mRNA_H-elongata_contig169982.4338.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig169982.4338.1
Unique NamemRNA_H-elongata_contig169982.4338.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig169982.4338.1 vs. uniprot
Match: D7FPF8_ECTSI (DNA-directed RNA polymerases I and III subunit RPAC1 n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FPF8_ECTSI)

HSP 1 Score: 66.2 bits (160), Expect = 3.030e-8
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 
Query:  319 PQELLKDSIQVLRQKCDSMLAEVEAFESGVDLDMAM 426
            P+ELLKDSIQVLRQKCDSM+AEVEAFESGVD D AM
Sbjct:  325 PKELLKDSIQVLRQKCDSMIAEVEAFESGVDFDEAM 360
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BLAST of mRNA_H-elongata_contig169982.4338.1 vs. uniprot
Match: A0A6H5JLW5_9PHAE (DNA-directed RNA polymerases I and III subunit RPAC1 n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5JLW5_9PHAE)

HSP 1 Score: 65.9 bits (159), Expect = 4.080e-8
Identity = 31/36 (86.11%), Postives = 34/36 (94.44%), Query Frame = 1 
Query:  319 PQELLKDSIQVLRQKCDSMLAEVEAFESGVDLDMAM 426
            P+ELLKDSIQVLRQKCDSM+AEVEAFESG+D D AM
Sbjct:  327 PKELLKDSIQVLRQKCDSMIAEVEAFESGIDFDEAM 362
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig169982.4338.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 2
Match NameE-valueIdentityDescription
D7FPF8_ECTSI3.030e-888.89DNA-directed RNA polymerases I and III subunit RPA... [more]
A0A6H5JLW5_9PHAE4.080e-886.11DNA-directed RNA polymerases I and III subunit RPA... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig169982contigH-elongata_contig169982:10..1295 +
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 score66.2
Seed ortholog evalue5.1e-09
Seed eggNOG ortholog2880.D7FPF8
Preferred namePOLR1C
KEGG rclassRC00055,RC00523,RC02795
KEGG koko:K03027,ko:K08059,ko:K13196,ko:K14163,ko:K18715
KEGG TC1.I.1
KEGG ReactionR00435,R00441,R00442,R00443,R03661,R05578
KEGG Pathwayko00230,ko00240,ko00860,ko00970,ko01100,ko01110,ko01120,ko03020,ko04612,ko04623,ko05169,map00230,map00240,map00860,map00970,map01100,map01110,map01120,map03020,map04612,map04623,map05169
KEGG ModuleM00121,M00181,M00182,M00359
GOsGO:0000428,GO:0003674,GO:0003824,GO:0003899,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005666,GO:0005730,GO:0005736,GO:0005737,GO:0005829,GO:0006139,GO:0006259,GO:0006351,GO:0006352,GO:0006353,GO:0006360,GO:0006361,GO:0006363,GO:0006383,GO:0006399,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009304,GO:0009893,GO:0009987,GO:0010467,GO:0010468,GO:0010604,GO:0010628,GO:0015074,GO:0016070,GO:0016740,GO:0016772,GO:0016779,GO:0018130,GO:0019222,GO:0019438,GO:0030880,GO:0031974,GO:0031981,GO:0032196,GO:0032774,GO:0032991,GO:0034062,GO:0034641,GO:0034645,GO:0034654,GO:0034660,GO:0040029,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:0044452,GO:0044464,GO:0045815,GO:0046483,GO:0048518,GO:0050789,GO:0055029,GO:0060255,GO:0061695,GO:0065007,GO:0070013,GO:0070893,GO:0071704,GO:0090304,GO:0097659,GO:0097747,GO:0098781,GO:0140098,GO:1901360,GO:1901362,GO:1901576,GO:1902494,GO:1990234
EggNOG free text desc.transcription by RNA polymerase I
EggNOG OGsCOG0202@1,KOG1521@2759
EC6.1.1.15,6.1.1.17
COG Functional cat.K
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEbr01611,ko00000,ko00001,ko00002,ko01000,ko03016,ko03019,ko03021,ko03041
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size1286
Cds size159
Stop1
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig169982.4338.1prot_H-elongata_contig169982.4338.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig169982 283..441 +


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

Feature NameUnique NameSpeciesTypePosition
1622929991.3496826-UTR-H-elongata_contig169982:9..2821622929991.3496826-UTR-H-elongata_contig169982:9..282Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig169982 10..282 +
1691679237.5119991-UTR-H-elongata_contig169982:9..2821691679237.5119991-UTR-H-elongata_contig169982:9..282Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig169982 10..282 +
1622929991.375635-UTR-H-elongata_contig169982:441..12951622929991.375635-UTR-H-elongata_contig169982:441..1295Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig169982 442..1295 +
1691679237.5310779-UTR-H-elongata_contig169982:441..12951691679237.5310779-UTR-H-elongata_contig169982:441..1295Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig169982 442..1295 +


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

Feature NameUnique NameSpeciesTypePosition
1622929991.36317-CDS-H-elongata_contig169982:282..4411622929991.36317-CDS-H-elongata_contig169982:282..441Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig169982 283..441 +
1691679237.523235-CDS-H-elongata_contig169982:282..4411691679237.523235-CDS-H-elongata_contig169982:282..441Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig169982 283..441 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig169982.4338.1

>prot_H-elongata_contig169982.4338.1 ID=prot_H-elongata_contig169982.4338.1|Name=mRNA_H-elongata_contig169982.4338.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=53bp
MFTCCPEMPLRPTPHPQELLKDSIQVLRQKCDSMLAEVEAFESGVDLDMA
MS*
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mRNA from alignment at H-elongata_contig169982:10..1295+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig169982.4338.1 ID=mRNA_H-elongata_contig169982.4338.1|Name=mRNA_H-elongata_contig169982.4338.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=1286bp|location=Sequence derived from alignment at H-elongata_contig169982:10..1295+ (Himanthalia elongata Himel1 dioecious)
AGAAAGGCAGGTCATCAACGCACAAGGGGGGTAATGTAAAAAGACAGCTA
CACAAAGACAAGAAGTAGAGGAGGGGTGGAGAAGTCACCAAAGGATTGCT
GAACGAAGTCGTAGTCGAACTCAAATCACCATCACATCACCTGTTGATTT
ACTGCATTATTGTATGCGCGTTTTATTGGCCGATCCACATGGTGTGTTAC
CCTCGTCGCTTGTTGATTCCGCAATTGATGGGGTAATATATGACGGGCGC
GCGGTTATCTCCGAACCTAATTGATGTTCACGTGCTGCCCGGAAATGCCT
CTGCGCCCTACCCCCCACCCGCAGGAGCTTCTGAAGGACAGCATCCAAGT
ATTAAGGCAAAAGTGTGACTCTATGCTGGCGGAGGTGGAGGCGTTCGAAT
CAGGGGTAGACTTGGACATGGCGATGTCATGACCTAATGTTAGATTTTTA
TTTATAAAAATCTTTGATTTTGCTGTATAATGCGAGGGAACAGGATTAGG
GGTGATCACCAGAGCTCTTAGTGTCGATACAATCGCTGCCGCGTTGGTCT
CTCTCATCCATGTGCAGTAAGCAGTCGGTATTTTTATTTTATTTTCATTA
AAAAAAAAAAATCAATTCTGCGAATTCTCTTAGTGTCGATACAATCGCTC
CTGCGTTGATCTCTCTCATCCATGTGCAGTAAGCAGTTGGTAATTTTATT
TTATTTTCATTTTAAAAAAATCATCCAATTCTGCGAATTCGTGATATAGC
TCTATAATAGTGGTGAGAGCTTCTCAGGGAAACCCTCATATTTGATTCGT
GTATTTTATTTTTATTTAAAAGACACTATTAATATTAATATTAGTCTAAT
AGTGAAACTGAAGAAACACGAAAATGAATCCTCTCCGCACGTTCCACCCA
ATCATCTCGTCAACCACTAAAATGGCTGGCGGTTTGTGGCCCTGGCCAGA
CCTTATGAAGGGAGCAGCGCTCCTTCGGCTTGCCGGTAATTAGACGAACG
GATCAAACCACGTACAGTAGTTGGGGCTATTCTTCAAAAAACATATGAAC
TCATTCCAATCCTCCGAACACCCACGCCTTGTTAGCACCCTGAGAGGTGC
AGTCCAGAGGGCAAACTACCGCCAGGTTCAAATGTGGACATTACTCCCTT
TAAGCACAAAATGGTCACATGTGATGAATCGTGTTCCCCAATATTAATAG
TATAATGTGCATTGAGGCTGCTGTGATGAAGCGCATCCTCCACTACGCCG
GCCGCGTCGCGCGCATGCACGACGATCGTCTTCCCA
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Coding sequence (CDS) from alignment at H-elongata_contig169982:10..1295+

>mRNA_H-elongata_contig169982.4338.1 ID=mRNA_H-elongata_contig169982.4338.1|Name=mRNA_H-elongata_contig169982.4338.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=318bp|location=Sequence derived from alignment at H-elongata_contig169982:10..1295+ (Himanthalia elongata Himel1 dioecious)
ATGTTCACGTGCTGCCCGGAAATGCCTCTGCGCCCTACCCCCCACCCGCA
GGAGCTTCTGAAGGACAGCATCCAAGTATTAAGGCAAAAGTGTGACTCTA
TGCTGGCGGAGGTGGAGGCGTTCGAATCAGGGGTAGACTTGGACATGGCG
ATGTCATGAATGTTCACGTGCTGCCCGGAAATGCCTCTGCGCCCTACCCC
CCACCCGCAGGAGCTTCTGAAGGACAGCATCCAAGTATTAAGGCAAAAGT
GTGACTCTATGCTGGCGGAGGTGGAGGCGTTCGAATCAGGGGTAGACTTG
GACATGGCGATGTCATGA
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