EWM28476.1, cds2197 (CDS) Nannochloropsis gaditana | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	EWM28476.1
Unique Name	cds2197
Type	CDS
Organism	Nannochloropsis gaditana (N. gaditana B-31)
Alignment location	CM002458.1:1160420..1160806 +

Link to JBrowse

Properties


Property Name	Value
Protein id	EWM28476.1
Product	rad51
Orig transcript id	gnl\|cribi\|Naga_101096g3.4073.mrna
Gbkey	CDS

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM002458.1	supercontig	CM002458.1:1160420..1160806 +

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: **Molecular Function**
Term	Definition
GO:0016787	hydrolase activity
GO:0000166	nucleotide binding
GO:0003677	DNA binding
GO:0005524	ATP binding
GO:0008094	DNA-dependent ATPase activity

Vocabulary: **Biological Process**
Term	Definition
GO:0006950	response to stress
GO:0006259	DNA metabolic process
GO:0006281	DNA repair

Vocabulary: **INTERPRO**
Term	Definition
IPR020588	RecA_ATP-bd
IPR013632	DNA_recomb/repair_Rad51_C
IPR027417	P-loop_NTPase

Homology

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|585110887|gb|EWM28476.1| (rad51 [Nannochloropsis gaditana])

HSP 1 Score: 249.21 bits (635), Expect = 1.239e-83
Identity = 128/128 (100.00%), Postives = 128/128 (100.00%), Query Frame = 0

Query:    1 MDRVRDVLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGGPGEGGGG 128
            MDRVRDVLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGGPGEGGGG
Sbjct:    1 MDRVRDVLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGGPGEGGGG 128

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|913494859|ref|XP_013202993.1| (PREDICTED: DNA repair protein RAD51 homolog 3 isoform X1 [Microtus ochrogaster])

HSP 1 Score: 89.3521 bits (220), Expect = 8.698e-20
Identity = 48/114 (42.11%), Postives = 63/114 (55.26%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGG 120
            ++ R C A +P  + T+ T    T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G
Sbjct:   54 IVRRECLADKPRCAGTSVTVKKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLTKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEG 153

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|755537107|ref|XP_011246973.1| (PREDICTED: DNA repair protein RAD51 homolog 3 isoform X2 [Mus musculus])

HSP 1 Score: 88.1965 bits (217), Expect = 7.296e-19
Identity = 47/114 (41.23%), Postives = 61/114 (53.51%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGG 120
            +L R C   +P  + T+      T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G
Sbjct:   54 ILRRECLTNKPRCAGTSVANEKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEG 153

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|1195512089|ref|XP_021068790.1| (DNA repair protein RAD51 homolog 3 [Mus pahari])

HSP 1 Score: 87.8113 bits (216), Expect = 3.102e-18
Identity = 47/114 (41.23%), Postives = 61/114 (53.51%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGG 120
            +L R C   +P  + T+      T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G
Sbjct:   54 ILRRECLTNKPRCAGTSVANKKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEG 153

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|1046850215|ref|XP_006247168.2| (PREDICTED: DNA repair protein RAD51 homolog 3 isoform X1 [Rattus norvegicus])

HSP 1 Score: 87.8113 bits (216), Expect = 3.372e-18
Identity = 47/115 (40.87%), Postives = 61/115 (53.04%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGG 121
            +L R C   +P  + T+      T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G 
Sbjct:   54 ILRRECLTNKPRCAGTSVANKKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGS 154

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|913516284|ref|XP_013210006.1| (PREDICTED: LOW QUALITY PROTEIN: DNA repair protein RAD51 homolog 3-like [Microtus ochrogaster])

HSP 1 Score: 88.5817 bits (218), Expect = 4.051e-18
Identity = 48/115 (41.74%), Postives = 63/115 (54.78%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGG 121
            ++ R C A +P  + T+ T    T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G 
Sbjct:  131 IVRRECLADKPRCAGTSVTVKKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGS 231

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|187469096|gb|AAI66862.1| (Rad51c protein, partial [Rattus norvegicus])

HSP 1 Score: 87.8113 bits (216), Expect = 4.271e-18
Identity = 47/115 (40.87%), Postives = 61/115 (53.04%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGG 121
            +L R C   +P  + T+      T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G 
Sbjct:   33 ILRRECLTNKPRCAGTSVANKKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGS 133

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|148683866|gb|EDL15813.1| (Rad51 homolog c (S. cerevisiae), isoform CRA_a, partial [Mus musculus])

HSP 1 Score: 88.1965 bits (217), Expect = 4.438e-18
Identity = 47/114 (41.23%), Postives = 61/114 (53.51%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGG 120
            +L R C   +P  + T+      T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G
Sbjct:   74 ILRRECLTNKPRCAGTSVANEKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEG 173

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|1195678873|ref|XP_021032905.1| (DNA repair protein RAD51 homolog 3 [Mus caroli])

HSP 1 Score: 87.8113 bits (216), Expect = 4.522e-18
Identity = 47/115 (40.87%), Postives = 62/115 (53.91%), Query Frame = 0

Query:    7 VLNRGCAAGRPSSSSTTTTTTTTTSSPLPLPTSAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGGG 121
            +L R C   +P  + T+  +   T         A  L +     G      IITFC A+D +LGGG+   + +EV GVPG GKTQL MQ+A+DVQIP  F GV G+AV+I   G 
Sbjct:   54 ILRRECLTNKPRCAGTSVASEKCT---------ALELLEQEHTQGF-----IITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGS 154

[Close]

BLAST of EWM28476.1 vs. NCBI_GenBank
Match: gi|677204621|gb|KFP48013.1| (DNA repair protein RAD51 3, partial [Cathartes aura])

HSP 1 Score: 85.1149 bits (209), Expect = 5.179e-18
Identity = 41/82 (50.00%), Postives = 55/82 (67.07%), Query Frame = 0

Query:   39 SAFALYQSTRAPGMSVGSKIITFCRAIDTVLGGGLARGQLSEVVGVPGAGKTQLAMQVAIDVQIPRSFRGVGGKAVYIGEGG 120
            +A  L +  +A G      IITFC A+D +LGGG+   +++E+ G PGAGKTQL MQ+A+DVQIP  F GV G+AV+I   G
Sbjct:   38 TALELLEEEQAQGF-----IITFCSALDNILGGGVQLTKITEICGAPGAGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEG 114

The following BLAST results are available for this feature:

BLAST of EWM28476.1 vs. NCBI_GenBank

BLAST of EWM28476.1 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\|585110887\|gb\|EWM28476.1\|	1.239e-83	100.00	rad51 [Nannochloropsis gaditana]	[more]
gi\|913494859\|ref\|XP_013202993.1\|	8.698e-20	42.11	PREDICTED: DNA repair protein RAD51 homolog 3 isof...	[more]
gi\|755537107\|ref\|XP_011246973.1\|	7.296e-19	41.23	PREDICTED: DNA repair protein RAD51 homolog 3 isof...	[more]
gi\|1195512089\|ref\|XP_021068790.1\|	3.102e-18	41.23	DNA repair protein RAD51 homolog 3 [Mus pahari]	[more]
gi\|1046850215\|ref\|XP_006247168.2\|	3.372e-18	40.87	PREDICTED: DNA repair protein RAD51 homolog 3 isof...	[more]
gi\|913516284\|ref\|XP_013210006.1\|	4.051e-18	41.74	PREDICTED: LOW QUALITY PROTEIN: DNA repair protein...	[more]
gi\|187469096\|gb\|AAI66862.1\|	4.271e-18	40.87	Rad51c protein, partial [Rattus norvegicus]	[more]
gi\|148683866\|gb\|EDL15813.1\|	4.438e-18	41.23	Rad51 homolog c (S. cerevisiae), isoform CRA_a, pa...	[more]
gi\|1195678873\|ref\|XP_021032905.1\|	4.522e-18	40.87	DNA repair protein RAD51 homolog 3 [Mus caroli]	[more]
gi\|677204621\|gb\|KFP48013.1\|	5.179e-18	50.00	DNA repair protein RAD51 3, partial [Cathartes aur...	[more]

Relationships

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


Feature Name	Unique Name	Species	Type
rna2205	rna2205	Nannochloropsis gaditana (N. gaditana B-31)	mRNA

Sequences

Synonyms

Publications