mRNA_E-siliculosus-1a_F_contig10518.375.1 (mRNA) Ectocarpus siliculosus Ec863f_EcPH12_90f female

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

Overview
NamemRNA_E-siliculosus-1a_F_contig10518.375.1
Unique NamemRNA_E-siliculosus-1a_F_contig10518.375.1
TypemRNA
OrganismEctocarpus siliculosus Ec863f_EcPH12_90f female (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
Homology
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A6H5JEA6_9PHAE (ERCC4 domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5JEA6_9PHAE)

HSP 1 Score: 197 bits (500), Expect = 3.210e-56
Identity = 100/107 (93.46%), Postives = 103/107 (96.26%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGVNVYNFRNVRDGLTA 324
            +AFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHA+ADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGVNVYNFRNV  G+  
Sbjct: 1080 KAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHASADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGVNVYNFRNVLRGVDT 1186          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A4D9D5Y9_9STRA (ERCC4 domain-containing protein n=1 Tax=Nannochloropsis salina CCMP1776 TaxID=1027361 RepID=A0A4D9D5Y9_9STRA)

HSP 1 Score: 107 bits (266), Expect = 1.140e-24
Identity = 58/111 (52.25%), Postives = 76/111 (68.47%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGG-GEDDQGTGDDASAKELLMRLPGVNVYNFRNVR---DGLTA 324
            +AF L   GD+T +I++T+I S+L LLTLHFP LRILWS++ H T  +FK L   NA VDV KA  AGGG GE+D   G   +A++LL++LPGV V NFR++    D L A
Sbjct:  987 KAFSLQAPGDITDDIQVTNIVSKLVLLTLHFPALRILWSRNSHQTVLLFKALKAGNAPVDVQKALTAGGGTGEEDSEAGRHLTAQDLLLKLPGVTVSNFRSIMKRVDNLAA 1097          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A836CHN3_9STRA (Restriction endonuclease type II-like protein n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CHN3_9STRA)

HSP 1 Score: 94.4 bits (233), Expect = 1.480e-20
Identity = 53/101 (52.48%), Postives = 68/101 (67.33%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKE--LLMRLPGVNVYNFR 300
            +AF L G G+L+S+IK+ +I S++ LLT+HFPQLR+LWS+S HAT  +F+ LM+N A VD A A AAG       G  D  SA    LL+RLPGV   NFR
Sbjct:  253 RAFGLQGGGELSSDIKVDAICSKMALLTMHFPQLRVLWSRSPHATVAIFEALMRNEAPVDAAAALAAGARA----GAADSNSAARRCLLLRLPGVTASNFR 349          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A7S3L7V4_9STRA (Hypothetical protein n=1 Tax=Amphora coffeiformis TaxID=265554 RepID=A0A7S3L7V4_9STRA)

HSP 1 Score: 86.7 bits (213), Expect = 1.810e-18
Identity = 50/123 (40.65%), Postives = 72/123 (58.54%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGG--------------GGEDDQGTGDDA--SAKELLMRLPGVNVYNFRNVRDGLTA 324
            ++FCL  S +L  EI+  S  S+L+LLT+HFP+LRILWS+  H T  +FK+L  N+  VDV KA   G               GGE+ +   D+   SA+E+L+RLPGVNV+  R + + +  
Sbjct:   89 KSFCLQNSSELGVEIRADSACSKLSLLTMHFPKLRILWSRGPHETLKIFKDLKMNHEEVDVEKAMEIGRNESVEALLRADKSKGGEEGEEEEDEINESAREMLLRLPGVNVHAARRIMEEVDT 211          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A1Y1I3K2_KLENI (Structure-specific endonuclease ERCC1-XPF n=1 Tax=Klebsormidium nitens TaxID=105231 RepID=A0A1Y1I3K2_KLENI)

HSP 1 Score: 89.0 bits (219), Expect = 2.520e-18
Identity = 51/113 (45.13%), Postives = 70/113 (61.95%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGD------DASAKELLMRLPGVNVYNFRNVRDGLTA 324
            ++F L  +G+LT +I  T+I S+L+LL LHFP+LRI+WS+S HATAD+F  L  N    DV KA   G   ED    GD      + +A+E+L RLPGV   N+R + DG+  
Sbjct: 1058 KSFSLQSAGELTDDIFGTNIISKLSLLVLHFPRLRIIWSRSVHATADIFAALKANQEEPDVKKAMVVGVPTEDGVIEGDRQGETYNTTAQEVLRRLPGVTDANYRMLMDGVKC 1170          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A4W4FA77_ELEEL (ERCC excision repair 4, endonuclease catalytic subunit n=3 Tax=Electrophorus electricus TaxID=8005 RepID=A0A4W4FA77_ELEEL)

HSP 1 Score: 87.8 bits (216), Expect = 6.300e-18
Identity = 49/107 (45.79%), Postives = 66/107 (61.68%), Query Frame = 1
Query:   10 FCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGD--DASAKELLMRLPGVNVYNFRNVRDGLTA 324
            F L+G  DL  EI  T +TS+LTLLTLHFP+LR+LW  S HATA++F+ L ++    D A AQA     E    + D  +    +LL+R+PGVNV NFR +    T+
Sbjct:  746 FSLVGRADLRQEISATDVTSKLTLLTLHFPRLRLLWCPSPHATAELFQGLKRDRPEPDAAAAQAVTAESETVGESADLYNPGPYDLLLRMPGVNVKNFRCLLKHATS 852          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: K0T254_THAOC (ERCC4 domain-containing protein n=1 Tax=Thalassiosira oceanica TaxID=159749 RepID=K0T254_THAOC)

HSP 1 Score: 86.3 bits (212), Expect = 2.180e-17
Identity = 53/124 (42.74%), Postives = 72/124 (58.06%), Query Frame = 1
Query:    4 QAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGG---------GED-----DQGTGDDASAKELLMRLPGVNVYNFRNVR---DGLTA 324
            + F L    DL S+I+  SITS+LTLL +HFP+LR+LWS+S H T  +FK+L +N+  V+V KA   G           GED     D   G + +AK +L+RLPGVNV N R +    D + A
Sbjct:  714 KTFSLQNVCDLGSDIRKDSITSKLTLLCMHFPKLRLLWSRSPHETLKLFKKLKRNHEEVNVEKAIEVGSNDSLDELLRLGEDGAYNEDDAEGPNETAKRMLLRLPGVNVNNARKIMSECDSIAA 837          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A1V9ZKY2_9STRA (DNA repair endonuclease XPF n=1 Tax=Achlya hypogyna TaxID=1202772 RepID=A0A1V9ZKY2_9STRA)

HSP 1 Score: 85.1 bits (209), Expect = 5.520e-17
Identity = 44/104 (42.31%), Postives = 67/104 (64.42%), Query Frame = 1
Query:   10 FCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGVNVYNFRNVRDGLT 321
            F L   G++T++IK +SITS+L+LL LHFPQLR LWSKS  AT ++FK++ K +   DV  A A G     +  +  + +A ++L +LPG+  +N+R V   +T
Sbjct:  694 FALQEVGEITTDIKHSSITSKLSLLVLHFPQLRFLWSKSPQATVELFKQVKKGHDDPDVEAAVAVGSAAGANSSSFYNMNAVDVLRKLPGITAHNYRKVAAHVT 797          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: D7FH45_ECTSI (ERCC4 domain-containing protein n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FH45_ECTSI)

HSP 1 Score: 85.1 bits (209), Expect = 5.630e-17
Identity = 43/44 (97.73%), Postives = 44/44 (100.00%), Query Frame = 1
Query:  151 KELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGV 282
            +ELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGV
Sbjct: 1052 QELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGV 1095          
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Match: A0A8B9KGV4_ASTMX (Excision repair cross-complementation group 4 n=5 Tax=Astyanax mexicanus TaxID=7994 RepID=A0A8B9KGV4_ASTMX)

HSP 1 Score: 84.3 bits (207), Expect = 1.040e-16
Identity = 47/101 (46.53%), Postives = 62/101 (61.39%), Query Frame = 1
Query:   10 FCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMFKELMKNNAAVDVAKAQAAGGGGEDDQGTGD--DASAKELLMRLPGVNVYNFRNV 306
            F L+   DL  EI    ITS+LTLLTLHFP+LR+LW  S HATA++F+EL +     D   AQA     +  + + D  +    +LL+RLPGVNV NFR +
Sbjct:  773 FSLVARSDLRQEISANDITSKLTLLTLHFPRLRLLWCPSPHATAELFQELKRGRPEPDAEVAQAITAESDTVEESADLYNPGPYDLLLRLPGVNVKNFRGL 873          
The following BLAST results are available for this feature:
BLAST of mRNA_E-siliculosus-1a_F_contig10518.375.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 of Ectocarpus siliculosus 1a female vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A6H5JEA6_9PHAE3.210e-5693.46ERCC4 domain-containing protein n=1 Tax=Ectocarpus... [more]
A0A4D9D5Y9_9STRA1.140e-2452.25ERCC4 domain-containing protein n=1 Tax=Nannochlor... [more]
A0A836CHN3_9STRA1.480e-2052.48Restriction endonuclease type II-like protein n=1 ... [more]
A0A7S3L7V4_9STRA1.810e-1840.65Hypothetical protein n=1 Tax=Amphora coffeiformis ... [more]
A0A1Y1I3K2_KLENI2.520e-1845.13Structure-specific endonuclease ERCC1-XPF n=1 Tax=... [more]
A0A4W4FA77_ELEEL6.300e-1845.79ERCC excision repair 4, endonuclease catalytic sub... [more]
K0T254_THAOC2.180e-1742.74ERCC4 domain-containing protein n=1 Tax=Thalassios... [more]
A0A1V9ZKY2_9STRA5.520e-1742.31DNA repair endonuclease XPF n=1 Tax=Achlya hypogyn... [more]
D7FH45_ECTSI5.630e-1797.73ERCC4 domain-containing protein n=1 Tax=Ectocarpus... [more]
A0A8B9KGV4_ASTMX1.040e-1646.53Excision repair cross-complementation group 4 n=5 ... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
E-siliculosus-1a_F_contig10518contigE-siliculosus-1a_F_contig10518:1805..2406 -
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 of Ectocarpus siliculosus 1a female vs UniRef902022-09-19
OGS1.0 of Ectocarpus siliculosus Ec863f_EcPH12_90f female2021-02-24
Properties
Property NameValue
Start1
Stop1
Cds size333
Model size333
Exons2
Hectar predicted targeting categoryother localisation
BRITEko00000,ko00001,ko01000,ko03032,ko03400
Best eggNOG OGNA|NA|NA
Best tax levelBacillariophyta
COG Functional cat.L
EggNOG OGs2XB5F@2836,COG1948@1,KOG0442@2759
EggNOG free text desc.guanyl-nucleotide exchange factor activity
GOsGO:0000003,GO:0000014,GO:0000109,GO:0000110,GO:0000280,GO:0000710,GO:0000712,GO:0000724,GO:0000725,GO:0000726,GO:0000735,GO:0000736,GO:0003006,GO:0003674,GO:0003676,GO:0003677,GO:0003684,GO:0003697,GO:0003824,GO:0004518,GO:0004519,GO:0004520,GO:0004536,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0006139,GO:0006259,GO:0006277,GO:0006281,GO:0006289,GO:0006296,GO:0006298,GO:0006302,GO:0006310,GO:0006312,GO:0006725,GO:0006807,GO:0006950,GO:0006974,GO:0006979,GO:0006996,GO:0007049,GO:0007059,GO:0007127,GO:0007131,GO:0007530,GO:0007531,GO:0007533,GO:0007534,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009314,GO:0009628,GO:0009987,GO:0016043,GO:0016787,GO:0016788,GO:0018130,GO:0019438,GO:0022402,GO:0022413,GO:0022414,GO:0030154,GO:0032502,GO:0032505,GO:0032991,GO:0033554,GO:0033683,GO:0034641,GO:0034645,GO:0034654,GO:0035822,GO:0035825,GO:0036297,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044446,GO:0044464,GO:0045002,GO:0045132,GO:0045165,GO:0046483,GO:0048285,GO:0048869,GO:0050896,GO:0051304,GO:0051307,GO:0051321,GO:0051716,GO:0061982,GO:0071704,GO:0071840,GO:0071897,GO:0090304,GO:0090305,GO:0097159,GO:0098813,GO:0140013,GO:0140097,GO:1901255,GO:1901360,GO:1901362,GO:1901363,GO:1901576,GO:1903046,GO:1990391,GO:1990599
KEGG Pathwayko03420,ko03460,map03420,map03460
KEGG koko:K10848
Preferred nameRAD1
Seed eggNOG ortholog159749.K0T254
Seed ortholog evalue2.6e-15
Seed ortholog score88.2
Taxonomic scopeEukaryota
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622927554.0882773-CDS-E-siliculosus-1a_F_contig10518:1804..20151622927554.0882773-CDS-E-siliculosus-1a_F_contig10518:1804..2015Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig10518 1805..2015 -
1696318582.9689434-CDS-E-siliculosus-1a_F_contig10518:1804..20151696318582.9689434-CDS-E-siliculosus-1a_F_contig10518:1804..2015Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig10518 1805..2015 -
1622927554.1024773-CDS-E-siliculosus-1a_F_contig10518:2284..24061622927554.1024773-CDS-E-siliculosus-1a_F_contig10518:2284..2406Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig10518 2285..2406 -
1696318582.9818313-CDS-E-siliculosus-1a_F_contig10518:2284..24061696318582.9818313-CDS-E-siliculosus-1a_F_contig10518:2284..2406Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig10518 2285..2406 -


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

Feature NameUnique NameSpeciesTypePosition
mRNA_E-siliculosus-1a_F_contig10518.375.1prot_E-siliculosus-1a_F_contig10518.375.1Ectocarpus siliculosus Ec863f_EcPH12_90f femalepolypeptideE-siliculosus-1a_F_contig10518 1805..2406 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_E-siliculosus-1a_F_contig10518.375.1

>prot_E-siliculosus-1a_F_contig10518.375.1 ID=prot_E-siliculosus-1a_F_contig10518.375.1|Name=mRNA_E-siliculosus-1a_F_contig10518.375.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=polypeptide|length=111bp
MQAFCLLGSGDLTSEIKLTSITSQLTLLTLHFPQLRILWSKSEHATADMF
KELMKNNAAVDVAKAQAAGGGGEDDQGTGDDASAKELLMRLPGVNVYNFR
NVRDGLTAFF*
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mRNA from alignment at E-siliculosus-1a_F_contig10518:1805..2406-

Legend: polypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_E-siliculosus-1a_F_contig10518.375.1 ID=mRNA_E-siliculosus-1a_F_contig10518.375.1|Name=mRNA_E-siliculosus-1a_F_contig10518.375.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=mRNA|length=602bp|location=Sequence derived from alignment at E-siliculosus-1a_F_contig10518:1805..2406- (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
ATGCAGGCTTTCTGTTTGCTGGGGTCGGGGGACCTGACCTCCGAGATCAA GCTGACCTCCATCACATCGCAGCTTACGCTTCTTACCCTCCACTTCCCTC AGCTGCGCATCTTGTGGTCCAAGTGAGCTCCGTGGATGTTGTTGTTGTTG TTTTTTGTTGTCGAGACACGTATTCATTTTTTTTCTTTCCCAGGTCGGAA CACGCGACCGCCGACTGTGGAAGAGCTCTAGACTTGCTCTTTTTTCTCAT TCGTTGATCGTCTTCCCTTTATTTTTTTTTCACAGGTCAGAACAAGCGAC TGTCGAGAAGGTCTTGCTATTTTTGTCTCTCCTCATTCATATCTCTCTCT CTCCCTTTCTCTCTCTCCCACACTATTTTTTATTTTCTCAGGTCGGAACA CGCGACCGCCGACATGTTTAAGGAGCTCATGAAGAACAACGCCGCGGTAG ACGTGGCGAAGGCTCAGGCGGCCGGGGGAGGCGGAGAGGATGACCAGGGG ACAGGGGACGACGCCTCCGCCAAAGAGCTGCTTATGCGGCTGCCCGGCGT GAACGTGTACAATTTTCGGAACGTACGAGACGGATTGACTGCTTTCTTTT AA
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Coding sequence (CDS) from alignment at E-siliculosus-1a_F_contig10518:1805..2406-

>mRNA_E-siliculosus-1a_F_contig10518.375.1 ID=mRNA_E-siliculosus-1a_F_contig10518.375.1|Name=mRNA_E-siliculosus-1a_F_contig10518.375.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=CDS|length=666bp|location=Sequence derived from alignment at E-siliculosus-1a_F_contig10518:1805..2406- (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
ATGCAGGCTTTCTGTTTGCTGGGGTCGGGGGACCTGACCTCCGAGATCAA
GCTGACCTCCATCACATCGCAGCTTACGCTTCTTACCCTCCACTTCCCTC
AGCTGCGCATCTTGTGGTCCAAATGCAGGCTTTCTGTTTGCTGGGGTCGG
GGGACCTGACCTCCGAGATCAAGCTGACCTCCATCACATCGCAGCTTACG
CTTCTTACCCTCCACTTCCCTCAGCTGCGCATCTTGTGGTCCAAGTCGGA
ACACGCGACCGCCGACATGTTTAAGGAGCTCATGAAGAACAACGCCGCGG
TAGACGTGGCGAAGGCTCAGGCGGCCGGGGGAGGCGGAGAGGATGACCAG
GGGACAGGGGACGACGCCTCCGCCAAAGAGCTGCTTATGCGGCTGCCCGG
CGTGAACGTGTACAATTTTCGGAACGTACGAGACGGATTGACTGCTTTCT
TTTAAGTCGGAACACGCGACCGCCGACATGTTTAAGGAGCTCATGAAGAA
CAACGCCGCGGTAGACGTGGCGAAGGCTCAGGCGGCCGGGGGAGGCGGAG
AGGATGACCAGGGGACAGGGGACGACGCCTCCGCCAAAGAGCTGCTTATG
CGGCTGCCCGGCGTGAACGTGTACAATTTTCGGAACGTACGAGACGGATT
GACTGCTTTCTTTTAA
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