RG+
Sbjct:   25 ILDLSKYIDKTIRVKFQGGREASGVLKGFDPLLNLVLDGTIEYMRGK 71
The following BLAST results are available for this feature:
BLAST of mRNA_S-dermatodea_contig8243.16442.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D8LPU6_ECTSI8.430e-2293.33Sm-like protein LSm7 n=2 Tax=Ectocarpus TaxID=2879... [more]
A0A8C8UNV2_PERMB5.730e-1966.67LSM7 homolog, U6 small nuclear RNA and mRNA degrad... [more]
UPI001C4CA62A1.730e-1868.63U6 snRNA-associated Sm-like protein LSm7 isoform X... [more]
A0A7J7KTA2_BUGNE2.380e-1875.56LSM7 n=1 Tax=Bugula neritina TaxID=10212 RepID=A0A... [more]
A0A836C8L6_9STRA4.940e-1880.00Sm-like protein LSm7 n=1 Tax=Tribonema minus TaxID... [more]
A0A8C0FRF5_BUBBB4.990e-1870.83LSM7 homolog, U6 small nuclear RNA and mRNA degrad... [more]
A0A8I6A0C6_RAT5.370e-1870.83LSM7 homolog, U6 small nuclear RNA and mRNA degrad... [more]
A0A7S2CML5_9STRA1.250e-1773.33Hypothetical protein n=1 Tax=Florenciella parvula ... [more]
A0A8C9LU97_9PRIM1.450e-1770.21LSM7 homolog, U6 small nuclear RNA and mRNA degrad... [more]
A0A2P4SFN4_BAMTH1.930e-1770.21Sm domain-containing protein n=3 Tax=Neognathae Ta... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
S-dermatodea_contig8243contigS-dermatodea_contig8243:6780..6965 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
OGS1.0 of Saccorhiza dermatodea SderLu1190fm monoicous2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score88.2
Seed ortholog evalue1.5e-15
Seed eggNOG ortholog2880.D8LPU6
Preferred nameLSM7
KEGG koko:K12626,ko:K16353
KEGG Pathwayko03018,ko03040,map03018,map03040
KEGG ModuleM00354,M00396,M00397
GOsGO:0000288,GO:0000291,GO:0000375,GO:0000377,GO:0000398,GO:0000956,GO:0003674,GO:0003676,GO:0003723,GO:0003727,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005681,GO:0005684,GO:0005688,GO:0005689,GO:0005730,GO:0005732,GO:0005737,GO:0005829,GO:0006139,GO:0006364,GO:0006396,GO:0006397,GO:0006401,GO:0006402,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008187,GO:0008266,GO:0008380,GO:0009056,GO:0009057,GO:0009892,GO:0009987,GO:0010467,GO:0010468,GO:0010605,GO:0010629,GO:0016070,GO:0016071,GO:0016072,GO:0017069,GO:0017070,GO:0019222,GO:0019439,GO:0022613,GO:0030490,GO:0030532,GO:0031974,GO:0031981,GO:0032991,GO:0034470,GO:0034641,GO:0034655,GO:0034660,GO:0042254,GO:0042274,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043928,GO:0044085,GO:0044237,GO:0044238,GO:0044248,GO:0044260,GO:0044265,GO:0044270,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045292,GO:0046483,GO:0046540,GO:0046700,GO:0046982,GO:0046983,GO:0048519,GO:0050789,GO:0060255,GO:0065007,GO:0070013,GO:0071004,GO:0071010,GO:0071013,GO:0071704,GO:0071840,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0120114,GO:0120115,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1902494,GO:1990726,GO:1990904
EggNOG free text desc.nuclear-transcribed mRNA catabolic process
EggNOG OGsKOG1781@1,KOG1781@2759
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03019,ko03041,ko04516
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionSm-like protein LSm7
Ec32 orthologEc-18_002540.1
Exons1
Model size186
Cds size186
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622925331.1911705-CDS-S-dermatodea_contig8243:6779..69651622925331.1911705-CDS-S-dermatodea_contig8243:6779..6965Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig8243 6780..6965 +
1694079860.5236235-CDS-S-dermatodea_contig8243:6779..69651694079860.5236235-CDS-S-dermatodea_contig8243:6779..6965Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig8243 6780..6965 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_S-dermatodea_contig8243.16442.1prot_S-dermatodea_contig8243.16442.1Saccorhiza dermatodea SderLu1190fm monoicouspolypeptideS-dermatodea_contig8243 6780..6965 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_S-dermatodea_contig8243.16442.1

>prot_S-dermatodea_contig8243.16442.1 ID=prot_S-dermatodea_contig8243.16442.1|Name=mRNA_S-dermatodea_contig8243.16442.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=polypeptide|length=62bp
VLDLQKYLDQGVRVKLQGGREVRGVLKGFDPLVNVVLDGCIEYIRGELRR
KNRHGRKGRGSG
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mRNA from alignment at S-dermatodea_contig8243:6780..6965+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_S-dermatodea_contig8243.16442.1 ID=mRNA_S-dermatodea_contig8243.16442.1|Name=mRNA_S-dermatodea_contig8243.16442.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=mRNA|length=186bp|location=Sequence derived from alignment at S-dermatodea_contig8243:6780..6965+ (Saccorhiza dermatodea SderLu1190fm monoicous)
GTCCTCGACCTGCAGAAGTATTTGGACCAAGGGGTCAGGGTGAAGCTTCA
GGGGGGCAGGGAGGTGCGCGGGGTGCTGAAAGGGTTCGACCCGCTAGTGA
ACGTCGTCCTGGACGGATGCATCGAGTACATCAGAGGTGAGCTGCGCCGA
AAAAACAGGCATGGAAGAAAAGGGCGGGGAAGTGGT
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Coding sequence (CDS) from alignment at S-dermatodea_contig8243:6780..6965+

>mRNA_S-dermatodea_contig8243.16442.1 ID=mRNA_S-dermatodea_contig8243.16442.1|Name=mRNA_S-dermatodea_contig8243.16442.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=CDS|length=372bp|location=Sequence derived from alignment at S-dermatodea_contig8243:6780..6965+ (Saccorhiza dermatodea SderLu1190fm monoicous)
GTCCTCGACCTGCAGAAGTATTTGGACCAAGGGGTCAGGGTGAAGCTTCA
GGGGGGCAGGGAGGTGCGCGGGGTGCTGAAAGGGTTCGACCCGCTAGTGA
ACGTCGTCCTGGACGGATGCATCGAGTACATCAGAGGTGAGCTGCGCCGA
AAAAACAGGCATGGAAGAAAAGGGCGGGGAAGTGGTGTCCTCGACCTGCA
GAAGTATTTGGACCAAGGGGTCAGGGTGAAGCTTCAGGGGGGCAGGGAGG
TGCGCGGGGTGCTGAAAGGGTTCGACCCGCTAGTGAACGTCGTCCTGGAC
GGATGCATCGAGTACATCAGAGGTGAGCTGCGCCGAAAAAACAGGCATGG
AAGAAAAGGGCGGGGAAGTGGT
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