EWM24574.1, cds6077 (CDS) Nannochloropsis gaditana | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	EWM24574.1
Unique Name	cds6077
Type	CDS
Organism	Nannochloropsis gaditana (N. gaditana B-31)
Alignment location	CM002467.1:548676..548921 -
Alignment location	CM002467.1:546953..547924 -

Link to JBrowse

Properties


Property Name	Value
Protein id	EWM24574.1
Product	mediator of rna polymerase ii transcription
Orig transcript id	gnl\|cribi\|Naga_100062g8.897.mrna
Gbkey	CDS
Note	encoded by transcript variant 2; alternatively spliced

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM002467.1	supercontig	CM002467.1:548676..548921 -
CM002467.1	supercontig	CM002467.1:546953..547924 -

Analyses

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


Analysis Name	Date Performed
GO annotation for N. gaditana B31	2020-04-08
BLAST analysis for N. gaditana B-31	2020-04-07
InterPro analysis for N. gaditana B-31	2020-04-06
Gene prediction for N. gaditana B-31	2014-02-18

Annotated Terms

The following terms have been associated with this CDS:

Vocabulary: **Cellular Component**
Term	Definition
GO:0005654	nucleoplasm
GO:0016592	mediator complex

Vocabulary: **Biological Process**
Term	Definition
GO:0006139	nucleobase-containing compound metabolic process
GO:0009058	biosynthetic process
GO:0006357	regulation of transcription by RNA polymerase II

Vocabulary: **Molecular Function**
Term	Definition
GO:0140110	transcription regulator activity

Vocabulary: **INTERPRO**
Term	Definition
IPR007018	Mediator_Med6

Homology

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|585106090|gb|EWM24574.1| (mediator of rna polymerase ii transcription [Nannochloropsis gaditana])

HSP 1 Score: 838.565 bits (2165), Expect = 0.000e+0
Identity = 405/405 (100.00%), Postives = 405/405 (100.00%), Query Frame = 0

Query:    1 MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGILVSDGSEWCRWECEIRAVGF 405
            MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGILVSDGSEWCRWECEIRAVGF
Sbjct:    1 MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGILVSDGSEWCRWECEIRAVGF 405

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|585106089|gb|EWM24573.1| (mediator of rna polymerase ii transcription [Nannochloropsis gaditana])

HSP 1 Score: 795.038 bits (2052), Expect = 0.000e+0
Identity = 386/386 (100.00%), Postives = 386/386 (100.00%), Query Frame = 0

Query:    1 MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGIL 386
            MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGIL
Sbjct:    1 MCRAWYPGSAAFEAIKKSSIATSSVRVYPRFEDGGKIRAGKKMISSIYFVPFRQPYNAYKRRINLSSDKMASESTTEVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDPIFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGKGGSDMYRVARRASKEGKANKRARAAAVTASAEMYPPSSPQYGFPPYSWQPQYSEGEPLVLVDGLDPSYALPPMMPPPPLPHLLIEPSSPTASSPPSKSPQQQPQSEERPRFASRYPGPSPLAAAMTHPHPENSVAVDRAMGIL 386

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|922863756|gb|KOO31137.1| (mediator of RNA polymerase ii transcription subunit 6 isoform 2 [Chrysochromulina sp. CCMP291])

HSP 1 Score: 94.3597 bits (233), Expect = 6.622e-19
Identity = 51/128 (39.84%), Postives = 79/128 (61.72%), Query Frame = 0

Query:   96 YYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAI-----DVRQEHLAGMRGVQY-----LAEEVPGPVPEDP----IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLN 209
            +++G L R +VL+YFA+S+F+DR S N +LRMQG+      +V +E LA + G+ +       EE+P P   DP    ++VIRK+ R  S     +  YYV+  +VY+APT+++V+ ARLRR    L+
Sbjct:   24 WWNGALNRGSVLDYFANSQFFDRASVNAQLRMQGSTARLPPEVAREQLARLPGIVFELDETRLEELP-PTASDPAAHSLYVIRKLRRAPSGAETTLRYYYVMDGVVYEAPTLWAVVQARLRRLGWYLS 150

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|813171378|ref|XP_012204444.1| (hypothetical protein SPRG_09628 [Saprolegnia parasitica CBS 223.65] >gi|641530655|gb|KDO24767.1| hypothetical protein SPRG_09628 [Saprolegnia parasitica CBS 223.65])

HSP 1 Score: 94.7449 bits (234), Expect = 6.900e-19
Identity = 65/203 (32.02%), Postives = 99/203 (48.77%), Query Frame = 0

Query:   89 FTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGGGMEGEGAGTAGSGGGGK-----GGSDMYRVARRASKEGKANKR-ARAAAVTASAEMYPPSSPQ 283
            F D  WL     L    VL YFA S FYD+   NE L+MQ    +  + L  MRG++Y  E +P    + P  +++IRK  RT     QVM +YY L   +YQAP  F+++ +RL++C++ +NKA + L+  V +  T      EG     S    K           ++ R+  KE K  +  +R  A+  +    PP+ P+
Sbjct:   20 FKDTVWLSTFE-LNFHTVLYYFALSPFYDKNCNNERLKMQR---LPLDQLVNMRGIEY--ELLPNLSKQLPQTLYIIRKQFRTSKTSVQVMAIYYCLDQTIYQAPNTFTMITSRLKKCSYRINKAFQALSAGVRFSPT------EGYAWDFSTDEKKEPLIPSEQLALKLKRKQEKEEKTKQNSSRVDAIVLNLVKKPPAVPE 210

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|1173950096|gb|OQR98075.1| (mediator of RNA polymerase II transcription subunit [Achlya hypogyna])

HSP 1 Score: 94.7449 bits (234), Expect = 1.084e-18
Identity = 54/140 (38.57%), Postives = 78/140 (55.71%), Query Frame = 0

Query:   89 FTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            F D  WL     L    VL YFA S FYD+   NE L+MQ    +  + L  MRG++Y  E +P    + P  +++IRK  RT     QVM VYY L   +YQAP  F+++ +RL++C++ +NKA + L+  V +  T G
Sbjct:   20 FKDTVWLSTF-ELNHHTVLYYFALSPFYDKNCNNERLKMQR---LPLDQLVNMRGIEY--ELLPNLSKQLPQTLYIIRKQFRTSKTNAQVMAVYYCLDQTIYQAPNTFTMITSRLKKCSYRINKAFQALSAGVRFSPTEG 153

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|669151246|ref|XP_008611185.1| (hypothetical protein SDRG_07145 [Saprolegnia diclina VS20] >gi|530737193|gb|EQC35435.1| hypothetical protein SDRG_07145 [Saprolegnia diclina VS20])

HSP 1 Score: 93.5893 bits (231), Expect = 2.395e-18
Identity = 53/140 (37.86%), Postives = 78/140 (55.71%), Query Frame = 0

Query:   89 FTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            F D  WL     L    VL YFA S FYD+   NE L+MQ    +  + L  MRG++Y  E +P    + P  +++IRK  RT     QVM +YY L   +YQAP  F+++ +RL++C++ +NKA + L+  V +  T G
Sbjct:   20 FKDTVWLSTFE-LNFHTVLYYFALSPFYDKNCNNERLKMQR---LPLDQLVNMRGIEY--ELLPNLSKQLPQTLYIIRKQFRTSKTSVQVMAIYYCLDQTIYQAPNTFTMITSRLKKCSYRINKAFQALSAGVRFSPTEG 153

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|970633371|gb|KUF79054.1| (hypothetical protein AM587_10013189 [Phytophthora nicotianae])

HSP 1 Score: 93.9745 bits (232), Expect = 3.293e-18
Identity = 59/152 (38.82%), Postives = 81/152 (53.29%), Query Frame = 0

Query:   77 EVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            EVA         F D  WL    PL    VL YFA S FYDR   NE L+MQ    +  + L  +RGV+Y  E +P    + P  +F+IRK  R+   Q + + +YYVL   VYQAP I ++L +RL++C++ +NKA   L   V +  T G
Sbjct:   39 EVAAHVDDYNASFRDTVWLQSF-PLNAQTVLHYFALSPFYDRSCNNERLKMQR---LGLDQLKNLRGVEY--ELLPNAAKQMPQQLFIIRKQRRSGRTQAEPLAIYYVLDGTVYQAPNIHAMLTSRLKKCSYRVNKAFHGLAAGVRFSPTEG 184

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|675199455|ref|XP_008908612.1| (hypothetical protein PPTG_13897 [Phytophthora parasitica INRA-310] >gi|566019725|gb|ETI42636.1| hypothetical protein F443_12303 [Phytophthora parasitica P1569] >gi|567957034|gb|ETK82643.1| hypothetical protein L915_12022 [Phytophthora parasitica] >gi|567985693|gb|ETL36032.1| hypothetical protein L916_11946 [Phytophthora parasitica] >gi|568015081|gb|ETL89258.1| hypothetical protein L917_11792 [Phytophthora parasitica] >gi|568045339|gb|ETM42495.1| hypothetical protein L914_11857 [Phytophthora parasitica] >gi|568091286|gb|ETN06110.1| hypothetical protein PPTG_13897 [Phytophthora parasitica INRA-310] >gi|570323283|gb|ETO71231.1| hypothetical protein F444_12401 [Phytophthora parasitica P1976] >gi|570947093|gb|ETP12350.1| hypothetical protein F441_12288 [Phytophthora parasitica CJ01A1] >gi|570979532|gb|ETP40456.1| hypothetical protein F442_12217 [Phytophthora parasitica P10297])

HSP 1 Score: 93.2041 bits (230), Expect = 3.525e-18
Identity = 59/152 (38.82%), Postives = 81/152 (53.29%), Query Frame = 0

Query:   77 EVATRETAEQQPFTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            EVA         F D  WL    PL    VL YFA S FYDR   NE L+MQ    +  + L  +RGV+Y  E +P    + P  +F+IRK  R+   Q + + +YYVL   VYQAP I ++L +RL++C++ +NKA   L   V +  T G
Sbjct:    2 EVAAHVDDYNASFRDTVWLQSF-PLNAQTVLHYFALSPFYDRSCNNERLKMQR---LGLDQLKNLRGVEY--ELLPNAAKQMPQQLFIIRKQRRSGRTQVEPLAIYYVLDGTVYQAPNIHAMLTSRLKKCSYRVNKAFHGLAAGVRFSPTEG 147

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|301098866|ref|XP_002898525.1| (mediator of RNA polymerase II transcription subunit, putative [Phytophthora infestans T30-4] >gi|262104950|gb|EEY63002.1| mediator of RNA polymerase II transcription subunit, putative [Phytophthora infestans T30-4])

HSP 1 Score: 92.8189 bits (229), Expect = 5.083e-18
Identity = 56/140 (40.00%), Postives = 78/140 (55.71%), Query Frame = 0

Query:   89 FTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQEHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            F D  WL    PL    VL YFA S FYDR   NE L+MQ    +  + L  +RGV+Y  E +P    + P  +F+IRK  R+   Q + + +YYVL   VYQAP I ++L +RL++C++ +NKA   L   V +  T G
Sbjct:   14 FRDTVWLQSF-PLNAQTVLHYFALSPFYDRSCNNERLKMQR---LGLDQLKNLRGVEY--ELLPNTAKQMPQQLFIIRKQRRSGRTQVEPLAIYYVLDGTVYQAPNIHAMLTSRLKKCSYRVNKAFHGLAAGVRFSPTEG 147

[Close]

BLAST of EWM24574.1 vs. NCBI_GenBank
Match: gi|698801158|ref|XP_009833608.1| (hypothetical protein H257_09172 [Aphanomyces astaci] >gi|574111199|gb|ETV76695.1| hypothetical protein H257_09172 [Aphanomyces astaci])

HSP 1 Score: 91.2781 bits (225), Expect = 1.765e-17
Identity = 57/142 (40.14%), Postives = 80/142 (56.34%), Query Frame = 0

Query:   89 FTDPHWLYYHGPLRRDNVLEYFAHSKFYDRCSCNEELRMQGAIDVRQ--EHLAGMRGVQYLAEEVPGPVPEDP--IFVIRKVLRTDSEQPQVMDVYYVLQNMVYQAPTIFSVLNARLRRCAHMLNKAQKTLNRAVSYDCTGG 226
            + D  WL    PL   +VL YFA S +YD+   NE L+MQ     R+  EHL GM G++Y  E  P    + P  ++VI K  RT      VM VYYVL   +YQAP  +++L +RL++C++ +NKA K L+  V +  T G
Sbjct:   19 YRDNVWLG-QFPLDHQSVLYYFAGSPWYDKSCNNEILKMQ-----RRPLEHLQGMTGIEY--ELQPNEAKQLPQVLYVIHKKNRTSPRTANVMAVYYVLDCTIYQAPNTYTLLTSRLKKCSYRINKAFKALSAGVRFSPTEG 152

The following BLAST results are available for this feature:

BLAST of EWM24574.1 vs. NCBI_GenBank

BLAST of EWM24574.1 vs. NCBI_GenBank
Analysis Date: 2020-04-07 (BLAST analysis for N. gaditana B-31)
Total hits: 10


Match Name	E-value	Identity	Description
gi\|585106090\|gb\|EWM24574.1\|	0.000e+0	100.00	mediator of rna polymerase ii transcription [Nanno...	[more]
gi\|585106089\|gb\|EWM24573.1\|	0.000e+0	100.00	mediator of rna polymerase ii transcription [Nanno...	[more]
gi\|922863756\|gb\|KOO31137.1\|	6.622e-19	39.84	mediator of RNA polymerase ii transcription subuni...	[more]
gi\|813171378\|ref\|XP_012204444.1\|	6.900e-19	32.02	hypothetical protein SPRG_09628 [Saprolegnia paras...	[more]
gi\|1173950096\|gb\|OQR98075.1\|	1.084e-18	38.57	mediator of RNA polymerase II transcription subuni...	[more]
gi\|669151246\|ref\|XP_008611185.1\|	2.395e-18	37.86	hypothetical protein SDRG_07145 [Saprolegnia dicli...	[more]
gi\|970633371\|gb\|KUF79054.1\|	3.293e-18	38.82	hypothetical protein AM587_10013189 [Phytophthora ...	[more]
gi\|675199455\|ref\|XP_008908612.1\|	3.525e-18	38.82	hypothetical protein PPTG_13897 [Phytophthora para...	[more]
gi\|301098866\|ref\|XP_002898525.1\|	5.083e-18	40.00	mediator of RNA polymerase II transcription subuni...	[more]
gi\|698801158\|ref\|XP_009833608.1\|	1.765e-17	40.14	hypothetical protein H257_09172 [Aphanomyces astac...	[more]

Relationships

This CDS is a part of the following mRNA feature(s):


Feature Name	Unique Name	Species	Type
rna6092	rna6092	Nannochloropsis gaditana (N. gaditana B-31)	mRNA

Sequences

Synonyms

Publications