mRNA_H-elongata_contig55734.13001.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig55734.13001.1
Unique NamemRNA_H-elongata_contig55734.13001.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A6H5KI81_9PHAE (DNA-directed RNA polymerase subunit n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5KI81_9PHAE)

HSP 1 Score: 175 bits (443), Expect = 1.800e-48
Identity = 82/112 (73.21%), Postives = 96/112 (85.71%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEILKHLGNA 345
            CICKTCSRVLLH++SRVK+L+++RNP+GMGALERG LHKKIV ECKK+ +CFHESCY +NG VKK++GSQTLKLVHDRY+GKPP  VLQEL  +M  AA  N EI KHLG A
Sbjct:  151 CICKTCSRVLLHDASRVKYLKRMRNPRGMGALERGNLHKKIVTECKKSTSCFHESCYAVNGTVKKVTGSQTLKLVHDRYKGKPPGNVLQELTADMKVAAQANREIPKHLGMA 262
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: D7FU80_ECTSI (DNA-directed RNA polymerase subunit n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FU80_ECTSI)

HSP 1 Score: 173 bits (439), Expect = 6.390e-48
Identity = 81/112 (72.32%), Postives = 96/112 (85.71%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEILKHLGNA 345
            CICKTCSRVLLH++SRVK+L+++RNP+GMGALERG LHKKIV ECKK+ +CFHESCY +NG VKK++GSQTLKLVHDR++GKPP  VLQEL  +M  AA  N EI KHLG A
Sbjct:  153 CICKTCSRVLLHDASRVKYLKRMRNPRGMGALERGNLHKKIVTECKKSTSCFHESCYAVNGTVKKVTGSQTLKLVHDRFKGKPPGNVLQELTADMKVAAQANREIPKHLGMA 264
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: B7G2E6_PHATC (DNA-directed RNA polymerase subunit n=5 Tax=Phaeodactylum tricornutum TaxID=2850 RepID=B7G2E6_PHATC)

HSP 1 Score: 96.7 bits (239), Expect = 5.880e-21
Identity = 50/105 (47.62%), Postives = 69/105 (65.71%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEI 324
            C+CKTCSRVL+ ES R KHL ++R+PK   AL +  L KK+V +CKK   C H  C G NG VKKI+G  TLK+VH+RY+G+  ++ L EL   +  +   N ++
Sbjct:   63 CVCKTCSRVLMPESDRQKHLSRMRSPK-TDALSKAALFKKVVEKCKKVRVCPH--CGGHNGTVKKITGVPTLKIVHERYKGRNAEDELDELIANLEVSLKMNKDV 164
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A7S2BSJ8_9STRA (DNA-directed RNA polymerase subunit (Fragment) n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2BSJ8_9STRA)

HSP 1 Score: 95.5 bits (236), Expect = 1.420e-20
Identity = 50/112 (44.64%), Postives = 68/112 (60.71%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEILKHLGNA 345
            CICK CS +LL  + R K L ++R P  + AL +  + KKI+ +CKKA++C    C   NG VKKISG QTLKL H+RY+GK            +T A + NPE+ +H+G A
Sbjct:  113 CICKRCSSILLSAADRTKFLNRMRRPM-LDALTKAAIWKKIIIQCKKAHSC--PRCLAFNGTVKKISGVQTLKLTHERYKGKLAAHGAAAFQSNLTNAVNFNPEVKQHMGKA 221
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A7S4NGV3_9STRA (DNA-directed RNA polymerase subunit n=1 Tax=Odontella aurita TaxID=265563 RepID=A0A7S4NGV3_9STRA)

HSP 1 Score: 89.4 bits (220), Expect = 2.170e-18
Identity = 46/107 (42.99%), Postives = 68/107 (63.55%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEILK 330
            CICKTCSRVLL ++ R   LR++RNP+    L +    KK++ +CKKA  C H  C+  NG VKKISG  TLK++H+RY+G+  ++ + +L   +  A   N E ++
Sbjct:  130 CICKTCSRVLLPDADRHSVLRRMRNPR-TDVLAKAASFKKVIDKCKKARACPH--CHASNGTVKKISGVPTLKIIHERYKGRHMEDEIDDLVHSLQNAMVSNGENIR 233
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A7S2Q4C6_9STRA (DNA-directed RNA polymerase subunit (Fragment) n=3 Tax=Skeletonema marinoi TaxID=267567 RepID=A0A7S2Q4C6_9STRA)

HSP 1 Score: 87.0 bits (214), Expect = 1.310e-17
Identity = 47/105 (44.76%), Postives = 69/105 (65.71%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEI 324
            CICK+CSRVL+ E  R + L+K+RN +   AL +  + KK++ +CKK  TC +  C   NG VKK+ G+ TLK+VH++Y+G+  +  L+EL E +  A   NPEI
Sbjct:  124 CICKSCSRVLMTEYDRKQTLKKMRNTR-TDALGKASIFKKVIEKCKKMRTCPY--CNKPNGTVKKVHGAPTLKIVHEKYKGRHMEGDLEELIESLQGAMQINPEI 225
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A836CEF0_9STRA (DNA-directed RNA polymerase subunit n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CEF0_9STRA)

HSP 1 Score: 86.7 bits (213), Expect = 1.910e-17
Identity = 41/95 (43.16%), Postives = 64/95 (67.37%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEM 294
            CICKTC  VLL + +++  LRKIR+P+ + AL R  + KK+V +CKKA  C + +C   NG VKK+ G+ +LKL+H++Y+G+     ++E   +M
Sbjct:  123 CICKTCGNVLLDQKTKLDMLRKIRSPR-LDALGRAAVFKKVVTKCKKAVKCTNPACGAYNGTVKKVIGAASLKLIHEKYKGRHADGTMEEFRADM 216
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A7S1ZKV2_9STRA (DNA-directed RNA polymerase subunit n=5 Tax=Ditylum brightwellii TaxID=49249 RepID=A0A7S1ZKV2_9STRA)

HSP 1 Score: 85.1 bits (209), Expect = 6.610e-17
Identity = 44/105 (41.90%), Postives = 66/105 (62.86%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEI 324
            CICKTCSRVLL +  R  +L+++R+P+    L +    KK++ +CKK+  C H  C+  NG VKKI+G+ TLK+VH+RY+G+  +E    L   +  +   N EI
Sbjct:  122 CICKTCSRVLLSDVDRFTYLKRMRSPR-TDVLAKAATFKKVIDKCKKSKACPH--CHEANGTVKKITGAPTLKIVHERYKGRHMEEEFNNLTISLQNSMRKNNEI 223
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: A0A448Z7A2_9STRA (DNA-directed RNA polymerase subunit n=1 Tax=Pseudo-nitzschia multistriata TaxID=183589 RepID=A0A448Z7A2_9STRA)

HSP 1 Score: 84.7 bits (208), Expect = 9.010e-17
Identity = 41/106 (38.68%), Postives = 70/106 (66.04%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEIL 327
            C+CK CSR+LL  S R ++L K+RNPK    L +    KK++ +CKK+  C +  C  +NG VKKI+G+ TLK+VH++++G+  ++ L +L + ++ A   N +++
Sbjct:  126 CVCKNCSRILLDNSEREQYLAKMRNPK-TDVLAKTATLKKVIEKCKKSKQCPY--CGAVNGTVKKITGAPTLKIVHEKFKGRHSEDELDQLMDNLSMAMDHNKDLI 228
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BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Match: B8C4M1_THAPS (DNA-directed RNA polymerase subunit n=1 Tax=Thalassiosira pseudonana TaxID=35128 RepID=B8C4M1_THAPS)

HSP 1 Score: 83.6 bits (205), Expect = 2.290e-16
Identity = 43/105 (40.95%), Postives = 71/105 (67.62%), Query Frame = 1 
Query:   10 CICKTCSRVLLHESSRVKHLRKIRNPKGMGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDRYRGKPPKEVLQELAEEMTTAASGNPEI 324
            CICK+CSRVLL ++ R   L+K+RNP+    L +  + KK++ +CKKA+ C +  C+  NG VKK+ G+ TLK++H+RY+G+  ++ +++L + +  A   N EI
Sbjct:  129 CICKSCSRVLLTDAERKMLLKKMRNPR-TDVLGKASVFKKVLDKCKKAHQCPY--CHKPNGTVKKVHGAPTLKIIHERYKGRHMEDEVEDLLQSLQGAMITNLEI 230
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig55734.13001.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A6H5KI81_9PHAE1.800e-4873.21DNA-directed RNA polymerase subunit n=1 Tax=Ectoca... [more]
D7FU80_ECTSI6.390e-4872.32DNA-directed RNA polymerase subunit n=1 Tax=Ectoca... [more]
B7G2E6_PHATC5.880e-2147.62DNA-directed RNA polymerase subunit n=5 Tax=Phaeod... [more]
A0A7S2BSJ8_9STRA1.420e-2044.64DNA-directed RNA polymerase subunit (Fragment) n=1... [more]
A0A7S4NGV3_9STRA2.170e-1842.99DNA-directed RNA polymerase subunit n=1 Tax=Odonte... [more]
A0A7S2Q4C6_9STRA1.310e-1744.76DNA-directed RNA polymerase subunit (Fragment) n=3... [more]
A0A836CEF0_9STRA1.910e-1743.16DNA-directed RNA polymerase subunit n=1 Tax=Tribon... [more]
A0A7S1ZKV2_9STRA6.610e-1741.90DNA-directed RNA polymerase subunit n=5 Tax=Ditylu... [more]
A0A448Z7A2_9STRA9.010e-1738.68DNA-directed RNA polymerase subunit n=1 Tax=Pseudo... [more]
B8C4M1_THAPS2.290e-1640.95DNA-directed RNA polymerase subunit n=1 Tax=Thalas... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig55734contigH-elongata_contig55734:1600..2412 -
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 score129.8
Seed ortholog evalue6e-28
Seed eggNOG ortholog2880.D7FU80
Preferred namePOLR3A
KEGG rclassRC02795
KEGG koko:K03018,ko:K21594
KEGG ReactionR00435,R00441,R00442,R00443
KEGG Pathwayko00230,ko00240,ko01100,ko03020,ko04623,ko05169,map00230,map00240,map01100,map03020,map04623,map05169
KEGG ModuleM00181
GOsGO:0000428,GO:0000731,GO:0001817,GO:0001819,GO:0002376,GO:0003674,GO:0003676,GO:0003677,GO:0003824,GO:0003899,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005665,GO:0005666,GO:0005737,GO:0005829,GO:0006139,GO:0006259,GO:0006281,GO:0006301,GO:0006351,GO:0006366,GO:0006383,GO:0006399,GO:0006725,GO:0006807,GO:0006950,GO:0006952,GO:0006955,GO:0006974,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009304,GO:0009987,GO:0010467,GO:0010494,GO:0016070,GO:0016591,GO:0016740,GO:0016772,GO:0016779,GO:0018130,GO:0019438,GO:0019985,GO:0030880,GO:0031974,GO:0031981,GO:0032479,GO:0032481,GO:0032648,GO:0032728,GO:0032774,GO:0032991,GO:0033554,GO:0034062,GO:0034641,GO:0034645,GO:0034654,GO:0034660,GO:0035770,GO:0036464,GO:0042797,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044451,GO:0044464,GO:0045087,GO:0046483,GO:0048518,GO:0050789,GO:0050896,GO:0051239,GO:0051240,GO:0051716,GO:0055029,GO:0061695,GO:0065007,GO:0070013,GO:0071704,GO:0071897,GO:0090304,GO:0097159,GO:0097659,GO:0097747,GO:0098781,GO:0140098,GO:1901360,GO:1901362,GO:1901363,GO:1901576,GO:1902494,GO:1990234,GO:1990904
EggNOG free text desc.DNA-directed 5'-3' RNA polymerase activity
EggNOG OGsCOG0086@1,KOG0261@2759
EC2.7.7.6
COG Functional cat.K
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEbr01611,ko00000,ko00001,ko00002,ko01000,ko03021,ko03029
Hectar predicted targeting categoryother localisation
Exons2
Model size345
Cds size252
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig55734.13001.1prot_H-elongata_contig55734.13001.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig55734 1600..2319 -


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

Feature NameUnique NameSpeciesTypePosition
1622930908.416091-CDS-H-elongata_contig55734:1599..17401622930908.416091-CDS-H-elongata_contig55734:1599..1740Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55734 1600..1740 -
1691679620.222566-CDS-H-elongata_contig55734:1599..17401691679620.222566-CDS-H-elongata_contig55734:1599..1740Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55734 1600..1740 -
1622930908.432631-CDS-H-elongata_contig55734:2208..23191622930908.432631-CDS-H-elongata_contig55734:2208..2319Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55734 2209..2319 -
1691679620.236932-CDS-H-elongata_contig55734:2208..23191691679620.236932-CDS-H-elongata_contig55734:2208..2319Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55734 2209..2319 -


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

Feature NameUnique NameSpeciesTypePosition
1622930908.4498005-UTR-H-elongata_contig55734:2319..24121622930908.4498005-UTR-H-elongata_contig55734:2319..2412Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig55734 2320..2412 -
1691679620.2447512-UTR-H-elongata_contig55734:2319..24121691679620.2447512-UTR-H-elongata_contig55734:2319..2412Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig55734 2320..2412 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig55734.13001.1

>prot_H-elongata_contig55734.13001.1 ID=prot_H-elongata_contig55734.13001.1|Name=mRNA_H-elongata_contig55734.13001.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=84bp
MGALERGKLHKKIVAECKKANTCFHESCYGLNGAVKKISGSQTLKLVHDR
YRGKPPKEVLQELAEEMTTAASGNPEILKHLGNA
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mRNA from alignment at H-elongata_contig55734:1600..2412-

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig55734.13001.1 ID=mRNA_H-elongata_contig55734.13001.1|Name=mRNA_H-elongata_contig55734.13001.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=813bp|location=Sequence derived from alignment at H-elongata_contig55734:1600..2412- (Himanthalia elongata Himel1 dioecious)
ATATTCTAGTGCATCTGCAAGACGTGTAGCCGAGTGCTGCTTCACGAATC
GTCCCGCGTCAAGCATCTCCGAAAAATTCGCAACCCAAAGGGCATGGGGG
CTCTGGAGAGGGGCAAGCTTCACAAGAAGATCGTCGCAGAGTGCAAGAAA
GCCAACACCTGCTTTCACGAGTCGTGCTACGGTCTCAACGGCGCAGTTAA
AAAGGTACTTTTAGTACTAATGCTATATATTAAGAGTAAGTCGGTCTCAA
CGGCGCTGTTAAAAAGGTACTTTTAGTACTAATGCTATATATTAAGAATA
AGTCGTGCTACGGCCTCAACGGCGCGGTTAAAAATGTACGATTACTACAT
GTCAGATTAGAATAAAGAAATTAAAACGTCTGCTTTAGTGAAATATAATG
TACAAAAGTGCTGCTTGATATGATAATATAGGATATAATAATAATAAGAG
CATTGTATAGGATATGATATGATAGAATAATAATAATAGAATATTATAGA
ATATTAAGACGGGATGGGAAAAACGTTTTTGCGCCACGTTTGGCAAAATA
AGAAGGAACAATGTTCCGTCCTCCCGAGGACATACGCGTCATCAATGGTT
AATAAGTCAATGGTTAATGGTGTAACAGGTATGGTATGCAAGACATGAGT
ACCCCTTCCCCCTTCTTCGCAGATATCCGGGTCGCAGACGCTCAAGCTAG
TGCACGACCGTTACAGGGGCAAGCCGCCCAAAGAGGTGCTACAGGAGCTG
GCGGAGGAAATGACCACCGCCGCGAGTGGAAACCCCGAGATCCTGAAACA
CCTCGGGAATGCC
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Coding sequence (CDS) from alignment at H-elongata_contig55734:1600..2412-

>mRNA_H-elongata_contig55734.13001.1 ID=mRNA_H-elongata_contig55734.13001.1|Name=mRNA_H-elongata_contig55734.13001.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=504bp|location=Sequence derived from alignment at H-elongata_contig55734:1600..2412- (Himanthalia elongata Himel1 dioecious)
ATGGGGGCTCTGGAGAGGGGCAAGCTTCACAAGAAGATCGTCGCAGAGTG
CAAGAAAGCCAACACCTGCTTTCACGAGTCGTGCTACGGTCTCAACGGCG
CAGTTAAAAAGATGGGGGCTCTGGAGAGGGGCAAGCTTCACAAGAAGATC
GTCGCAGAGTGCAAGAAAGCCAACACCTGCTTTCACGAGTCGTGCTACGG
TCTCAACGGCGCAGTTAAAAAGATATCCGGGTCGCAGACGCTCAAGCTAG
TGCACGACCGTTACAGGGGCAAGCCGCCCAAAGAGGTGCTACAGGAGCTG
GCGGAGGAAATGACCACCGCCGCGAGTGGAAACCCCGAGATCCTGAAACA
CCTCGGGAATGCCATATCCGGGTCGCAGACGCTCAAGCTAGTGCACGACC
GTTACAGGGGCAAGCCGCCCAAAGAGGTGCTACAGGAGCTGGCGGAGGAA
ATGACCACCGCCGCGAGTGGAAACCCCGAGATCCTGAAACACCTCGGGAA
TGCC
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