mRNA_H-elongata_contig87106.16259.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig87106.16259.1
Unique NamemRNA_H-elongata_contig87106.16259.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: D7FXS6_ECTSI (U6 snRNA-associated Sm-like protein LSm3 n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FXS6_ECTSI)

HSP 1 Score: 110 bits (274), Expect = 4.220e-30
Identity = 56/57 (98.25%), Postives = 57/57 (100.00%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPP+RT
Sbjct:   36 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPVRT 92
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A7S2FJT0_9STRA (U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=Florenciella parvula TaxID=236787 RepID=A0A7S2FJT0_9STRA)

HSP 1 Score: 101 bits (252), Expect = 1.500e-26
Identity = 51/57 (89.47%), Postives = 54/57 (94.74%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            +YDQHLNMVLGDVEETVTT E+DEDT EEI+RTSKR IEMLFVRGDVVILVSPPLRT
Sbjct:   52 AYDQHLNMVLGDVEETVTTQEIDEDTSEEIIRTSKRMIEMLFVRGDVVILVSPPLRT 108
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A7S2GP21_9STRA (U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2GP21_9STRA)

HSP 1 Score: 100 bits (250), Expect = 2.480e-26
Identity = 51/57 (89.47%), Postives = 54/57 (94.74%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            +YDQHLNMVLGDVEETVTT E+DEDT EEI+RTSKR IEMLFVRGDVVILVSPPLRT
Sbjct:   45 AYDQHLNMVLGDVEETVTTQELDEDTNEEIIRTSKRMIEMLFVRGDVVILVSPPLRT 101
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A0M0JVC1_9EUKA (U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=Chrysochromulina tobinii TaxID=1460289 RepID=A0A0M0JVC1_9EUKA)

HSP 1 Score: 100 bits (249), Expect = 2.810e-26
Identity = 49/57 (85.96%), Postives = 54/57 (94.74%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            +YDQHLNMVLGDVEE VTTVEVDE+TYEEI++TSKR IEMLFVRGD VIL+SPPLRT
Sbjct:   37 AYDQHLNMVLGDVEEVVTTVEVDEETYEEIIKTSKRQIEMLFVRGDGVILISPPLRT 93
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: K3ZB54_SETIT (U6 snRNA-associated Sm-like protein LSm3 n=9 Tax=Poaceae TaxID=4479 RepID=K3ZB54_SETIT)

HSP 1 Score: 99.4 bits (246), Expect = 8.760e-26
Identity = 48/58 (82.76%), Postives = 55/58 (94.83%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRTI 189
            +YDQHLNM+LGDVEETVTTVE+D++TYEEIVRTSKR+I  LFVRGD VILVSPPLRT+
Sbjct:   40 AYDQHLNMILGDVEETVTTVEIDDETYEEIVRTSKRTIPFLFVRGDGVILVSPPLRTV 97
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: R1DJQ4_EMIHU (U6 snRNA-associated Sm-like protein LSm3 n=2 Tax=Eukaryota TaxID=2759 RepID=R1DJQ4_EMIHU)

HSP 1 Score: 98.6 bits (244), Expect = 1.580e-25
Identity = 49/65 (75.38%), Postives = 59/65 (90.77%), Query Frame = 1 
Query:    1 RDVR---QSYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            RD+R    ++DQHLNMVLG+VEETVTT+EVDE+TYEEI++TSKR I+MLFVRGD V+LVSPPLRT
Sbjct:   28 RDLRGRLHAFDQHLNMVLGEVEETVTTIEVDEETYEEIIKTSKRQIDMLFVRGDGVVLVSPPLRT 92
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A2G5DC99_AQUCA (U6 snRNA-associated Sm-like protein LSm3 n=3 Tax=Ranunculaceae TaxID=3440 RepID=A0A2G5DC99_AQUCA)

HSP 1 Score: 97.8 bits (242), Expect = 3.560e-25
Identity = 45/57 (78.95%), Postives = 55/57 (96.49%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            +YDQHLNM+LGDVEET+TTVE+D++TYEEIVRT+KR+++ LFVRGD VILVSPPLRT
Sbjct:   40 AYDQHLNMILGDVEETITTVEIDDETYEEIVRTTKRNVQFLFVRGDGVILVSPPLRT 96
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BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: LSM3B_ARATH (Sm-like protein LSM3B n=7 Tax=Brassicaceae TaxID=3700 RepID=LSM3B_ARATH)

HSP 1 Score: 97.8 bits (242), Expect = 3.670e-25
Identity = 46/57 (80.70%), Postives = 55/57 (96.49%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            ++DQHLNM+LGDVEET+TTVE+D++TYEEIVRT+KR+IE LFVRGD VILVSPPLRT
Sbjct:   40 AFDQHLNMILGDVEETITTVEIDDETYEEIVRTTKRTIEFLFVRGDGVILVSPPLRT 96
[Close]
BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A6L5CMI0_9INSE (U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=Ephemera danica TaxID=1049336 RepID=A0A6L5CMI0_9INSE)

HSP 1 Score: 97.1 bits (240), Expect = 7.820e-25
Identity = 47/56 (83.93%), Postives = 53/56 (94.64%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLR 183
            +YDQHLNMVLGDVEETVTTVE+DE+TYEE+ RT+KRSI MLFVRGD VILVSPP+R
Sbjct:   44 AYDQHLNMVLGDVEETVTTVEIDEETYEEVYRTTKRSIPMLFVRGDGVILVSPPMR 99
[Close]
BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Match: A0A8J5XN36_DIALT (U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=Diacronema lutheri TaxID=2081491 RepID=A0A8J5XN36_DIALT)

HSP 1 Score: 96.7 bits (239), Expect = 9.920e-25
Identity = 47/57 (82.46%), Postives = 54/57 (94.74%), Query Frame = 1 
Query:   16 SYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRGDVVILVSPPLRT 186
            +YDQHLNMVLGDV+ETVTT ++D +TYEEI++TSKRSIEMLFVRGD VILVSPPLRT
Sbjct:   39 AYDQHLNMVLGDVDETVTTRDIDTETYEEIIKTSKRSIEMLFVRGDGVILVSPPLRT 95
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig87106.16259.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FXS6_ECTSI4.220e-3098.25U6 snRNA-associated Sm-like protein LSm3 n=2 Tax=E... [more]
A0A7S2FJT0_9STRA1.500e-2689.47U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=F... [more]
A0A7S2GP21_9STRA2.480e-2689.47U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=D... [more]
A0A0M0JVC1_9EUKA2.810e-2685.96U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=C... [more]
K3ZB54_SETIT8.760e-2682.76U6 snRNA-associated Sm-like protein LSm3 n=9 Tax=P... [more]
R1DJQ4_EMIHU1.580e-2575.38U6 snRNA-associated Sm-like protein LSm3 n=2 Tax=E... [more]
A0A2G5DC99_AQUCA3.560e-2578.95U6 snRNA-associated Sm-like protein LSm3 n=3 Tax=R... [more]
LSM3B_ARATH3.670e-2580.70Sm-like protein LSM3B n=7 Tax=Brassicaceae TaxID=3... [more]
A0A6L5CMI0_9INSE7.820e-2583.93U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=E... [more]
A0A8J5XN36_DIALT9.920e-2582.46U6 snRNA-associated Sm-like protein LSm3 n=1 Tax=D... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig87106contigH-elongata_contig87106:1570..2581 -
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 score109.0
Seed ortholog evalue8.3e-22
Seed eggNOG ortholog2880.D7FXS6
Preferred nameLSM3
KEGG koko:K12622
KEGG Pathwayko03018,ko03040,map03018,map03040
KEGG ModuleM00354,M00396,M00397
GOsGO:0000288,GO:0000291,GO:0000375,GO:0000377,GO:0000398,GO:0000781,GO:0000932,GO:0000956,GO:0003674,GO:0003676,GO:0003682,GO:0003723,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005681,GO:0005688,GO:0005694,GO:0005697,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:0006996,GO:0008150,GO:0008152,GO:0008380,GO:0009056,GO:0009057,GO:0009892,GO:0009987,GO:0010467,GO:0010468,GO:0010605,GO:0010629,GO:0016043,GO:0016070,GO:0016071,GO:0016072,GO:0017069,GO:0017070,GO:0019222,GO:0019439,GO:0022607,GO:0022613,GO:0022618,GO:0030532,GO:0030629,GO:0031974,GO:0031981,GO:0032991,GO:0033962,GO:0034470,GO:0034622,GO:0034641,GO:0034655,GO:0034660,GO:0035770,GO:0036464,GO:0042254,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043928,GO:0043933,GO:0044085,GO:0044237,GO:0044238,GO:0044248,GO:0044260,GO:0044265,GO:0044270,GO:0044422,GO:0044424,GO:0044427,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045292,GO:0046483,GO:0046540,GO:0046700,GO:0048519,GO:0050789,GO:0060255,GO:0065003,GO:0065007,GO:0070013,GO:0070034,GO:0070925,GO:0071011,GO:0071013,GO:0071704,GO:0071826,GO:0071840,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0098687,GO:0120114,GO:0120115,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1902494,GO:1990726,GO:1990904
EggNOG free text desc.cytoplasmic mRNA processing body assembly
EggNOG OGsKOG3460@1,KOG3460@2759
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03019,ko03041
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionU6 snRNA-associated Sm-like protein LSm3
Ec32 orthologEc-03_001640.1
Exons2
Model size192
Cds size192
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622931272.0546618-CDS-H-elongata_contig87106:1569..16501622931272.0546618-CDS-H-elongata_contig87106:1569..1650Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig87106 1570..1650 -
1691679768.1726892-CDS-H-elongata_contig87106:1569..16501691679768.1726892-CDS-H-elongata_contig87106:1569..1650Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig87106 1570..1650 -
1622931272.0728025-CDS-H-elongata_contig87106:2470..25811622931272.0728025-CDS-H-elongata_contig87106:2470..2581Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig87106 2471..2581 -
1691679768.1839774-CDS-H-elongata_contig87106:2470..25811691679768.1839774-CDS-H-elongata_contig87106:2470..2581Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig87106 2471..2581 -


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig87106.16259.1prot_H-elongata_contig87106.16259.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig87106 1570..2581 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig87106.16259.1

>prot_H-elongata_contig87106.16259.1 ID=prot_H-elongata_contig87106.16259.1|Name=mRNA_H-elongata_contig87106.16259.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=64bp
RDVRQSYDQHLNMVLGDVEETVTTVEVDEDTYEEIVRTSKRSIEMLFVRG
DVVILVSPPLRTI*
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mRNA from alignment at H-elongata_contig87106:1570..2581-

Legend: polypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig87106.16259.1 ID=mRNA_H-elongata_contig87106.16259.1|Name=mRNA_H-elongata_contig87106.16259.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=1012bp|location=Sequence derived from alignment at H-elongata_contig87106:1570..2581- (Himanthalia elongata Himel1 dioecious)
CGTGACGTGCGTCAGTCCTACGATCAGCACCTGAACATGGTGTTGGGCGA
TGTTGAGGAGACAGTGACAACCGTCGAGGTGGATGAGGACACGTACGAGG
AGATCGTGAGGGTGAGTAAAGCTTGGCTTCGAAAACCGGGGAAGAGGGCT
TCTAGTGACCTGGACGGCATATTAGCCCTTGGGTGTGCTGCATCTCTTCG
ATGCCTGTGAAACCCTTCGCCGTTTTCTCACCGTGGGACAGCTTAGCGGT
TGGTTTTTCATTCCCGTTGCGCGCCTTGACTGCCGAAGCGCTTGATTGAT
GATTCAAAACATGGAGGGAGATTTTTTTAAGGGCTACGCACGCTGGTCGC
GTTCGAGGCCTAAGCAACCAATCCTTCCCTTCTCGCAGACGCTGAAGCAG
TAGTTTATCTCGTGGAGCATCACGTTCCGATGTAATTTTCGGTCATGCGC
GCCGCAGTAAAGATAAAACATACTCGTTCAGTGTACTGTTGACTACATCG
ACTTTTGGTCCCGCAATGCTGCTGTAGCCGATACGCGCACCCGAATCGAC
CGACGTTCCACGTTATAGATATATTTTAAATTCCTACCGTTATACCACCA
TGTTGTTGTTTTTTTACCTCGAGTCTTTCCCGCAAAGGGTGTTTAAAGGG
TTTCACGTTGCTCGGCTGCGACGCAACGTTTTGGGAGCTTGTTCTCGTTT
GACACCACCCGCCGGCTAACTGTTTGTTCTCAGAGAGGATGTTGGTTGCG
GGGGGGCGGGGGGGAGATCTCGACAGACACCCTCTACCCAAGGGCCGTGT
TAACCGCCGTTATCGTCAATTAATCGCCGTTATCGTTAATTAAATAAATC
CACCCCCCAAACCCAATGCCACCGCCGCTGCCCGTGATACCCCACCTGGA
ATACTGAATCGTGCATGTTTCCCCGATGCAGACGTCGAAGCGAAGTATCG
AGATGCTGTTCGTGCGGGGGGACGTGGTCATTTTGGTATCGCCTCCACTC
CGCACTATATAG
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Coding sequence (CDS) from alignment at H-elongata_contig87106:1570..2581-

>mRNA_H-elongata_contig87106.16259.1 ID=mRNA_H-elongata_contig87106.16259.1|Name=mRNA_H-elongata_contig87106.16259.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=384bp|location=Sequence derived from alignment at H-elongata_contig87106:1570..2581- (Himanthalia elongata Himel1 dioecious)
CGTGACGTGCGTCAGTCCTACGATCAGCACCTGAACATGGTGTTGGGCGA
TGTTGAGGAGACAGTGACAACCGTCGAGGTGGATGAGGACACGTACGAGG
AGATCGTGAGGCGTGACGTGCGTCAGTCCTACGATCAGCACCTGAACATG
GTGTTGGGCGATGTTGAGGAGACAGTGACAACCGTCGAGGTGGATGAGGA
CACGTACGAGGAGATCGTGAGGACGTCGAAGCGAAGTATCGAGATGCTGT
TCGTGCGGGGGGACGTGGTCATTTTGGTATCGCCTCCACTCCGCACTATA
TAGACGTCGAAGCGAAGTATCGAGATGCTGTTCGTGCGGGGGGACGTGGT
CATTTTGGTATCGCCTCCACTCCGCACTATATAG
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