mRNA_H-elongata_contig89764.16473.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview


Name	mRNA_H-elongata_contig89764.16473.1
Unique Name	mRNA_H-elongata_contig89764.16473.1
Type	mRNA
Organism	Himanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)

Homology

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BLAST of mRNA_H-elongata_contig89764.16473.1 vs. uniprot
Match: D8LFT0_ECTSI (TFIIH subunit (Partial) (Fragment) n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D8LFT0_ECTSI)

HSP 1 Score: 172 bits (436), Expect = 3.660e-47
Identity = 82/110 (74.55%), Postives = 96/110 (87.27%), Query Frame = 1

Query:  175 GPALGAGEKVLVTADVVHKKVAGTVWFTSRRMLWRASDGKASVQRVDVPWAALKSFQCSPASEARAMIRLLRVTVGDPPVIFRFLGSSADTPREVLERAQTAIRKAMKGD 504
            GP+LGAGE+V++TA  VHKK  GTVWFTSRR LW+A+DGKA+VQRV+V WAA+KSFQCSPASEARAM+RLLRVT G PP+IFRF  +   TPREVLERAQ A+RKA+KGD
Sbjct:    5 GPSLGAGEEVVMTAHAVHKKTPGTVWFTSRRALWKAADGKAAVQRVEVAWAAVKSFQCSPASEARAMMRLLRVTEGQPPIIFRFTETPGGTPREVLERAQAAVRKALKGD 114

[Close]

BLAST of mRNA_H-elongata_contig89764.16473.1 vs. uniprot
Match: A0A6H5JXC6_9PHAE (BSD domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5JXC6_9PHAE)

HSP 1 Score: 66.2 bits (160), Expect = 1.410e-9
Identity = 31/44 (70.45%), Postives = 36/44 (81.82%), Query Frame = 1

Query:  373 MIRLLRVTVGDPPVIFRFLGSSADTPREVLERAQTAIRKAMKGD 504
            M+RLLRVT G PP+IFRF  +   TPREVLERAQ A+RKA+KGD
Sbjct:    1 MMRLLRVTEGQPPIIFRFTETPGGTPREVLERAQAAVRKALKGD 44

The following BLAST results are available for this feature:

BLAST of mRNA_H-elongata_contig89764.16473.1 vs. uniprot

BLAST of mRNA_H-elongata_contig89764.16473.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 2


Match Name	E-value	Identity	Description
D8LFT0_ECTSI	3.660e-47	74.55	TFIIH subunit (Partial) (Fragment) n=1 Tax=Ectocar...	[more]
A0A6H5JXC6_9PHAE	1.410e-9	70.45	BSD domain-containing protein n=1 Tax=Ectocarpus s...	[more]

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
H-elongata_contig89764	contig	H-elongata_contig89764:1178..2494 +

Analyses

This mRNA is derived from or has results from the following analyses


Analysis Name	Date Performed
Diamond blastx: OGS1.0 vs UniRef90	2022-09-19
OGS1.0 of Himanthalia elongata Himel1 dioecious	2021-02-24

Properties


Property Name	Value
Taxonomic scope	Eukaryota
Seed ortholog score	174.5
Seed ortholog evalue	4.3e-41
Seed eggNOG ortholog	2880.D8LFT0
KEGG ko	ko:K03141
KEGG Pathway	ko03022,ko03420,ko05203,map03022,map03420,map05203
KEGG Module	M00290
GOs	GO:0000428,GO:0000439,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005667,GO:0005675,GO:0006139,GO:0006259,GO:0006281,GO:0006351,GO:0006355,GO:0006357,GO:0006360,GO:0006366,GO:0006464,GO:0006468,GO:0006725,GO:0006793,GO:0006796,GO:0006807,GO:0006950,GO:0006974,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009889,GO:0009987,GO:0010467,GO:0010468,GO:0010556,GO:0016070,GO:0016310,GO:0016591,GO:0018130,GO:0019219,GO:0019222,GO:0019438,GO:0019538,GO:0030880,GO:0031323,GO:0031326,GO:0031974,GO:0031981,GO:0032774,GO:0032806,GO:0032991,GO:0033554,GO:0034641,GO:0034645,GO:0034654,GO:0036211,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043412,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044446,GO:0044451,GO:0044464,GO:0044798,GO:0046483,GO:0050789,GO:0050794,GO:0050896,GO:0051171,GO:0051252,GO:0051716,GO:0055029,GO:0060255,GO:0061695,GO:0065007,GO:0070013,GO:0070816,GO:0071704,GO:0080090,GO:0090304,GO:0090575,GO:0097659,GO:1901360,GO:1901362,GO:1901564,GO:1901576,GO:1902494,GO:1902554,GO:1902911,GO:1903506,GO:1990234,GO:2000112,GO:2001141
EggNOG free text desc.	phosphorylation of RNA polymerase II C-terminal domain
EggNOG OGs	KOG2074@1,KOG2074@2759
COG Functional cat.	K
Best tax level	Eukaryota
Best eggNOG OG	NA\|NA\|NA
BRITE	ko00000,ko00001,ko00002,ko03021,ko03400
Hectar predicted targeting category	other localisation
Exons	2
Model size	511
Cds size	510
Stop	0
Start	0

Relationships

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


Feature Name	Unique Name	Species	Type	Position
1622931298.019852-CDS-H-elongata_contig89764:1177..1522	1622931298.019852-CDS-H-elongata_contig89764:1177..1522	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig89764 1178..1522 +
1691679778.6799397-CDS-H-elongata_contig89764:1177..1522	1691679778.6799397-CDS-H-elongata_contig89764:1177..1522	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig89764 1178..1522 +
1622931298.0551023-CDS-H-elongata_contig89764:2329..2494	1622931298.0551023-CDS-H-elongata_contig89764:2329..2494	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig89764 2330..2494 +
1691679778.6940327-CDS-H-elongata_contig89764:2329..2494	1691679778.6940327-CDS-H-elongata_contig89764:2329..2494	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig89764 2330..2494 +

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


Feature Name	Unique Name	Species	Type	Position
mRNA_H-elongata_contig89764.16473.1	prot_H-elongata_contig89764.16473.1	Himanthalia elongata Himel1 dioecious	polypeptide	H-elongata_contig89764 1178..2494 +

Sequences

The following sequences are available for this feature:

protein sequence
mRNA from alignment at H-elongata_contig89764:1178..2494+
coding sequence from alignment at H-elongata_contig89764:1178..2494+

protein sequence of mRNA_H-elongata_contig89764.16473.1

>prot_H-elongata_contig89764.16473.1 ID=prot_H-elongata_contig89764.16473.1|Name=mRNA_H-elongata_contig89764.16473.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=170bp
ADLLLDQRWFELIWLLRSEQSFKLPSKFELIRKSRSISDISRPPFGFSLQ
RTAMAGMAGPALGAGEKVLVTADVVHKKVAGTVWFTSRRMLWRASDGKAS
VQRVDVPWAALKSFQCSPASEARAMIRLLRVTVGDPPVIFRFLGSSADTP
REVLERAQTAIRKAMKGDLE

mRNA from alignment at H-elongata_contig89764:1178..2494+

Legend: CDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

>mRNA_H-elongata_contig89764.16473.1 ID=mRNA_H-elongata_contig89764.16473.1|Name=mRNA_H-elongata_contig89764.16473.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=1317bp|location=Sequence derived from alignment at H-elongata_contig89764:1178..2494+ (Himanthalia elongata Himel1 dioecious)
GCGGATCTGCTCCTAGACCAGAGATGGTTTGAACTGATTTGGCTGTTACG
CTCTGAGCAGTCATTCAAGCTACCTTCGAAATTTGAACTAATCAGGAAAT
CAAGGAGCATCAGTGATATATCTCGACCTCCCTTTGGCTTTTCGCTTCAG
AGGACAGCCATGGCGGGCATGGCAGGGCCGGCTCTGGGTGCTGGGGAGAA
GGTGTTGGTGACGGCCGATGTCGTACATAAGAAAGTCGCGGGAACTGTAT
GGTTCACGTCCCGACGGATGCTGTGGAGAGCGTCTGATGGCAAGGCTTCC
GTGCAGCGAGTGGATGTGCCCTGGGCCGCGTTAAAGAGCTTCCAGGTGAG
CTGCAGGTGTAGCTTCTAAAGGAGCGTGCGCGCCACTACAACTTAGCTCT
GAGTGACGGTACCGTAAGTTTGGTCTTTGATCAACATTGAATGTGCGTGG
TATCTTGTGCAACTCAAAAATCTGACGCTCGGATATTGACTCCCTCACAA
CCACCCTGAAGTGACCCTCTCGCCACTTTCATACAGTAGTTGAACAGTCC
GACGCTTAGAGTATGGCTCCCAAAGACTCTCTTCTAACTACTAAATATAG
CTTCCAACAGCCAAAACACCTGGCGTCGAGCACGGGCACCGGATTATCAA
AGCCTGAGTTGCAGCCGAGTGACACGCACTCGGTCGACGCAGATGTTGGG
CCTGCTGCATAAGACCCCGGGACTAAGCTTTTTTCAAATTGACCTGTATG
TCGAGTAATGGATGTTCGGAGGGTTGGAATGAGTTTAAGGTTTTCCTAAT
AAAAATACATGTGGTCATTGTGGAGACGACCCGAACGGAATCGGTGCTGT
TTCAAATCCGTACCCACTTCCCGCTGACGTTCTATCTTCGGTTGCACTGT
GCTCGGAAACGCCATCGGCATGAGTGGATACAACCTGTAGAAGGATAAAT
AATGTCGCTGCTTCTTAGCTGCTACTGGCTTCATGCGGCGACTCTACACC
GAACATTCGCCCGTTCGTCAAACATTATTCCATCTACATTATGAAGCTTT
CTCTTGAGGGCGTTTTTTATTCTTGTCCCCTTTCACTTCGCTGATAGACC
GCGTCACCCCCCGCCTTTGCGTACCGTGTTTCGAAAACATTGATTATTGC
AGTGTTCCCCGGCGAGTGAAGCCCGGGCCATGATCCGCCTCCTGAGAGTG
ACTGTGGGAGACCCCCCCGTCATATTTCGCTTCTTAGGATCATCCGCAGA
CACGCCGCGAGAGGTGTTGGAGAGGGCGCAGACGGCGATCAGGAAAGCGA
TGAAGGGGGATCTGGAG

Coding sequence (CDS) from alignment at H-elongata_contig89764:1178..2494+

>mRNA_H-elongata_contig89764.16473.1 ID=mRNA_H-elongata_contig89764.16473.1|Name=mRNA_H-elongata_contig89764.16473.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=1020bp|location=Sequence derived from alignment at H-elongata_contig89764:1178..2494+ (Himanthalia elongata Himel1 dioecious)
GCGGATCTGCTCCTAGACCAGAGATGGTTTGAACTGATTTGGCTGTTACG
CTCTGAGCAGTCATTCAAGCTACCTTCGAAATTTGAACTAATCAGGAAAT
CAAGGAGCATCAGTGATATATCTCGACCTCCCTTTGGCTTTTCGCTTCAG
AGGACAGCCATGGCGGGCATGGCAGGGCCGGCTCTGGGTGCTGGGGAGAA
GGTGTTGGTGACGGCCGATGTCGTACATAAGAAAGTCGCGGGAACTGTAT
GGTTCACGTCCCGACGGATGCTGTGGAGAGCGTCTGATGGCAAGGCTTCC
GTGCAGCGAGTGGATGTGCCCTGGGCCGCGTTAAAGAGCTTCCAGGCGGA
TCTGCTCCTAGACCAGAGATGGTTTGAACTGATTTGGCTGTTACGCTCTG
AGCAGTCATTCAAGCTACCTTCGAAATTTGAACTAATCAGGAAATCAAGG
AGCATCAGTGATATATCTCGACCTCCCTTTGGCTTTTCGCTTCAGAGGAC
AGCCATGGCGGGCATGGCAGGGCCGGCTCTGGGTGCTGGGGAGAAGGTGT
TGGTGACGGCCGATGTCGTACATAAGAAAGTCGCGGGAACTGTATGGTTC
ACGTCCCGACGGATGCTGTGGAGAGCGTCTGATGGCAAGGCTTCCGTGCA
GCGAGTGGATGTGCCCTGGGCCGCGTTAAAGAGCTTCCAGTGTTCCCCGG
CGAGTGAAGCCCGGGCCATGATCCGCCTCCTGAGAGTGACTGTGGGAGAC
CCCCCCGTCATATTTCGCTTCTTAGGATCATCCGCAGACACGCCGCGAGA
GGTGTTGGAGAGGGCGCAGACGGCGATCAGGAAAGCGATGAAGGGGGATC
TGGAGTGTTCCCCGGCGAGTGAAGCCCGGGCCATGATCCGCCTCCTGAGA
GTGACTGTGGGAGACCCCCCCGTCATATTTCGCTTCTTAGGATCATCCGC
AGACACGCCGCGAGAGGTGTTGGAGAGGGCGCAGACGGCGATCAGGAAAG
CGATGAAGGGGGATCTGGAG