mRNA_H-elongata_contig171188.4391.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig171188.4391.1
Unique NamemRNA_H-elongata_contig171188.4391.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: D7FNU5_ECTSI (Elongin-C n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FNU5_ECTSI)

HSP 1 Score: 130 bits (328), Expect = 3.580e-38
Identity = 64/67 (95.52%), Postives = 66/67 (98.51%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+ +GGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC
Sbjct:   34 AMLSGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 100
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: L8GYQ9_ACACA (Elongin-C n=1 Tax=Acanthamoeba castellanii str. Neff TaxID=1257118 RepID=L8GYQ9_ACACA)

HSP 1 Score: 97.1 bits (240), Expect = 1.000e-24
Identity = 47/62 (75.81%), Postives = 53/62 (85.48%), Query Frame = 1 
Query:   13 GGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLD 198
            G F E A G+++F EISTPILEKVIQ+ YYK+RYTNS T IPEF IEPE+ALELLMAANFLD
Sbjct:   41 GTFTEQAMGEINFREISTPILEKVIQYFYYKLRYTNSTTEIPEFPIEPEVALELLMAANFLD 102
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: F0YER3_AURAN (Elongin-C (Fragment) n=1 Tax=Aureococcus anophagefferens TaxID=44056 RepID=F0YER3_AURAN)

HSP 1 Score: 95.1 bits (235), Expect = 4.260e-24
Identity = 43/57 (75.44%), Postives = 51/57 (89.47%), Query Frame = 1 
Query:   31 ASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            +SG++ F EISTPILEKVIQ+ YYK+RYTNS  RIPEF I+PE+ALELLMA+NFLDC
Sbjct:   36 SSGEIKFPEISTPILEKVIQYFYYKLRYTNSQVRIPEFQIDPEMALELLMASNFLDC 92
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: K8Z122_NANGC (Elongin-C n=2 Tax=Monodopsidaceae TaxID=425072 RepID=K8Z122_NANGC)

HSP 1 Score: 94.4 bits (233), Expect = 1.040e-23
Identity = 45/67 (67.16%), Postives = 57/67 (85.07%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+ AG F E+  G+++F EIST ILEKVIQ++YYKVRYTNS  ++P+F +EPE+ALELLMAANFLDC
Sbjct:   34 AMLAGNFAES-KGEINFPEISTNILEKVIQYLYYKVRYTNSPQKVPDFKMEPEIALELLMAANFLDC 99
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A1Y1IDM0_KLENI (Elongin-C n=1 Tax=Klebsormidium nitens TaxID=105231 RepID=A0A1Y1IDM0_KLENI)

HSP 1 Score: 92.8 bits (229), Expect = 4.880e-23
Identity = 45/65 (69.23%), Postives = 52/65 (80.00%), Query Frame = 1 
Query:   13 GGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSAT--RIPEFHIEPELALELLMAANFLDC 201
            GGF E   G+V F EISTPILEK+ QF YYK+RYTNSA    +PEF IEPE+A+ELLMA+NFLDC
Sbjct:   40 GGFQETELGEVRFPEISTPILEKLCQFFYYKLRYTNSAAVKNVPEFKIEPEIAIELLMASNFLDC 104
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A6U1KLA4_9STRA (Elongin-C n=1 Tax=Pelagomonas calceolata TaxID=35677 RepID=A0A6U1KLA4_9STRA)

HSP 1 Score: 93.2 bits (230), Expect = 5.060e-23
Identity = 47/67 (70.15%), Postives = 54/67 (80.60%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+ +G F E+ SG++ F EISTPILEKVIQ+ YYK  Y NS  RIPEF IEPE+ALELLMAANFLDC
Sbjct:   53 AMLSGSFTES-SGEIKFPEISTPILEKVIQYFYYKASYKNSQVRIPEFAIEPEVALELLMAANFLDC 118
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A7S2XYA0_9STRA (Elongin-C n=1 Tax=Fibrocapsa japonica TaxID=94617 RepID=A0A7S2XYA0_9STRA)

HSP 1 Score: 92.4 bits (228), Expect = 7.120e-23
Identity = 46/67 (68.66%), Postives = 56/67 (83.58%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+ +G F E+  G+V F EIS+ ILEK+IQ+ YYKVRYTNS +RIP+F IEPE+ALELLMAANFLDC
Sbjct:   40 AMLSGQFAESR-GEVTFPEISSAILEKIIQYCYYKVRYTNSTSRIPDFPIEPEIALELLMAANFLDC 105
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A1V9Z8H2_9STRA (Elongin-C n=3 Tax=Saprolegniaceae TaxID=4764 RepID=A0A1V9Z8H2_9STRA)

HSP 1 Score: 90.1 bits (222), Expect = 5.220e-22
Identity = 44/67 (65.67%), Postives = 55/67 (82.09%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+ +G F E+  G+V F +IS PILEKVIQ++YYK RY+NS  RIP+F IEPE+ALELLMAAN+LDC
Sbjct:   36 AMLSGHFSES-KGEVRFPDISAPILEKVIQYMYYKKRYSNSNARIPDFGIEPEMALELLMAANYLDC 101
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BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A6B2LUV1_9EUKA (Elongin-C n=1 Tax=Arcella intermedia TaxID=1963864 RepID=A0A6B2LUV1_9EUKA)

HSP 1 Score: 89.4 bits (220), Expect = 7.980e-22
Identity = 43/65 (66.15%), Postives = 53/65 (81.54%), Query Frame = 1 
Query:    4 LRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLD 198
            L  GGF E+ +G++ F EI+T ILEKVIQ+ YYKV+YTNS  + P+F IEPE+ALELLMAANFLD
Sbjct:   26 LDGGGFLESEAGEISFKEINTNILEKVIQYFYYKVKYTNSTGQTPDFPIEPEIALELLMAANFLD 90
[Close]
BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Match: A0A6G0WB49_9STRA (Elongin-C n=1 Tax=Aphanomyces euteiches TaxID=100861 RepID=A0A6G0WB49_9STRA)

HSP 1 Score: 88.6 bits (218), Expect = 2.240e-21
Identity = 42/67 (62.69%), Postives = 54/67 (80.60%), Query Frame = 1 
Query:    1 ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHIEPELALELLMAANFLDC 201
            A+  G F E+  G+V F +IS PILEK+IQ+ Y+KVRY+NS  R+P+F IEPE+ALELLMAAN+LDC
Sbjct:   38 AMLTGHFSES-KGEVRFPDISAPILEKIIQYFYFKVRYSNSNARLPDFTIEPEIALELLMAANYLDC 103
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig171188.4391.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FNU5_ECTSI3.580e-3895.52Elongin-C n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FN... [more]
L8GYQ9_ACACA1.000e-2475.81Elongin-C n=1 Tax=Acanthamoeba castellanii str. Ne... [more]
F0YER3_AURAN4.260e-2475.44Elongin-C (Fragment) n=1 Tax=Aureococcus anophagef... [more]
K8Z122_NANGC1.040e-2367.16Elongin-C n=2 Tax=Monodopsidaceae TaxID=425072 Rep... [more]
A0A1Y1IDM0_KLENI4.880e-2369.23Elongin-C n=1 Tax=Klebsormidium nitens TaxID=10523... [more]
A0A6U1KLA4_9STRA5.060e-2370.15Elongin-C n=1 Tax=Pelagomonas calceolata TaxID=356... [more]
A0A7S2XYA0_9STRA7.120e-2368.66Elongin-C n=1 Tax=Fibrocapsa japonica TaxID=94617 ... [more]
A0A1V9Z8H2_9STRA5.220e-2265.67Elongin-C n=3 Tax=Saprolegniaceae TaxID=4764 RepID... [more]
A0A6B2LUV1_9EUKA7.980e-2266.15Elongin-C n=1 Tax=Arcella intermedia TaxID=1963864... [more]
A0A6G0WB49_9STRA2.240e-2162.69Elongin-C n=1 Tax=Aphanomyces euteiches TaxID=1008... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig171188contigH-elongata_contig171188:63..1195 -
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 score130.2
Seed ortholog evalue3.7e-28
Seed eggNOG ortholog2880.D7FNU5
Preferred nameTCEB1
KEGG koko:K03872
KEGG Pathwayko04066,ko04120,ko05200,ko05211,map04066,map04120,map05200,map05211
KEGG ModuleM00383,M00388
GOsGO:0000003,GO:0000151,GO:0000153,GO:0000280,GO:0000578,GO:0000819,GO:0001666,GO:0002009,GO:0002165,GO:0003002,GO:0003674,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005694,GO:0005700,GO:0005705,GO:0005737,GO:0005829,GO:0006139,GO:0006259,GO:0006281,GO:0006289,GO:0006351,GO:0006354,GO:0006355,GO:0006357,GO:0006366,GO:0006368,GO:0006464,GO:0006725,GO:0006807,GO:0006928,GO:0006950,GO:0006974,GO:0006996,GO:0007017,GO:0007018,GO:0007049,GO:0007059,GO:0007135,GO:0007275,GO:0007350,GO:0007351,GO:0007389,GO:0007444,GO:0007472,GO:0007474,GO:0007476,GO:0007552,GO:0007560,GO:0008023,GO:0008150,GO:0008152,GO:0008595,GO:0009058,GO:0009059,GO:0009628,GO:0009653,GO:0009790,GO:0009791,GO:0009798,GO:0009880,GO:0009886,GO:0009887,GO:0009888,GO:0009889,GO:0009891,GO:0009893,GO:0009948,GO:0009952,GO:0009987,GO:0010467,GO:0010468,GO:0010556,GO:0010557,GO:0010564,GO:0010604,GO:0010628,GO:0010638,GO:0016043,GO:0016070,GO:0016344,GO:0018130,GO:0019219,GO:0019222,GO:0019438,GO:0019538,GO:0019904,GO:0022402,GO:0022414,GO:0030891,GO:0031323,GO:0031325,GO:0031326,GO:0031328,GO:0031461,GO:0031462,GO:0031463,GO:0031974,GO:0031981,GO:0032501,GO:0032502,GO:0032774,GO:0032784,GO:0032786,GO:0032968,GO:0032991,GO:0033043,GO:0033044,GO:0033045,GO:0033554,GO:0034243,GO:0034641,GO:0034645,GO:0034654,GO:0035107,GO:0035114,GO:0035120,GO:0035220,GO:0035239,GO:0035282,GO:0035295,GO:0036211,GO:0036293,GO:0036294,GO:0040020,GO:0042221,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043412,GO:0043618,GO:0043620,GO:0043687,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044422,GO:0044424,GO:0044427,GO:0044428,GO:0044444,GO:0044446,GO:0044451,GO:0044464,GO:0044877,GO:0045132,GO:0045144,GO:0045787,GO:0045836,GO:0045893,GO:0045935,GO:0045944,GO:0046483,GO:0048285,GO:0048513,GO:0048518,GO:0048522,GO:0048563,GO:0048569,GO:0048707,GO:0048729,GO:0048731,GO:0048736,GO:0048737,GO:0048856,GO:0050000,GO:0050789,GO:0050794,GO:0050896,GO:0051128,GO:0051130,GO:0051171,GO:0051173,GO:0051179,GO:0051234,GO:0051252,GO:0051254,GO:0051276,GO:0051303,GO:0051305,GO:0051321,GO:0051445,GO:0051446,GO:0051640,GO:0051641,GO:0051649,GO:0051656,GO:0051716,GO:0051726,GO:0051759,GO:0051783,GO:0051785,GO:0051983,GO:0051984,GO:0060255,GO:0060429,GO:0060562,GO:0061418,GO:0061983,GO:0065007,GO:0070013,GO:0070192,GO:0070449,GO:0070482,GO:0070887,GO:0070911,GO:0071453,GO:0071456,GO:0071704,GO:0071840,GO:0080090,GO:0090068,GO:0090304,GO:0097659,GO:0098687,GO:0098813,GO:0140013,GO:1901360,GO:1901362,GO:1901564,GO:1901576,GO:1901987,GO:1901989,GO:1901993,GO:1901995,GO:1902099,GO:1902101,GO:1902102,GO:1902104,GO:1902494,GO:1902680,GO:1903046,GO:1903506,GO:1903508,GO:1905132,GO:1905134,GO:1905818,GO:1905820,GO:1990234,GO:2000112,GO:2000241,GO:2000243,GO:2001141
EggNOG free text desc.positive regulation of transcription elongation from RNA polymerase II promoter
EggNOG OGsKOG3473@1,KOG3473@2759
COG Functional cat.I
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03400,ko04121
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionRNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C
Ec32 orthologEc-12_003330.1
Exons2
Model size204
Cds size204
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929996.426202-CDS-H-elongata_contig171188:62..1611622929996.426202-CDS-H-elongata_contig171188:62..161Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig171188 63..161 -
1691679239.5665858-CDS-H-elongata_contig171188:62..1611691679239.5665858-CDS-H-elongata_contig171188:62..161Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig171188 63..161 -
1622929996.4467146-CDS-H-elongata_contig171188:1090..11951622929996.4467146-CDS-H-elongata_contig171188:1090..1195Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig171188 1091..1195 -
1691679239.5878732-CDS-H-elongata_contig171188:1090..11951691679239.5878732-CDS-H-elongata_contig171188:1090..1195Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig171188 1091..1195 -


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig171188.4391.1prot_H-elongata_contig171188.4391.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig171188 63..1195 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig171188.4391.1

>prot_H-elongata_contig171188.4391.1 ID=prot_H-elongata_contig171188.4391.1|Name=mRNA_H-elongata_contig171188.4391.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=68bp
ALRAGGFGEAASGQVHFAEISTPILEKVIQFVYYKVRYTNSATRIPEFHI
EPELALELLMAANFLDC*
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mRNA from alignment at H-elongata_contig171188:63..1195-

Legend: polypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig171188.4391.1 ID=mRNA_H-elongata_contig171188.4391.1|Name=mRNA_H-elongata_contig171188.4391.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=1133bp|location=Sequence derived from alignment at H-elongata_contig171188:63..1195- (Himanthalia elongata Himel1 dioecious)
GCGCTCCGAGCAGGGGGCTTCGGCGAGGCTGCGTCGGGGCAGGTGCACTT
CGCGGAAATCTCCACCCCAATCTTAGAGAAGGTCATCCAGTTCGTCTACT
ACAAGGTGATCCTGGATTGCCCGGCTTTAAAACGTAGCGTTGGTTCTCGA
GCGTCGTGGCTCGCGGGAGAGTGGGATATTTATGAAAATGCGCACATCGG
GTGTGTCTTTGCGTTCGCCGTCAACGAGCCCGCCCCCCTCCTCATCCTAT
ACTTGGTCATTTCACCTCATTGCCGAAAACTCTGCGCAGCAGTATTGCGT
GTGAACGATGAGTGATCGATGAGGGGGCTTGGTTTGCTGTATCTAAATAA
GTATTTTGGTTTCGGTGGCCGTTTTAATACGACAGCGCAGTACGTGAAGG
CAAACACGGAAACACGCACGCGCGCGGTTTTTCTGCGGCTCGCCGGTGGT
GGTCTGACCACGTTTGAAACCGTATTAATGCGTTTCTTGGCATTTTTCTT
TAAAATACATATATTTTCGTTTTACGCTAGTGTGTGTGTCTGTGTTTGTG
TGTGTATTGGTGTGTGTATTTTTATTTTAAAAAACTTGAACTCATTCCAA
CCCTCCGAATATCCACACCCTCTTAGCACCGTGAGAGGTGCAATCCAGGG
GACCAACTATCGTCAGGTTCGAATGTGTACATTATTACCTTTGAGCACAA
AATCGTCACACAGAATATATTATTCGTCATGGCGTCATGTTGTATGTAGG
GACTATGACGCCAAGCCAAAGTGTATAGTGTATAGCCTAGAGACTGGACT
GCGTAATGAGAGGGGGTGTGGGAGGGAGAGAGAAAAATAAGTTCAGTGCA
TAGTTACATTGTATATCTCGATTAATTGCGGACTCTAGCTATTAGAAAAA
CAGACATGGAAGACATATATGAAGACAAGAGGAGTAGAAAGCCTTCGACG
AACACCGATGAAGATTTGCAGAACGAACTCGATCTCACTTCAGCTGATGG
GTTGTTGTTTCGTTTTCTATAATTCGTCTTTCAGGTGCGATACACAAACA
GCGCCACTCGGATCCCAGAATTTCACATCGAGCCGGAGCTGGCGCTAGAG
TTGCTCATGGCCGCAAACTTTCTCGACTGTTGA
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Coding sequence (CDS) from alignment at H-elongata_contig171188:63..1195-

>mRNA_H-elongata_contig171188.4391.1 ID=mRNA_H-elongata_contig171188.4391.1|Name=mRNA_H-elongata_contig171188.4391.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=408bp|location=Sequence derived from alignment at H-elongata_contig171188:63..1195- (Himanthalia elongata Himel1 dioecious)
GCGCTCCGAGCAGGGGGCTTCGGCGAGGCTGCGTCGGGGCAGGTGCACTT
CGCGGAAATCTCCACCCCAATCTTAGAGAAGGTCATCCAGTTCGTCTACT
ACAAGGCGCTCCGAGCAGGGGGCTTCGGCGAGGCTGCGTCGGGGCAGGTG
CACTTCGCGGAAATCTCCACCCCAATCTTAGAGAAGGTCATCCAGTTCGT
CTACTACAAGGTGCGATACACAAACAGCGCCACTCGGATCCCAGAATTTC
ACATCGAGCCGGAGCTGGCGCTAGAGTTGCTCATGGCCGCAAACTTTCTC
GACTGTTGAGTGCGATACACAAACAGCGCCACTCGGATCCCAGAATTTCA
CATCGAGCCGGAGCTGGCGCTAGAGTTGCTCATGGCCGCAAACTTTCTCG
ACTGTTGA
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