mRNA_H-elongata_contig129496.2156.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig129496.2156.1
Unique NamemRNA_H-elongata_contig129496.2156.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A6H5JST3_9PHAE (RNA_pol_L_2 domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5JST3_9PHAE)

HSP 1 Score: 189 bits (481), Expect = 2.310e-60
Identity = 94/113 (83.19%), Postives = 104/113 (92.04%), Query Frame = 1 
Query:    1 RLRSCRLRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQVAAIKLVLEEEQFGA 339
            RL     +L+YTPDTK+P+AGTFE+IKEDHTLGNLLRMQLLAD+QVRFAGY+QPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQE+EGLREVFQEQVAA K   E+EQFG+
Sbjct:   11 RLNDDEKKLAYTPDTKIPHAGTFEIIKEDHTLGNLLRMQLLADRQVRFAGYMQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEMEGLREVFQEQVAAAKHAAEQEQFGS 123
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: D7G4D0_ECTSI (RNA polymerase II core subunit n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7G4D0_ECTSI)

HSP 1 Score: 189 bits (481), Expect = 1.050e-59
Identity = 93/106 (87.74%), Postives = 102/106 (96.23%), Query Frame = 1 
Query:   22 RLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQVAAIKLVLEEEQFGA 339
            RL+YTPDTK+P+AGTFE+IKEDHTLGNLLRMQLLAD+QVRFAGY+QPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQE+EGLREVFQEQVAA K   E+EQFG+
Sbjct:   65 RLAYTPDTKIPHAGTFEIIKEDHTLGNLLRMQLLADRQVRFAGYMQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEMEGLREVFQEQVAAAKHAAEQEQFGS 170
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A836CIX8_9STRA (Putative DNA-directed RNA polymerase II 13.6 kDa polypeptide n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CIX8_9STRA)

HSP 1 Score: 132 bits (332), Expect = 1.110e-37
Identity = 65/111 (58.56%), Postives = 82/111 (73.87%), Query Frame = 1 
Query:    1 RLRSCRLRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQVAAIKLVLEEEQF 333
            RL     ++ Y PDTK+PNAG F + KEDHTLGNL+RMQLL D+QVRFAGY+ PHPLEN + +KVQTNG+ TP+DALS A EDL+ E++ L + F E V A K + E  Q+
Sbjct:   11 RLNEGEEKVDYEPDTKIPNAGNFIIKKEDHTLGNLIRMQLLQDRQVRFAGYLMPHPLENIMRVKVQTNGEVTPMDALSTAIEDLTSEVDNLTQRFAEGVLACKRLQESRQY 121
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: K0SS38_THAOC (RNA_pol_L_2 domain-containing protein n=1 Tax=Thalassiosira oceanica TaxID=159749 RepID=K0SS38_THAOC)

HSP 1 Score: 109 bits (272), Expect = 1.490e-28
Identity = 54/85 (63.53%), Postives = 66/85 (77.65%), Query Frame = 1 
Query:   22 RLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNT-PVDALSAATEDLSQEIEGL 273
            ++ Y PDTKV NAGTF + KEDHT+GNLLRMQLL D QV+FAGY+ PHPL N+IH+KVQT+     P ++LSAA EDLS E + L
Sbjct:   19 KIEYQPDTKVANAGTFTLNKEDHTVGNLLRMQLLRDPQVKFAGYMHPHPLVNRIHLKVQTSTSQVAPTESLSAAIEDLSNETDHL 103
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A6U1NZH5_9STRA (Hypothetical protein n=1 Tax=Fibrocapsa japonica TaxID=94617 RepID=A0A6U1NZH5_9STRA)

HSP 1 Score: 106 bits (264), Expect = 2.660e-27
Identity = 57/114 (50.00%), Postives = 75/114 (65.79%), Query Frame = 1 
Query:    1 RLRSCRLRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNT-PVDALSAATEDLSQEIEGLREVFQEQVAAIKLVLEEEQFGA 339
            RL     +L+Y PDTK+PNAGTF + +EDHTLGNLLRMQLL D  VRFAGY  PHPL + + +K+QT      P+ A+S + EDLS E + L + F+E +   K   ++ Q GA
Sbjct:   11 RLAEGEKKLTYEPDTKIPNAGTFTLNREDHTLGNLLRMQLLQDSSVRFAGYQHPHPLVHHLLVKIQTTDPPANPIQAMSTSIEDLSSEFDFLEQRFKEDIDRFK---QDRQSGA 121
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A7R9WNF7_9STRA (Hypothetical protein n=1 Tax=Craspedostauros australis TaxID=1486917 RepID=A0A7R9WNF7_9STRA)

HSP 1 Score: 105 bits (263), Expect = 3.980e-27
Identity = 53/94 (56.38%), Postives = 68/94 (72.34%), Query Frame = 1 
Query:   19 LRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNT-PVDALSAATEDLSQEIEGLREVFQEQV 297
            +++ YT DTKV NAGTF++ KEDHT+GNL RMQLL D  VRFAGY  PHPL + +++K+QTN     PV+ LS+A EDLS E + L   FQE +
Sbjct:   19 VKIEYTADTKVTNAGTFKLNKEDHTVGNLFRMQLLRDPSVRFAGYYHPHPLVHFLNMKIQTNNSTVAPVEVLSSAIEDLSNETDHLTSQFQEAI 112
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A7R9U3J4_9STRA (Hypothetical protein n=1 Tax=Pinguiococcus pyrenoidosus TaxID=172671 RepID=A0A7R9U3J4_9STRA)

HSP 1 Score: 105 bits (262), Expect = 4.130e-27
Identity = 49/96 (51.04%), Postives = 71/96 (73.96%), Query Frame = 1 
Query:   22 RLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQVAAIK 309
            +++Y  DTK+PNAGTF +++EDHTLGNLLRM+LL D+ VRFAGYI PHPLE+ I ++VQ   + TP+ +++ A + L Q+ + L + F+ QV   K
Sbjct:   20 KVTYQKDTKIPNAGTFTIMREDHTLGNLLRMELLKDQNVRFAGYIAPHPLEHVIKLRVQAADNVTPIRSVTQAVDHLQQQFDTLSKSFESQVHKFK 115
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A448ZBV9_9STRA (RNA_pol_L_2 domain-containing protein n=1 Tax=Pseudo-nitzschia multistriata TaxID=183589 RepID=A0A448ZBV9_9STRA)

HSP 1 Score: 104 bits (260), Expect = 1.100e-26
Identity = 55/92 (59.78%), Postives = 64/92 (69.57%), Query Frame = 1 
Query:   19 LRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNT-PVDALSAATEDLSQEIEGLREVFQE 291
            L++ YT DTKV NAGTF   KEDHT+GNL RMQLL D  VRFAGY+ PHPL   I +K+QTN     PV+ LSAA +DLS E + L   FQE
Sbjct:   19 LKIVYTADTKVTNAGTFRFNKEDHTVGNLFRMQLLRDPSVRFAGYLHPHPLVYFIDLKIQTNNSTVAPVEVLSAAIDDLSNETDHLMTQFQE 110
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A1I8A8U0_9BILA (RNA_pol_L_2 domain-containing protein n=1 Tax=Steinernema glaseri TaxID=37863 RepID=A0A1I8A8U0_9BILA)

HSP 1 Score: 102 bits (255), Expect = 4.500e-26
Identity = 50/92 (54.35%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:   22 RLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQV 297
            ++++  DTKVPNA  F V+KEDHTLGNL++ QLL D QV FAGY  PHPL++KI I++QT  D TP DAL++A  DL  E+    E F++ V
Sbjct:   18 KITFEKDTKVPNAAIFTVLKEDHTLGNLIKHQLLKDPQVLFAGYRNPHPLDHKIVIRIQTTSDTTPADALTSAITDLLAELSLFEERFRDAV 109
[Close]
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Match: A0A0K0DYM0_STRER (RNA_pol_L_2 domain-containing protein n=5 Tax=Strongyloididae TaxID=6246 RepID=A0A0K0DYM0_STRER)

HSP 1 Score: 102 bits (255), Expect = 5.490e-26
Identity = 49/92 (53.26%), Postives = 62/92 (67.39%), Query Frame = 1 
Query:   22 RLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAGYIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQV 297
            ++S+  DTKVPNA  FE++KEDHTLGNLL+ QLL D  V FAGY  PHPLE+K H+++QT  D TP   L  A  DL  E+    + F+E V
Sbjct:   18 KISFEKDTKVPNAAIFEIVKEDHTLGNLLKHQLLKDPNVLFAGYRNPHPLEHKFHLRIQTTPDTTPTQVLLDAISDLIAELSMTEQYFKESV 109
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig129496.2156.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A6H5JST3_9PHAE2.310e-6083.19RNA_pol_L_2 domain-containing protein n=1 Tax=Ecto... [more]
D7G4D0_ECTSI1.050e-5987.74RNA polymerase II core subunit n=1 Tax=Ectocarpus ... [more]
A0A836CIX8_9STRA1.110e-3758.56Putative DNA-directed RNA polymerase II 13.6 kDa p... [more]
K0SS38_THAOC1.490e-2863.53RNA_pol_L_2 domain-containing protein n=1 Tax=Thal... [more]
A0A6U1NZH5_9STRA2.660e-2750.00Hypothetical protein n=1 Tax=Fibrocapsa japonica T... [more]
A0A7R9WNF7_9STRA3.980e-2756.38Hypothetical protein n=1 Tax=Craspedostauros austr... [more]
A0A7R9U3J4_9STRA4.130e-2751.04Hypothetical protein n=1 Tax=Pinguiococcus pyrenoi... [more]
A0A448ZBV9_9STRA1.100e-2659.78RNA_pol_L_2 domain-containing protein n=1 Tax=Pseu... [more]
A0A1I8A8U0_9BILA4.500e-2654.35RNA_pol_L_2 domain-containing protein n=1 Tax=Stei... [more]
A0A0K0DYM0_STRER5.490e-2653.26RNA_pol_L_2 domain-containing protein n=5 Tax=Stro... [more]

Pages

back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig129496contigH-elongata_contig129496:626..1472 -
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 score193.4
Seed ortholog evalue6e-47
Seed eggNOG ortholog2880.D7G4D0
Preferred nameRPB11
KEGG rclassRC02795
KEGG koko:K03008
KEGG ReactionR00435,R00441,R00442,R00443
KEGG Pathwayko00230,ko00240,ko01100,ko03020,ko05016,ko05169,map00230,map00240,map01100,map03020,map05016,map05169
KEGG ModuleM00180
GOsGO:0000428,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005665,GO:0006139,GO:0006351,GO:0006353,GO:0006366,GO:0006369,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009987,GO:0010467,GO:0016070,GO:0016591,GO:0018130,GO:0019438,GO:0030880,GO:0031974,GO:0031981,GO:0032774,GO:0032991,GO:0034641,GO:0034645,GO:0034654,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044446,GO:0044451,GO:0044464,GO:0046483,GO:0055029,GO:0061695,GO:0070013,GO:0071704,GO:0090304,GO:0097659,GO:1901360,GO:1901362,GO:1901576,GO:1902494,GO:1990234
EggNOG free text desc.RNA polymerase II activity
EggNOG OGsCOG1761@1,KOG4392@2759
COG Functional cat.K
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEbr01611,ko00000,ko00001,ko00002,ko03021,ko03400
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionDNA-directed RNA polymerase, RBP11-like dimerisation domain
Ec32 orthologEc-00_007330.1
Exons3
Model size342
Cds size342
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig129496.2156.1prot_H-elongata_contig129496.2156.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig129496 626..1472 -


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

Feature NameUnique NameSpeciesTypePosition
1622929769.546591-CDS-H-elongata_contig129496:625..7751622929769.546591-CDS-H-elongata_contig129496:625..775Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 626..775 -
1691679150.8210554-CDS-H-elongata_contig129496:625..7751691679150.8210554-CDS-H-elongata_contig129496:625..775Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 626..775 -
1622929769.5769207-CDS-H-elongata_contig129496:966..10451622929769.5769207-CDS-H-elongata_contig129496:966..1045Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 967..1045 -
1691679150.8305063-CDS-H-elongata_contig129496:966..10451691679150.8305063-CDS-H-elongata_contig129496:966..1045Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 967..1045 -
1622929769.5909948-CDS-H-elongata_contig129496:1359..14721622929769.5909948-CDS-H-elongata_contig129496:1359..1472Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 1360..1472 -
1691679150.838364-CDS-H-elongata_contig129496:1359..14721691679150.838364-CDS-H-elongata_contig129496:1359..1472Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig129496 1360..1472 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig129496.2156.1

>prot_H-elongata_contig129496.2156.1 ID=prot_H-elongata_contig129496.2156.1|Name=mRNA_H-elongata_contig129496.2156.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=114bp
RLRSCRLRLSYTPDTKVPNAGTFEVIKEDHTLGNLLRMQLLADKQVRFAG
YIQPHPLENKIHIKVQTNGDNTPVDALSAATEDLSQEIEGLREVFQEQVA
AIKLVLEEEQFGA*
back to top

mRNA from alignment at H-elongata_contig129496:626..1472-

Legend: polypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig129496.2156.1 ID=mRNA_H-elongata_contig129496.2156.1|Name=mRNA_H-elongata_contig129496.2156.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=847bp|location=Sequence derived from alignment at H-elongata_contig129496:626..1472- (Himanthalia elongata Himel1 dioecious)
CGTCTTCGCTCGTGTCGCCTCAGGCTGTCTTACACCCCGGACACAAAGGT
TCCAAACGCTGGAACGTTCGAGGTCATCAAGGAGGACCACACGCTCGGGA
ACCTCCTGCGAATGTGAGACGGCGGACGCGGCGAAGAGAAATAATCGTAC
CTACGTCTATGCCGGTATTCTGTAGATTCTGTATAATAGGAAGTTGATCG
CCCCAGGCTTCAGGCTAAGCCCGTATGACTATTAGCACAACCTTGGCTCC
GCCTGACCTGTGACGCGGTGAGGGCATCATTCTTTGCGGTTGCTTGTCGA
GTAATACTGCTGGGAGACCAACCCCTTCTTAGTCTTCAAGACACCATGGG
TTACCAACTTCGGTGGACCTTCTCCGAACGGTGCCTGTCACTGGTACTAT
ACACAACGATTTTCCGCGGACGTTCAGGCAACTTCTAGCTGACAAGCAGG
TGCGGTTCGCGGGCTATATTCAGCCACATCCCTTGGAGAACAAGATTCAC
ATCAAGGTACAGTAGATGACGTGCTTCATACGTTGATTACATCACCCATG
TGCTGTGAAAATATAGGAAGCGCATGTTGTACCGATAGCGATGCCTCCTT
GAACGAATAGACCGTAAAATAAAAGTTCGCTACAGTTTGTTTCTACCCGC
AACCGTGTCACGGGTCATTTATCTTTTGTACGCCGCTGTTACGGCAGGTC
CAGACCAACGGGGATAACACTCCGGTTGATGCCCTGTCAGCGGCGACGGA
AGACCTTTCGCAGGAGATTGAAGGGTTGCGTGAGGTGTTTCAGGAGCAGG
TGGCGGCCATAAAACTTGTTCTCGAGGAGGAACAGTTCGGTGCTTGA
back to top

Coding sequence (CDS) from alignment at H-elongata_contig129496:626..1472-

>mRNA_H-elongata_contig129496.2156.1 ID=mRNA_H-elongata_contig129496.2156.1|Name=mRNA_H-elongata_contig129496.2156.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=684bp|location=Sequence derived from alignment at H-elongata_contig129496:626..1472- (Himanthalia elongata Himel1 dioecious)
CGTCTTCGCTCGTGTCGCCTCAGGCTGTCTTACACCCCGGACACAAAGGT
TCCAAACGCTGGAACGTTCGAGGTCATCAAGGAGGACCACACGCTCGGGA
ACCTCCTGCGAATCGTCTTCGCTCGTGTCGCCTCAGGCTGTCTTACACCC
CGGACACAAAGGTTCCAAACGCTGGAACGTTCGAGGTCATCAAGGAGGAC
CACACGCTCGGGAACCTCCTGCGAATGCAACTTCTAGCTGACAAGCAGGT
GCGGTTCGCGGGCTATATTCAGCCACATCCCTTGGAGAACAAGATTCACA
TCAAGGCAACTTCTAGCTGACAAGCAGGTGCGGTTCGCGGGCTATATTCA
GCCACATCCCTTGGAGAACAAGATTCACATCAAGGTCCAGACCAACGGGG
ATAACACTCCGGTTGATGCCCTGTCAGCGGCGACGGAAGACCTTTCGCAG
GAGATTGAAGGGTTGCGTGAGGTGTTTCAGGAGCAGGTGGCGGCCATAAA
ACTTGTTCTCGAGGAGGAACAGTTCGGTGCTTGAGTCCAGACCAACGGGG
ATAACACTCCGGTTGATGCCCTGTCAGCGGCGACGGAAGACCTTTCGCAG
GAGATTGAAGGGTTGCGTGAGGTGTTTCAGGAGCAGGTGGCGGCCATAAA
ACTTGTTCTCGAGGAGGAACAGTTCGGTGCTTGA
back to top