mRNA_Ecto-sp9_F_contig1008.116.1 (mRNA) Ectocarpus species9 EcSCA_722f female

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

Overview
NamemRNA_Ecto-sp9_F_contig1008.116.1
Unique NamemRNA_Ecto-sp9_F_contig1008.116.1
TypemRNA
OrganismEctocarpus species9 EcSCA_722f female (Ectocarpus species9 EcSCA_722f female)
Homology
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: Putative (hUPF2 n=2 Tax=Ectocarpus TaxID=2879 RepID=D8LEF3_ECTSI)

HSP 1 Score: 92.4 bits (228), Expect = 1.080e-20
Identity = 42/42 (100.00%), Postives = 42/42 (100.00%), Query Frame = 1 
Query:   16 DPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            DPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY
Sbjct: 1250 DPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 1291
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: regulator (of nonsense transcripts UPF2-like isoform X1 n=7 Tax=Durio zibethinus TaxID=66656 RepID=A0A6P6AKE6_DURZI)

HSP 1 Score: 63.2 bits (152), Expect = 2.140e-10
Identity = 25/47 (53.19%), Postives = 34/47 (72.34%), Query Frame = 1 
Query:    1 FCFVVDPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            +C+ +DPP DC RIR+V+ +L+ CG YF RG+   KL +FL  FQRY
Sbjct:  816 YCYALDPPEDCFRIRMVITLLQTCGHYFDRGSSKRKLDRFLIHFQRY 862
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: Armadillo-type (protein n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A835YRH9_9STRA)

HSP 1 Score: 62.0 bits (149), Expect = 5.460e-10
Identity = 28/42 (66.67%), Postives = 30/42 (71.43%), Query Frame = 1 
Query:   16 DPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            DPPGDCLRIRLVV +LE C  YFV G    +L KFL  FQRY
Sbjct:  817 DPPGDCLRIRLVVQLLEACAEYFVVGQSRPRLDKFLMHFQRY 858
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: Hypothetical (protein (Fragment) n=1 Tax=Dunaliella tertiolecta TaxID=3047 RepID=A0A7S3VH95_DUNTE)

HSP 1 Score: 53.5 bits (127), Expect = 5.330e-7
Identity = 23/42 (54.76%), Postives = 28/42 (66.67%), Query Frame = 1 
Query:   16 DPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            DPP D  RIRL++A+LEGCG YF  G    +L +FL  FQ Y
Sbjct:  374 DPPNDYFRIRLILALLEGCGQYFGSGPAGARLDRFLTFFQAY 415
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: Armadillo-type (protein n=1 Tax=Scenedesmus sp. NREL 46B-D3 TaxID=2650976 RepID=A0A7J7Q907_9CHLO)

HSP 1 Score: 52.4 bits (124), Expect = 1.370e-6
Identity = 23/43 (53.49%), Postives = 29/43 (67.44%), Query Frame = 1 
Query:   13 VDPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            +DPP D  RIRLV+A+L  CGSYF +GA   +L +FL   Q Y
Sbjct:  880 LDPPDDFFRIRLVIALLSTCGSYFSKGAAGRRLDRFLTFMQAY 922
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: Uncharacterized (protein n=2 Tax=Tetradesmus obliquus TaxID=3088 RepID=A0A383VWZ6_TETOB)

HSP 1 Score: 52.4 bits (124), Expect = 1.370e-6
Identity = 23/43 (53.49%), Postives = 29/43 (67.44%), Query Frame = 1 
Query:   13 VDPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            +DPP D  RIRLV+A+L  CGSYF +GA   +L +FL   Q Y
Sbjct:  865 LDPPDDFFRIRLVIALLSTCGSYFSKGAAGRRLDRFLTFMQAY 907
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BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Match: MIF4G (domain-containing protein n=1 Tax=Haematococcus lacustris TaxID=44745 RepID=A0A699Z3E2_HAELA)

HSP 1 Score: 48.1 bits (113), Expect = 4.290e-5
Identity = 20/43 (46.51%), Postives = 28/43 (65.12%), Query Frame = 1 
Query:   13 VDPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY 141
            +DP  D  RIRLV+ +L+ CG+YF +G    +L +FL  FQ Y
Sbjct:   51 LDPADDYFRIRLVIGLLDTCGTYFGQGVAGSRLDRFLTFFQAY 93
The following BLAST results are available for this feature:
BLAST of mRNA_Ecto-sp9_F_contig1008.116.1 vs.
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 of Ectocarpus species9 EcSCA_722f female vs UniRef90)
Total hits: 7
Match NameE-valueIdentityDescription
Putative1.080e-20100.00hUPF2 n=2 Tax=Ectocarpus TaxID=2879 RepID=D8LEF3_E... [more]
regulator2.140e-1053.19of nonsense transcripts UPF2-like isoform X1 n=7 T... [more]
Armadillo-type5.460e-1066.67protein n=1 Tax=Tribonema minus TaxID=303371 RepID... [more]
Hypothetical5.330e-754.76protein (Fragment) n=1 Tax=Dunaliella tertiolecta ... [more]
Armadillo-type1.370e-653.49protein n=1 Tax=Scenedesmus sp. NREL 46B-D3 TaxID=... [more]
Uncharacterized1.370e-653.49protein n=2 Tax=Tetradesmus obliquus TaxID=3088 Re... [more]
MIF4G4.290e-546.51domain-containing protein n=1 Tax=Haematococcus la... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
Ecto-sp9_F_contig1008contigEcto-sp9_F_contig1008:538..678 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 of Ectocarpus species9 EcSCA_722f female vs UniRef902022-09-19
OGS1.0 of Ectocarpus species9 EcSCA_722f female2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score93.6
Seed ortholog evalue2.7e-17
Seed eggNOG ortholog2880.D8LEF3
Preferred nameUPF2
KEGG koko:K14327
KEGG Pathwayko03013,ko03015,map03013,map03015
KEGG ModuleM00430
GOsGO:0000184,GO:0000288,GO:0000291,GO:0000956,GO:0001101,GO:0003674,GO:0003676,GO:0003677,GO:0003723,GO:0003729,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005730,GO:0005737,GO:0005829,GO:0005844,GO:0006139,GO:0006259,GO:0006310,GO:0006401,GO:0006402,GO:0006403,GO:0006405,GO:0006406,GO:0006611,GO:0006725,GO:0006807,GO:0006810,GO:0006886,GO:0006913,GO:0006950,GO:0006952,GO:0007154,GO:0007165,GO:0007267,GO:0007268,GO:0007274,GO:0008104,GO:0008150,GO:0008152,GO:0009056,GO:0009057,GO:0009314,GO:0009416,GO:0009605,GO:0009607,GO:0009611,GO:0009617,GO:0009628,GO:0009648,GO:0009719,GO:0009725,GO:0009751,GO:0009753,GO:0009755,GO:0009863,GO:0009867,GO:0009892,GO:0009987,GO:0010033,GO:0010467,GO:0010468,GO:0010605,GO:0010629,GO:0014070,GO:0015031,GO:0015833,GO:0015931,GO:0016043,GO:0016070,GO:0016071,GO:0019222,GO:0019439,GO:0019899,GO:0023052,GO:0031503,GO:0031974,GO:0031981,GO:0032870,GO:0032991,GO:0033036,GO:0034427,GO:0034613,GO:0034641,GO:0034655,GO:0035145,GO:0035690,GO:0035770,GO:0036464,GO:0042162,GO:0042221,GO:0042493,GO:0042742,GO:0042886,GO:0043170,GO:0043207,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043565,GO:0043928,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:0045184,GO:0046483,GO:0046677,GO:0046700,GO:0046907,GO:0048519,GO:0048571,GO:0050657,GO:0050658,GO:0050789,GO:0050794,GO:0050808,GO:0050896,GO:0051028,GO:0051168,GO:0051169,GO:0051179,GO:0051234,GO:0051236,GO:0051641,GO:0051649,GO:0051704,GO:0051707,GO:0051716,GO:0060255,GO:0065007,GO:0070013,GO:0070478,GO:0070727,GO:0070887,GO:0071166,GO:0071229,GO:0071236,GO:0071310,GO:0071395,GO:0071407,GO:0071426,GO:0071427,GO:0071446,GO:0071495,GO:0071702,GO:0071704,GO:0071705,GO:0071840,GO:0090304,GO:0097159,GO:0098542,GO:0098916,GO:0099536,GO:0099537,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1901700,GO:1901701,GO:1990904
EggNOG free text desc.nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
EggNOG OGsKOG2051@1,KOG2051@2759
Ec32 ortholog descriptionMIF4-like, type 1/2/3
Ec32 orthologEc-00_002070.2
COG Functional cat.S
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03019
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size141
Cds size141
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622928199.557855-CDS-Ecto-sp9_F_contig1008:537..6781622928199.557855-CDS-Ecto-sp9_F_contig1008:537..678Ectocarpus species9 EcSCA_722f femaleCDSEcto-sp9_F_contig1008 538..678 +
1692277792.5299916-CDS-Ecto-sp9_F_contig1008:537..6781692277792.5299916-CDS-Ecto-sp9_F_contig1008:537..678Ectocarpus species9 EcSCA_722f femaleCDSEcto-sp9_F_contig1008 538..678 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_Ecto-sp9_F_contig1008.116.1prot_Ecto-sp9_F_contig1008.116.1Ectocarpus species9 EcSCA_722f femalepolypeptideEcto-sp9_F_contig1008 538..678 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_Ecto-sp9_F_contig1008.116.1

>prot_Ecto-sp9_F_contig1008.116.1 ID=prot_Ecto-sp9_F_contig1008.116.1|Name=mRNA_Ecto-sp9_F_contig1008.116.1|organism=Ectocarpus species9 EcSCA_722f female|type=polypeptide|length=47bp
FCFVVDPPGDCLRIRLVVAVLEGCGSYFVRGAGLDKLSKFLGVFQRY
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mRNA from alignment at Ecto-sp9_F_contig1008:538..678+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_Ecto-sp9_F_contig1008.116.1 ID=mRNA_Ecto-sp9_F_contig1008.116.1|Name=mRNA_Ecto-sp9_F_contig1008.116.1|organism=Ectocarpus species9 EcSCA_722f female|type=mRNA|length=141bp|location=Sequence derived from alignment at Ecto-sp9_F_contig1008:538..678+ (Ectocarpus species9 EcSCA_722f female)
TTCTGTTTCGTCGTAGACCCCCCAGGAGATTGCCTCCGCATTCGGCTGGT
GGTAGCGGTGTTGGAGGGGTGCGGGAGCTACTTCGTGCGCGGCGCGGGGC
TGGACAAGCTGTCCAAGTTCTTGGGAGTGTTCCAGAGGTAC
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Coding sequence (CDS) from alignment at Ecto-sp9_F_contig1008:538..678+

>mRNA_Ecto-sp9_F_contig1008.116.1 ID=mRNA_Ecto-sp9_F_contig1008.116.1|Name=mRNA_Ecto-sp9_F_contig1008.116.1|organism=Ectocarpus species9 EcSCA_722f female|type=CDS|length=282bp|location=Sequence derived from alignment at Ecto-sp9_F_contig1008:538..678+ (Ectocarpus species9 EcSCA_722f female)
TTCTGTTTCGTCGTAGACCCCCCAGGAGATTGCCTCCGCATTCGGCTGGT
GGTAGCGGTGTTGGAGGGGTGCGGGAGCTACTTCGTGCGCGGCGCGGGGC
TGGACAAGCTGTCCAAGTTCTTGGGAGTGTTCCAGAGGTACTTCTGTTTC
GTCGTAGACCCCCCAGGAGATTGCCTCCGCATTCGGCTGGTGGTAGCGGT
GTTGGAGGGGTGCGGGAGCTACTTCGTGCGCGGCGCGGGGCTGGACAAGC
TGTCCAAGTTCTTGGGAGTGTTCCAGAGGTAC
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