AlfalfaGEDB | Msa0009970

M. sativa cultivar zhongmu-4 / Msa0009970

KEGG: K08065
GO: -
PFAM: PF00808.26

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0009970	sp\|Q9SFD8\|NFYB9_ARATH	53.846	91	42	0	54	144	57	147	7.78e-34	122

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0009970	A0A1S2Y2P9	54.386	171	51	2	1	171	1	144	1.58e-53	176

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TFs/TRs:

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Gene ID	Type	Classification
Msa0009970	TF	NF-YB

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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
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PPI

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Gene1	Gene2	Type
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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0009970	MtrunA17_Chr1g0158951	83.696	92	15	0	86	177	19	110	1.21e-53	166
Msa0009970	MtrunA17_Chr1g0165041	63.333	90	33	0	55	144	5	94	1.40e-39	133
Msa0009970	MtrunA17_Chr4g0076381	46.715	137	68	3	10	144	13	146	1.19e-35	124
Msa0009970	MtrunA17_Chr7g0263601	41.667	132	64	2	49	178	17	137	1.37e-34	119
Msa0009970	MtrunA17_Chr1g0159271	58.065	93	39	0	70	162	1	93	4.13e-34	116
Msa0009970	MtrunA17_Chr3g0102351	44.286	140	69	4	34	169	2	136	8.01e-34	118
Msa0009970	MtrunA17_Chr8g0382931	53.846	91	42	0	54	144	26	116	1.36e-33	118
Msa0009970	MtrunA17_Chr2g0290491	44.444	117	58	1	37	153	5	114	1.38e-33	117
Msa0009970	MtrunA17_Chr1g0185911	52.747	91	43	0	54	144	27	117	3.59e-33	116
Msa0009970	MtrunA17_Chr5g0446491	46.789	109	54	1	55	163	22	126	8.26e-33	115

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0009970	AT5G47670.2	54.945	91	41	0	54	144	27	117	5.75e-35	122
Msa0009970	AT1G21970.1	53.846	91	42	0	54	144	57	147	7.91e-35	122
Msa0009970	AT5G47670.1	55.556	90	40	0	55	144	57	146	9.57e-35	122
Msa0009970	AT5G47670.3	55.556	90	40	0	55	144	57	146	9.57e-35	122
Msa0009970	AT4G14540.1	53.846	91	42	0	54	144	19	109	1.56e-34	119
Msa0009970	AT2G38880.3	45.000	120	55	1	55	174	20	128	1.61e-33	116
Msa0009970	AT2G38880.2	45.000	120	55	1	55	174	20	128	2.04e-33	116
Msa0009970	AT2G38880.1	45.000	120	55	1	55	174	20	128	2.04e-33	116
Msa0009970	AT2G38880.5	45.000	120	55	1	55	174	20	128	2.04e-33	116
Msa0009970	AT2G38880.7	45.000	120	53	1	55	174	20	126	3.01e-33	115

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Find 35 sgRNAs with CRISPR-Local

Find 138 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAACAATAACTTTCACAC+CGG	0.626294	1_1:-14842430	Msa0009970:CDS
AACGACTAAGGTTAAGGGAC+GGG	0.520234	1_1:+14843137	None:intergenic
AAGGATGGATCGGGTGCTAG+TGG	0.571277	1_1:-14842064	Msa0009970:CDS
AATGACATGCCAATTACAAT+TGG	0.392076	1_1:-14842094	Msa0009970:CDS
AATTACAATTGGATTCGACA+AGG	0.668467	1_1:-14842083	Msa0009970:CDS
ACAATTGGATTCGACAAGGA+TGG	0.533736	1_1:-14842079	Msa0009970:CDS
AGGTAAATGCTGCTTAGTTC+CGG	0.363825	1_1:+14842411	None:intergenic
ATATGGGCAATGGATAGGTT+AGG	0.445811	1_1:-14842184	Msa0009970:CDS
ATGAATTACCTACTTCAAAA+TGG	0.257898	1_1:+14842488	None:intergenic
ATTCTTGTCAATTGCACGAT+GGG	0.485603	1_1:+14842361	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CTTAAAAGTAGTATGGAGAA+TGG	-	chr1_1:14842037-14842056	Msa0009970:CDS	30.0%
CAATCGTATCTTCGTTATTA+TGG	-	chr1_1:14842134-14842153	Msa0009970:CDS	30.0%
AAGTGAGTCAAACAAAATTG+AGG	-	chr1_1:14842322-14842341	Msa0009970:CDS	30.0%
AGCAAAAAGTAAGTCAAAGA+AGG	+	chr1_1:14842381-14842400	None:intergenic	30.0%
TAATGCCTTAAGAATCCAAT+GGG	+	chr1_1:14842519-14842538	None:intergenic	30.0%
CTTGTTAAACATCTTGTACA+GGG	-	chr1_1:14842597-14842616	Msa0009970:intron	30.0%
AACAACAATAACTTTCACAC+CGG	-	chr1_1:14842770-14842789	Msa0009970:intron	30.0%
TTACAGCGAACGATTTAATA+TGG	-	chr1_1:14842999-14843018	Msa0009970:intron	30.0%
TACAGCGAACGATTTAATAT+GGG	-	chr1_1:14843000-14843019	Msa0009970:intron	30.0%
ATTTAATATGGGCAATGGAT+AGG	-	chr1_1:14843011-14843030	Msa0009970:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	14842030	14843192	14842030	ID=Msa0009970;Name=Msa0009970
chr1_1	mRNA	14842030	14843192	14842030	ID=Msa0009970-mRNA-1;Parent=Msa0009970;Name=Msa0009970-mRNA-1;_AED=0.00;_eAED=0.00;_QI=19\|1\|0.5\|1\|1\|1\|2\|0\|178
chr1_1	exon	14842030	14842511	14842030	ID=Msa0009970-mRNA-1:exon:5497;Parent=Msa0009970-mRNA-1
chr1_1	exon	14843119	14843192	14843119	ID=Msa0009970-mRNA-1:exon:5496;Parent=Msa0009970-mRNA-1
chr1_1	five_prime_UTR	14843174	14843192	14843174	ID=Msa0009970-mRNA-1:five_prime_utr;Parent=Msa0009970-mRNA-1
chr1_1	CDS	14843119	14843173	14843119	ID=Msa0009970-mRNA-1:cds;Parent=Msa0009970-mRNA-1
chr1_1	CDS	14842030	14842511	14842030	ID=Msa0009970-mRNA-1:cds;Parent=Msa0009970-mRNA-1

Gene Sequence

>Msa0009970

ATGGAGAATGGAATCCCGTCCCTTAACCTTAGTCGTTCAACACAATCAAGCTCTGTCCATTTTGAAGTAGGTAATTCATCAACAAACATTGAATCTCAAAGCAACGTCGACAACAACAACAATAACTTTCACACCGGAACTAAGCAGCATTTACCTAAAACAAAGAATGAGGAGCAGCACATTCCCATCGTGCAATTGACAAGAATCATGCGGCGTGCTCTTCCCTCGCATGTAAAAATCTCTGATGGTGCTAAAGAGTCAATTCAATTGTGTTTATCTGAATTCATGAGCATCATCACGAGTGAGGCAAGCGAGCGGTGCAAGATAGAGCATCGAAAGATCGTTACAGCGAACGATTTAATATGGGCAATGGATAGGTTAGGTTTTGAAGACTATGTTGGCCCTCTAGTCTTTTACCTCCAAAGGTATCGTAACTATGTGGCTCAGCTAAATGACATGCCAATTACAATTGGATTCGACAAGGATGGATCGGGTGCTAGTGGCTCGAACAATGGCAGTGACAATGTTCACCATTGA

Protein sequence

>Msa0009970

MENGIPSLNLSRSTQSSSVHFEVGNSSTNIESQSNVDNNNNNFHTGTKQHLPKTKNEEQHIPIVQLTRIMRRALPSHVKISDGAKESIQLCLSEFMSIITSEASERCKIEHRKIVTANDLIWAMDRLGFEDYVGPLVFYLQRYRNYVAQLNDMPITIGFDKDGSGASGSNNGSDNVHH*