mRNA_H-elongata_contig73532.15044.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig73532.15044.1
Unique NamemRNA_H-elongata_contig73532.15044.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: D8LC63_ECTSI (U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D8LC63_ECTSI)

HSP 1 Score: 80.5 bits (197), Expect = 1.040e-18
Identity = 37/40 (92.50%), Postives = 38/40 (95.00%), Query Frame = 1 
Query:   13 GAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            GAIKNCFIRGSVVRYIQIPS+DVDTELLQDACRKE  QGK
Sbjct:   55 GAIKNCFIRGSVVRYIQIPSADVDTELLQDACRKESAQGK 94
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A835YRK1_9STRA (U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A835YRK1_9STRA)

HSP 1 Score: 70.5 bits (171), Expect = 9.930e-15
Identity = 31/39 (79.49%), Postives = 34/39 (87.18%), Query Frame = 1 
Query:   13 GAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQG 129
            GA+K CFIRGS VRYIQIP+S+VDTELLQDACRKE   G
Sbjct:   55 GALKGCFIRGSAVRYIQIPASEVDTELLQDACRKENASG 93
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A8C4RE61_ERPCA (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated n=1 Tax=Erpetoichthys calabaricus TaxID=27687 RepID=A0A8C4RE61_ERPCA)

HSP 1 Score: 68.6 bits (166), Expect = 3.350e-14
Identity = 30/44 (68.18%), Postives = 38/44 (86.36%), Query Frame = 1 
Query:    1 SIAQGAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            S+ Q ++KNCFIRGSVVRY+Q+P+ +VDT+LLQDA RKE VQ K
Sbjct:   31 SVDQLSVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEAVQQK 74
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A2I3T8S5_PANTR (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated n=15 Tax=Euarchontoglires TaxID=314146 RepID=A0A2I3T8S5_PANTR)

HSP 1 Score: 67.4 bits (163), Expect = 9.590e-14
Identity = 29/44 (65.91%), Postives = 38/44 (86.36%), Query Frame = 1 
Query:    1 SIAQGAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            S+ Q ++KNCFIRGSVVRY+Q+P+ +VDT+LLQDA RKE +Q K
Sbjct:   31 SVDQLSVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEALQQK 74
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A7SNR1_NEMVE (U6 snRNA-associated Sm-like protein LSm2 n=6 Tax=Hexacorallia TaxID=6102 RepID=A7SNR1_NEMVE)

HSP 1 Score: 66.6 bits (161), Expect = 3.210e-13
Identity = 28/39 (71.79%), Postives = 35/39 (89.74%), Query Frame = 1 
Query:   16 AIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            ++KNCFIRGSVVRY+Q+PS +VDT+LLQDA RKE +Q K
Sbjct:   56 SVKNCFIRGSVVRYVQLPSEEVDTQLLQDATRKEAMQNK 94
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A7L2NNT6_PYCJO (LSM2 protein (Fragment) n=1 Tax=Pycnonotus jocosus TaxID=182897 RepID=A0A7L2NNT6_PYCJO)

HSP 1 Score: 65.5 bits (158), Expect = 4.110e-13
Identity = 28/41 (68.29%), Postives = 36/41 (87.80%), Query Frame = 1 
Query:   10 QGAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            Q ++KNCFIRGSVVRY+Q+P+ +VDT+LLQDA RKE +Q K
Sbjct:   22 QLSVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEALQQK 62
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A8C7Y104_9TELE (Smx5 n=1 Tax=Oryzias sinensis TaxID=183150 RepID=A0A8C7Y104_9TELE)

HSP 1 Score: 65.5 bits (158), Expect = 4.210e-13
Identity = 28/41 (68.29%), Postives = 36/41 (87.80%), Query Frame = 1 
Query:   10 QGAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            Q ++KNCFIRGSVVRY+Q+P+ +VDT+LLQDA RKE +Q K
Sbjct:   23 QLSVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEAMQQK 63
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: A0A7S3PVL2_9STRA (U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=Chaetoceros debilis TaxID=122233 RepID=A0A7S3PVL2_9STRA)

HSP 1 Score: 66.6 bits (161), Expect = 4.310e-13
Identity = 31/39 (79.49%), Postives = 33/39 (84.62%), Query Frame = 1 
Query:   16 AIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            A+KNCFIRGSVVRYIQIPS +VDTELLQDA RKE    K
Sbjct:   67 ALKNCFIRGSVVRYIQIPSGEVDTELLQDAARKENAPQK 105
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: Q5BL46_XENTR (U6 snRNA-associated Sm-like protein LSm2 n=8 Tax=Euteleostomi TaxID=117571 RepID=Q5BL46_XENTR)

HSP 1 Score: 66.2 bits (160), Expect = 4.550e-13
Identity = 28/39 (71.79%), Postives = 35/39 (89.74%), Query Frame = 1 
Query:   16 AIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            ++KNCFIRGSVVRY+Q+P+ +VDT+LLQDA RKE VQ K
Sbjct:   56 SVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEAVQQK 94
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BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Match: UPI001884BD19 (LOW QUALITY PROTEIN: U6 snRNA-associated Sm-like protein LSm2 n=3 Tax=Thoracicalcarea TaxID=2899756 RepID=UPI001884BD19)

HSP 1 Score: 66.2 bits (160), Expect = 5.820e-13
Identity = 27/39 (69.23%), Postives = 35/39 (89.74%), Query Frame = 1 
Query:   16 AIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK 132
            ++KNCFIRGSVVRY+Q+P+ ++DT+LLQDA RKE  QGK
Sbjct:   66 SVKNCFIRGSVVRYVQLPADEIDTQLLQDATRKEAQQGK 104
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig73532.15044.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D8LC63_ECTSI1.040e-1892.50U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=E... [more]
A0A835YRK1_9STRA9.930e-1579.49U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=T... [more]
A0A8C4RE61_ERPCA3.350e-1468.18LSM2 homolog, U6 small nuclear RNA and mRNA degrad... [more]
A0A2I3T8S5_PANTR9.590e-1465.91LSM2 homolog, U6 small nuclear RNA and mRNA degrad... [more]
A7SNR1_NEMVE3.210e-1371.79U6 snRNA-associated Sm-like protein LSm2 n=6 Tax=H... [more]
A0A7L2NNT6_PYCJO4.110e-1368.29LSM2 protein (Fragment) n=1 Tax=Pycnonotus jocosus... [more]
A0A8C7Y104_9TELE4.210e-1368.29Smx5 n=1 Tax=Oryzias sinensis TaxID=183150 RepID=A... [more]
A0A7S3PVL2_9STRA4.310e-1379.49U6 snRNA-associated Sm-like protein LSm2 n=1 Tax=C... [more]
Q5BL46_XENTR4.550e-1371.79U6 snRNA-associated Sm-like protein LSm2 n=8 Tax=E... [more]
UPI001884BD195.820e-1369.23LOW QUALITY PROTEIN: U6 snRNA-associated Sm-like p... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig73532contigH-elongata_contig73532:1201..1335 +
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 score79.3
Seed ortholog evalue5e-13
Seed eggNOG ortholog2880.D8LC63
Preferred nameLSM2
KEGG koko:K10523,ko:K12621
KEGG Pathwayko03018,ko03040,ko04340,ko04341,map03018,map03040,map04340,map04341
KEGG ModuleM00354,M00384,M00396,M00397
GOsGO:0000375,GO:0000377,GO:0000398,GO:0000932,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005681,GO:0005688,GO:0005737,GO:0005829,GO:0006139,GO:0006396,GO:0006397,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008380,GO:0009987,GO:0010467,GO:0016070,GO:0016071,GO:0030532,GO:0032991,GO:0034641,GO:0035770,GO:0036464,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0044237,GO:0044238,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0046483,GO:0046540,GO:0071011,GO:0071013,GO:0071704,GO:0090304,GO:0097525,GO:0097526,GO:0120114,GO:1901360,GO:1902494,GO:1990726,GO:1990904
EggNOG free text desc.mRNA splicing, via spliceosome
EggNOG OGsCOG1958@1,KOG3448@2759
Ec32 ortholog descriptionSm-like protein LSm2
Ec32 orthologEc-20_004600.1
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03019,ko03041,ko04121
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size135
Cds size135
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622931139.1009083-CDS-H-elongata_contig73532:1200..13351622931139.1009083-CDS-H-elongata_contig73532:1200..1335Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig73532 1201..1335 +
1691679714.651854-CDS-H-elongata_contig73532:1200..13351691679714.651854-CDS-H-elongata_contig73532:1200..1335Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig73532 1201..1335 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig73532.15044.1prot_H-elongata_contig73532.15044.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig73532 1201..1335 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig73532.15044.1

>prot_H-elongata_contig73532.15044.1 ID=prot_H-elongata_contig73532.15044.1|Name=mRNA_H-elongata_contig73532.15044.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=45bp
SIAQGAIKNCFIRGSVVRYIQIPSSDVDTELLQDACRKEGVQGK*
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mRNA from alignment at H-elongata_contig73532:1201..1335+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig73532.15044.1 ID=mRNA_H-elongata_contig73532.15044.1|Name=mRNA_H-elongata_contig73532.15044.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=135bp|location=Sequence derived from alignment at H-elongata_contig73532:1201..1335+ (Himanthalia elongata Himel1 dioecious)
TCTATCGCACAGGGGGCAATCAAGAACTGCTTCATCCGAGGCTCTGTGGT
GCGATACATCCAGATTCCCTCTTCGGACGTAGACACCGAGTTGCTTCAGG
ATGCGTGTAGAAAGGAGGGCGTACAGGGGAAGTAA
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Coding sequence (CDS) from alignment at H-elongata_contig73532:1201..1335+

>mRNA_H-elongata_contig73532.15044.1 ID=mRNA_H-elongata_contig73532.15044.1|Name=mRNA_H-elongata_contig73532.15044.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=270bp|location=Sequence derived from alignment at H-elongata_contig73532:1201..1335+ (Himanthalia elongata Himel1 dioecious)
TCTATCGCACAGGGGGCAATCAAGAACTGCTTCATCCGAGGCTCTGTGGT
GCGATACATCCAGATTCCCTCTTCGGACGTAGACACCGAGTTGCTTCAGG
ATGCGTGTAGAAAGGAGGGCGTACAGGGGAAGTAATCTATCGCACAGGGG
GCAATCAAGAACTGCTTCATCCGAGGCTCTGTGGTGCGATACATCCAGAT
TCCCTCTTCGGACGTAGACACCGAGTTGCTTCAGGATGCGTGTAGAAAGG
AGGGCGTACAGGGGAAGTAA
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