mRNA_H-elongata_contig52602.12565.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig52602.12565.1
Unique NamemRNA_H-elongata_contig52602.12565.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: A0A6H5L429_9PHAE (Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5L429_9PHAE)

HSP 1 Score: 140 bits (354), Expect = 8.550e-42
Identity = 64/71 (90.14%), Postives = 71/71 (100.00%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +DC+KT++RGKTS+LQQLYIRGNQIVFCIVP+MLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAI+RK
Sbjct:   40 KDCVKTNIRGKTSTLQQLYIRGNQIVFCIVPNMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIIRK 110
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: D7FT20_ECTSI (Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FT20_ECTSI)

HSP 1 Score: 135 bits (341), Expect = 4.630e-39
Identity = 63/71 (88.73%), Postives = 70/71 (98.59%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +DC+KT++RGKTS+LQQLYIRGNQIVFCIVP+MLRNAPMFARIKQ RKYKGHPPVLASEGAKGQRAAI+RK
Sbjct:   40 KDCVKTNIRGKTSTLQQLYIRGNQIVFCIVPNMLRNAPMFARIKQGRKYKGHPPVLASEGAKGQRAAIIRK 110
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: A0A835YVP5_9STRA (Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A835YVP5_9STRA)

HSP 1 Score: 102 bits (254), Expect = 1.850e-26
Identity = 48/71 (67.61%), Postives = 57/71 (80.28%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +D +KTD+RGKTS+L ++YIRG+QIV  IVPDMLR A MF RI  WRKYKG+PP LAS    GQRAAI+RK
Sbjct:   50 KDILKTDVRGKTSTLSKMYIRGSQIVLVIVPDMLRRAAMFKRIVMWRKYKGNPPSLASSANTGQRAAILRK 120
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: A0A6U1QDM6_9STRA (Small nuclear ribonucleoprotein Sm D3 (Fragment) n=1 Tax=Fibrocapsa japonica TaxID=94617 RepID=A0A6U1QDM6_9STRA)

HSP 1 Score: 86.3 bits (212), Expect = 5.130e-20
Identity = 40/70 (57.14%), Postives = 49/70 (70.00%), Query Frame = 1 
Query:    4 DCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            D  KT   GK S + QLY+RG+QI F +VPD L+  PMF RI+ WRKYKG+PP L S   +GQ AAI+RK
Sbjct:   51 DVTKTTPMGKISKVDQLYVRGSQISFVVVPDTLQKGPMFKRIQMWRKYKGNPPSLGSVVPRGQAAAIIRK 120
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: F0W7K3_9STRA (Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Albugo laibachii Nc14 TaxID=890382 RepID=F0W7K3_9STRA)

HSP 1 Score: 79.3 bits (194), Expect = 2.640e-17
Identity = 35/78 (44.87%), Postives = 55/78 (70.51%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLAS-----EGAKGQRAAIMRKGK 219
            ++ ++TD+ G T+ ++ +Y+RG+QI+F + PDML++APMF R+K W+K+KG  P L        G +GQ AAI+RK K
Sbjct:   50 KEAMRTDINGNTTHVELVYVRGSQILFIVFPDMLKHAPMFKRVKLWKKHKGVIPSLGQGGPGGAGPRGQAAAIIRKAK 127
[Close]
BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: I2CSB6_NANGC (Small nuclear ribonucleoprotein Sm D3 (Fragment) n=1 Tax=Nannochloropsis gaditana (strain CCMP526) TaxID=1093141 RepID=I2CSB6_NANGC)

HSP 1 Score: 77.4 bits (189), Expect = 1.510e-16
Identity = 35/71 (49.30%), Postives = 51/71 (71.83%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +D  KT++ GK S ++ +YI+G+Q+ F I+PDML+ APMF RIK W+KY G+ P L + G +GQ A I +K
Sbjct:   50 RDVTKTNVHGKESKVELIYIKGSQVNFMILPDMLKKAPMFKRIKVWKKYHGNVPELGA-GVRGQAAVISQK 119
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BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: A0A7S2CKP8_9STRA (Small nuclear ribonucleoprotein Sm D3 n=2 Tax=Florenciella parvula TaxID=236787 RepID=A0A7S2CKP8_9STRA)

HSP 1 Score: 75.9 bits (185), Expect = 3.770e-16
Identity = 35/68 (51.47%), Postives = 49/68 (72.06%), Query Frame = 1 
Query:   10 IKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +   + G  ++L  ++IRG+QIVF I P+ML+ APMF RIK W+K+KGHPP    + A+GQ AAI+RK
Sbjct:   37 VTNAVSGAVTNLDYVFIRGSQIVFIIFPNMLKLAPMFRRIKIWKKHKGHPPA-GGDAARGQAAAIIRK 103
[Close]
BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: D0NPB0_PHYIT (Small nuclear ribonucleoprotein Sm D3 n=2 Tax=Peronosporaceae TaxID=4777 RepID=D0NPB0_PHYIT)

HSP 1 Score: 76.6 bits (187), Expect = 3.840e-16
Identity = 36/86 (41.86%), Postives = 55/86 (63.95%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDM----------LRNAPMFARIKQWRKYKGHPPVLASEGA-----KGQRAAIMRK 213
            +D ++TD+ G TS ++Q+Y+RG+QI+F + PD+          L++APMF R+K W+K+KG  P L   G      +GQ AAI+RK
Sbjct:   50 KDAVRTDINGNTSQVEQVYLRGSQILFIVFPDIYPLQPDIAVTLKHAPMFKRVKMWKKHKGSIPTLGQGGVGGGAPRGQAAAIIRK 135
[Close]
BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: A0A7S3K1R1_9STRA (Small nuclear ribonucleoprotein Sm D3 (Fragment) n=1 Tax=Aureoumbra lagunensis TaxID=44058 RepID=A0A7S3K1R1_9STRA)

HSP 1 Score: 74.7 bits (182), Expect = 1.890e-15
Identity = 33/71 (46.48%), Postives = 50/71 (70.42%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYKGHPPVLASEGAKGQRAAIMRK 213
            +D  KT   GK S ++ ++IRG+QI+F + P ML+ APMF R++ WRK++G+  +   E A+GQ AAI+RK
Sbjct:   67 KDVTKTSAEGKKSQIEHIFIRGSQILFFVFPTMLKKAPMFKRVRTWRKHRGN--ISKGEEARGQAAAIIRK 135
[Close]
BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Match: G4ZR13_PHYSP (Small nuclear ribonucleoprotein Sm D3 n=11 Tax=Phytophthora TaxID=4783 RepID=G4ZR13_PHYSP)

HSP 1 Score: 73.6 bits (179), Expect = 6.610e-15
Identity = 35/89 (39.33%), Postives = 55/89 (61.80%), Query Frame = 1 
Query:    1 QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDM-------------LRNAPMFARIKQWRKYKGHPPVLASEGA-----KGQRAAIMRK 213
            +D ++TD+ G T+ ++Q+Y+RG+QI+F + PD+             L++APMF R+K W+K+KG  P L   G      +GQ AAI+RK
Sbjct:   50 KDAVRTDINGNTTHVEQVYLRGSQILFIVFPDIYPLQPHTCGCIFTLKHAPMFKRVKMWKKHKGAIPTLGQGGVGGGAPRGQAAAIIRK 138
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig52602.12565.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A6H5L429_9PHAE8.550e-4290.14Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Ecto... [more]
D7FT20_ECTSI4.630e-3988.73Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Ecto... [more]
A0A835YVP5_9STRA1.850e-2667.61Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Trib... [more]
A0A6U1QDM6_9STRA5.130e-2057.14Small nuclear ribonucleoprotein Sm D3 (Fragment) n... [more]
F0W7K3_9STRA2.640e-1744.87Small nuclear ribonucleoprotein Sm D3 n=1 Tax=Albu... [more]
I2CSB6_NANGC1.510e-1649.30Small nuclear ribonucleoprotein Sm D3 (Fragment) n... [more]
A0A7S2CKP8_9STRA3.770e-1651.47Small nuclear ribonucleoprotein Sm D3 n=2 Tax=Flor... [more]
D0NPB0_PHYIT3.840e-1641.86Small nuclear ribonucleoprotein Sm D3 n=2 Tax=Pero... [more]
A0A7S3K1R1_9STRA1.890e-1546.48Small nuclear ribonucleoprotein Sm D3 (Fragment) n... [more]
G4ZR13_PHYSP6.610e-1539.33Small nuclear ribonucleoprotein Sm D3 n=11 Tax=Phy... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig52602contigH-elongata_contig52602:1725..1943 +
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 Himanthalia elongata Himel1 dioecious2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score136.3
Seed ortholog evalue5.5e-30
Seed eggNOG ortholog2880.D7FT20
Preferred nameSMD3
KEGG koko:K07442,ko:K11088,ko:K18738
KEGG Pathwayko03040,ko04139,ko05322,map03040,map04139,map05322
KEGG ModuleM00351,M00352,M00354,M00355,M00398
GOsGO:0000243,GO:0000245,GO:0000375,GO:0000377,GO:0000387,GO:0000395,GO:0000398,GO:0003674,GO:0003676,GO:0003723,GO:0003729,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005681,GO:0005682,GO:0005683,GO:0005684,GO:0005685,GO:0005686,GO:0005687,GO:0005689,GO:0005697,GO:0005737,GO:0005829,GO:0006139,GO:0006325,GO:0006342,GO:0006351,GO:0006353,GO:0006355,GO:0006366,GO:0006369,GO:0006376,GO:0006396,GO:0006397,GO:0006464,GO:0006479,GO:0006725,GO:0006807,GO:0006810,GO:0006913,GO:0006996,GO:0008150,GO:0008152,GO:0008213,GO:0008334,GO:0008380,GO:0009058,GO:0009059,GO:0009889,GO:0009890,GO:0009892,GO:0009987,GO:0010467,GO:0010468,GO:0010556,GO:0010558,GO:0010605,GO:0010629,GO:0016043,GO:0016070,GO:0016071,GO:0016458,GO:0016604,GO:0017069,GO:0018130,GO:0019219,GO:0019222,GO:0019438,GO:0019538,GO:0019899,GO:0022607,GO:0022613,GO:0022618,GO:0030532,GO:0030620,GO:0030702,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0031974,GO:0031981,GO:0032259,GO:0032774,GO:0032991,GO:0034622,GO:0034641,GO:0034645,GO:0034654,GO:0034708,GO:0034709,GO:0034715,GO:0034719,GO:0036211,GO:0040029,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043412,GO:0043414,GO:0043933,GO:0044085,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044451,GO:0044464,GO:0045292,GO:0045814,GO:0045892,GO:0045934,GO:0046483,GO:0046540,GO:0046907,GO:0048519,GO:0048523,GO:0050789,GO:0050794,GO:0051169,GO:0051170,GO:0051171,GO:0051172,GO:0051179,GO:0051234,GO:0051252,GO:0051253,GO:0051276,GO:0051641,GO:0051649,GO:0060255,GO:0065003,GO:0065007,GO:0070013,GO:0070034,GO:0071004,GO:0071007,GO:0071010,GO:0071011,GO:0071013,GO:0071014,GO:0071208,GO:0071209,GO:0071704,GO:0071826,GO:0071840,GO:0080090,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0097659,GO:0120114,GO:1901360,GO:1901362,GO:1901363,GO:1901564,GO:1901576,GO:1902494,GO:1902679,GO:1903506,GO:1903507,GO:1990141,GO:1990234,GO:1990904,GO:2000112,GO:2000113,GO:2001141
EggNOG free text desc.U7 snRNA binding
EggNOG OGsCOG1958@1,KOG3172@2759
EC2.1.1.219,2.1.1.220
COG Functional cat.K
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko01000,ko03016,ko03019,ko03032,ko03041
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionSmall nuclear ribonucleoprotein-associated protein D3
Ec32 orthologEc-04_002450.1
Exons1
Model size219
Cds size219
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622930859.1929512-CDS-H-elongata_contig52602:1724..19431622930859.1929512-CDS-H-elongata_contig52602:1724..1943Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig52602 1725..1943 +
1691679600.8252234-CDS-H-elongata_contig52602:1724..19431691679600.8252234-CDS-H-elongata_contig52602:1724..1943Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig52602 1725..1943 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig52602.12565.1prot_H-elongata_contig52602.12565.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig52602 1725..1943 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig52602.12565.1

>prot_H-elongata_contig52602.12565.1 ID=prot_H-elongata_contig52602.12565.1|Name=mRNA_H-elongata_contig52602.12565.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=73bp
QDCIKTDLRGKTSSLQQLYIRGNQIVFCIVPDMLRNAPMFARIKQWRKYK
GHPPVLASEGAKGQRAAIMRKGK
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mRNA from alignment at H-elongata_contig52602:1725..1943+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig52602.12565.1 ID=mRNA_H-elongata_contig52602.12565.1|Name=mRNA_H-elongata_contig52602.12565.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=219bp|location=Sequence derived from alignment at H-elongata_contig52602:1725..1943+ (Himanthalia elongata Himel1 dioecious)
CAGGATTGCATCAAGACCGATCTGAGGGGCAAAACGAGCTCGTTACAGCA
GCTCTACATCCGCGGGAACCAGATCGTTTTTTGCATCGTGCCGGACATGC
TTCGGAACGCCCCGATGTTCGCGAGGATCAAGCAGTGGAGAAAGTACAAG
GGCCACCCGCCTGTGCTGGCCTCTGAAGGTGCCAAGGGTCAGCGAGCGGC
AATCATGCGCAAAGGTAAG
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Coding sequence (CDS) from alignment at H-elongata_contig52602:1725..1943+

>mRNA_H-elongata_contig52602.12565.1 ID=mRNA_H-elongata_contig52602.12565.1|Name=mRNA_H-elongata_contig52602.12565.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=438bp|location=Sequence derived from alignment at H-elongata_contig52602:1725..1943+ (Himanthalia elongata Himel1 dioecious)
CAGGATTGCATCAAGACCGATCTGAGGGGCAAAACGAGCTCGTTACAGCA
GCTCTACATCCGCGGGAACCAGATCGTTTTTTGCATCGTGCCGGACATGC
TTCGGAACGCCCCGATGTTCGCGAGGATCAAGCAGTGGAGAAAGTACAAG
GGCCACCCGCCTGTGCTGGCCTCTGAAGGTGCCAAGGGTCAGCGAGCGGC
AATCATGCGCAAAGGTAAGCAGGATTGCATCAAGACCGATCTGAGGGGCA
AAACGAGCTCGTTACAGCAGCTCTACATCCGCGGGAACCAGATCGTTTTT
TGCATCGTGCCGGACATGCTTCGGAACGCCCCGATGTTCGCGAGGATCAA
GCAGTGGAGAAAGTACAAGGGCCACCCGCCTGTGCTGGCCTCTGAAGGTG
CCAAGGGTCAGCGAGCGGCAATCATGCGCAAAGGTAAG
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