mRNA_H-elongata_contig61006.13642.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig61006.13642.1
Unique NamemRNA_H-elongata_contig61006.13642.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: D7FWG1_ECTSI (Sm protein F n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FWG1_ECTSI)

HSP 1 Score: 106 bits (264), Expect = 1.380e-28
Identity = 51/55 (92.73%), Postives = 52/55 (94.55%), Query Frame = 1 
Query:    7 GFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            GFLVSVDTYMNLLLTSTEEYVDG+FAGNLGDVLIRCNNVLYLRG EEDE  AKAD
Sbjct:   32 GFLVSVDTYMNLLLTSTEEYVDGEFAGNLGDVLIRCNNVLYLRGVEEDEANAKAD 86
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A176VZF1_MARPO (Sm protein F n=3 Tax=Viridiplantae TaxID=33090 RepID=A0A176VZF1_MARPO)

HSP 1 Score: 93.6 bits (231), Expect = 9.930e-24
Identity = 42/58 (72.41%), Postives = 49/58 (84.48%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKADD 174
            + G+LVSVD+YMNL L STEEY+DGQF GNLG+VLIRCNNVLYLRG  EDED  + D+
Sbjct:   30 YKGYLVSVDSYMNLQLASTEEYIDGQFTGNLGEVLIRCNNVLYLRGVPEDEDAVEEDE 87
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A7J6WA49_THATH (Sm protein F n=1 Tax=Thalictrum thalictroides TaxID=46969 RepID=A0A7J6WA49_THATH)

HSP 1 Score: 92.4 bits (228), Expect = 3.550e-23
Identity = 41/57 (71.93%), Postives = 49/57 (85.96%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            + GFLVSVD+YMNL L +TEEY+DGQF GNLG++LIRCNNVLYLRG  EDE+  +AD
Sbjct:   37 YKGFLVSVDSYMNLQLANTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDEEIEEAD 93
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A9S411_PHYPA (Sm protein F n=5 Tax=Streptophytina TaxID=131221 RepID=A9S411_PHYPA)

HSP 1 Score: 92.0 bits (227), Expect = 4.040e-23
Identity = 42/58 (72.41%), Postives = 49/58 (84.48%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKADD 174
            + G+LVSVD+YMNL L STEE+VDG F GNLG+VLIRCNNV+YLRG  EDED A+ DD
Sbjct:   30 YKGYLVSVDSYMNLQLASTEEFVDGAFTGNLGEVLIRCNNVMYLRGVPEDEDAAEDDD 87
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A835M2E4_9MAGN (Sm protein F n=1 Tax=Coptis chinensis TaxID=261450 RepID=A0A835M2E4_9MAGN)

HSP 1 Score: 91.7 bits (226), Expect = 6.070e-23
Identity = 40/57 (70.18%), Postives = 49/57 (85.96%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            + G+LVSVD+YMNL L +TEEY+DG+F GNLG++LIRCNNVLYLRG  EDED  +AD
Sbjct:   31 YKGYLVSVDSYMNLQLANTEEYIDGKFTGNLGEILIRCNNVLYLRGVPEDEDITEAD 87
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A7I4DH71_PHYPA (Sm protein F n=1 Tax=Physcomitrium patens TaxID=3218 RepID=A0A7I4DH71_PHYPA)

HSP 1 Score: 92.4 bits (228), Expect = 7.290e-23
Identity = 42/58 (72.41%), Postives = 49/58 (84.48%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKADD 174
            H G+LVSVD+YMNL L STEE+VDG F GNLG+VLIRCNNV+YLRG  EDED A+ D+
Sbjct:   64 HGGYLVSVDSYMNLQLASTEEFVDGAFTGNLGEVLIRCNNVMYLRGVPEDEDAAEDDE 121
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: B9RUD7_RICCO (Sm protein F n=1 Tax=Ricinus communis TaxID=3988 RepID=B9RUD7_RICCO)

HSP 1 Score: 90.5 bits (223), Expect = 8.420e-23
Identity = 41/55 (74.55%), Postives = 46/55 (83.64%), Query Frame = 1 
Query:    7 GFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            GFL SVD+YMNL L +TEEY+DGQF GNLG++LIRCNNVLYLRG  EDED   AD
Sbjct:    6 GFLASVDSYMNLQLGNTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDEDIEDAD 60
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A804J679_MUSAM (Sm protein F n=10 Tax=Mesangiospermae TaxID=1437183 RepID=A0A804J679_MUSAM)

HSP 1 Score: 90.9 bits (224), Expect = 1.130e-22
Identity = 41/57 (71.93%), Postives = 48/57 (84.21%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            + G+LVSVD+YMNL L +TEEYVDGQF GNLG++LIRCNNVLYLRG  EDE+   AD
Sbjct:   30 YKGYLVSVDSYMNLQLANTEEYVDGQFTGNLGEILIRCNNVLYLRGVPEDEEIEDAD 86
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BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: A0A6P9F5Z8_JUGRE (Sm protein F n=4 Tax=Mesangiospermae TaxID=1437183 RepID=A0A6P9F5Z8_JUGRE)

HSP 1 Score: 90.9 bits (224), Expect = 1.160e-22
Identity = 40/57 (70.18%), Postives = 48/57 (84.21%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            + GFL SVD+YMNL L +TEEY+DGQF GNLG++LIRCNNVLYLRG  EDE+  +AD
Sbjct:   29 YKGFLASVDSYMNLQLANTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDEEIEEAD 85
[Close]
BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Match: UPI00201A8FA9 (probable small nuclear ribonucleoprotein F isoform X1 n=2 Tax=Ricinus communis TaxID=3988 RepID=UPI00201A8FA9)

HSP 1 Score: 90.9 bits (224), Expect = 1.490e-22
Identity = 41/57 (71.93%), Postives = 47/57 (82.46%), Query Frame = 1 
Query:    1 HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEEDEDTAKAD 171
            + GFL SVD+YMNL L +TEEY+DGQF GNLG++LIRCNNVLYLRG  EDED   AD
Sbjct:   38 YKGFLASVDSYMNLQLGNTEEYIDGQFTGNLGEILIRCNNVLYLRGVPEDEDIEDAD 94
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig61006.13642.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FWG1_ECTSI1.380e-2892.73Sm protein F n=2 Tax=Ectocarpus TaxID=2879 RepID=D... [more]
A0A176VZF1_MARPO9.930e-2472.41Sm protein F n=3 Tax=Viridiplantae TaxID=33090 Rep... [more]
A0A7J6WA49_THATH3.550e-2371.93Sm protein F n=1 Tax=Thalictrum thalictroides TaxI... [more]
A9S411_PHYPA4.040e-2372.41Sm protein F n=5 Tax=Streptophytina TaxID=131221 R... [more]
A0A835M2E4_9MAGN6.070e-2370.18Sm protein F n=1 Tax=Coptis chinensis TaxID=261450... [more]
A0A7I4DH71_PHYPA7.290e-2372.41Sm protein F n=1 Tax=Physcomitrium patens TaxID=32... [more]
B9RUD7_RICCO8.420e-2374.55Sm protein F n=1 Tax=Ricinus communis TaxID=3988 R... [more]
A0A804J679_MUSAM1.130e-2271.93Sm protein F n=10 Tax=Mesangiospermae TaxID=143718... [more]
A0A6P9F5Z8_JUGRE1.160e-2270.18Sm protein F n=4 Tax=Mesangiospermae TaxID=1437183... [more]
UPI00201A8FA91.490e-2271.93probable small nuclear ribonucleoprotein F isoform... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig61006contigH-elongata_contig61006:2132..2305 +
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 score106.3
Seed ortholog evalue4.9e-21
Seed eggNOG ortholog2880.D7FWG1
Preferred nameSNRPF
KEGG koko:K11098
KEGG Pathwayko03040,map03040
KEGG ModuleM00351,M00352,M00354,M00355,M00398
GOsGO:0000245,GO:0000375,GO:0000377,GO:0000387,GO:0000395,GO:0000398,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:0005682,GO:0005683,GO:0005684,GO:0005685,GO:0005686,GO:0005687,GO:0005689,GO:0005737,GO:0005829,GO:0006139,GO:0006351,GO:0006353,GO:0006366,GO:0006369,GO:0006376,GO:0006396,GO:0006397,GO:0006725,GO:0006807,GO:0006810,GO:0006913,GO:0008150,GO:0008152,GO:0008187,GO:0008266,GO:0008334,GO:0008380,GO:0009058,GO:0009059,GO:0009987,GO:0010467,GO:0016043,GO:0016070,GO:0016071,GO:0018130,GO:0019438,GO:0022607,GO:0022613,GO:0022618,GO:0030532,GO:0031974,GO:0031981,GO:0032774,GO:0032991,GO:0034622,GO:0034641,GO:0034645,GO:0034654,GO:0034708,GO:0034709,GO:0034715,GO:0034719,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043933,GO:0044085,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045292,GO:0046483,GO:0046540,GO:0046907,GO:0051169,GO:0051170,GO:0051179,GO:0051234,GO:0051641,GO:0051649,GO:0065003,GO:0070013,GO:0071007,GO:0071013,GO:0071014,GO:0071704,GO:0071826,GO:0071840,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0097659,GO:0120114,GO:1901360,GO:1901362,GO:1901363,GO:1901576,GO:1902494,GO:1990234,GO:1990904,GO:1990935
EggNOG free text desc.spliceosomal snRNP assembly
EggNOG OGsKOG3482@1,KOG3482@2759
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03032,ko03041
Hectar predicted targeting categoryno signal peptide or anchor
Ec32 ortholog descriptionSmall nuclear ribonucleoprotein SmF
Ec32 orthologEc-07_007380.1
Exons1
Model size174
Cds size174
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622930984.9307935-CDS-H-elongata_contig61006:2131..23051622930984.9307935-CDS-H-elongata_contig61006:2131..2305Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig61006 2132..2305 +
1691679651.0825336-CDS-H-elongata_contig61006:2131..23051691679651.0825336-CDS-H-elongata_contig61006:2131..2305Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig61006 2132..2305 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig61006.13642.1prot_H-elongata_contig61006.13642.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig61006 2132..2305 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig61006.13642.1

>prot_H-elongata_contig61006.13642.1 ID=prot_H-elongata_contig61006.13642.1|Name=mRNA_H-elongata_contig61006.13642.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=58bp
HPGFLVSVDTYMNLLLTSTEEYVDGQFAGNLGDVLIRCNNVLYLRGAEED
EDTAKADD
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mRNA from alignment at H-elongata_contig61006:2132..2305+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig61006.13642.1 ID=mRNA_H-elongata_contig61006.13642.1|Name=mRNA_H-elongata_contig61006.13642.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=174bp|location=Sequence derived from alignment at H-elongata_contig61006:2132..2305+ (Himanthalia elongata Himel1 dioecious)
CACCCAGGCTTCCTGGTCTCCGTGGACACGTACATGAACCTCCTGCTTAC
GTCAACGGAGGAGTACGTGGACGGACAGTTCGCGGGCAACCTGGGAGATG
TGCTCATCCGGTGCAACAACGTGCTCTACCTACGAGGGGCAGAGGAAGAC
GAAGATACCGCGAAGGCTGACGAT
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Coding sequence (CDS) from alignment at H-elongata_contig61006:2132..2305+

>mRNA_H-elongata_contig61006.13642.1 ID=mRNA_H-elongata_contig61006.13642.1|Name=mRNA_H-elongata_contig61006.13642.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=348bp|location=Sequence derived from alignment at H-elongata_contig61006:2132..2305+ (Himanthalia elongata Himel1 dioecious)
CACCCAGGCTTCCTGGTCTCCGTGGACACGTACATGAACCTCCTGCTTAC
GTCAACGGAGGAGTACGTGGACGGACAGTTCGCGGGCAACCTGGGAGATG
TGCTCATCCGGTGCAACAACGTGCTCTACCTACGAGGGGCAGAGGAAGAC
GAAGATACCGCGAAGGCTGACGATCACCCAGGCTTCCTGGTCTCCGTGGA
CACGTACATGAACCTCCTGCTTACGTCAACGGAGGAGTACGTGGACGGAC
AGTTCGCGGGCAACCTGGGAGATGTGCTCATCCGGTGCAACAACGTGCTC
TACCTACGAGGGGCAGAGGAAGACGAAGATACCGCGAAGGCTGACGAT
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