AlfalfaGEDB | Msa0417970

M. sativa cultivar zhongmu-4 / Msa0417970

KEGG: -
GO: -
PFAM: PF01190.20

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
Msa0417970	XP_013460852.1	93.827	162	10	0	1	162	1	162	2.94e-109	318

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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
Msa0417970	sp\|P33050\|PSC13_MAIZE	39.216	153	93	0	3	155	10	162	1.45e-29	109

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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
Msa0417970	B7FN25	93.827	162	10	0	1	162	1	162	1.40e-109	318

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TFs/TRs:

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Gene ID	Type	Classification
No data available in table

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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
Msa0040790	Msa0417970	0.814526	1.473064e-51	-8.615850e-47
Msa0077340	Msa0417970	0.834968	2.205417e-56	-8.615850e-47
Msa0093850	Msa0417970	0.836461	9.233578e-57	-8.615850e-47
Msa0124910	Msa0417970	0.810190	1.303507e-50	-8.615850e-47
Msa0125360	Msa0417970	0.812886	3.383175e-51	-8.615850e-47
Msa0138360	Msa0417970	0.819191	1.322004e-52	-8.615850e-47
Msa0147980	Msa0417970	0.806997	6.267575e-50	-8.615850e-47
Msa0195640	Msa0417970	0.804806	1.810447e-49	-8.615850e-47
Msa0209140	Msa0417970	0.832436	9.462845e-56	-8.615850e-47
Msa0225480	Msa0417970	0.806971	6.348844e-50	-8.615850e-47

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PPI

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Gene1	Gene2	Type
No data available in table

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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
Msa0417970	MtrunA17_Chr3g0115561	93.827	162	10	0	1	162	1	162	2.70e-113	318
Msa0417970	MtrunA17_Chr3g0124301	41.406	128	73	2	28	153	25	152	2.89e-31	110
Msa0417970	MtrunA17_Chr2g0283801	35.256	156	96	3	3	155	4	157	7.53e-25	94.0
Msa0417970	MtrunA17_Chr2g0316111	33.594	128	82	2	28	155	43	167	9.59e-19	78.6
Msa0417970	MtrunA17_Chr2g0316151	33.594	128	82	2	28	155	43	167	1.07e-18	78.2
Msa0417970	MtrunA17_Chr2g0316121	28.947	152	96	4	18	160	20	168	2.61e-15	69.3
Msa0417970	MtrunA17_Chr2g0316161	28.966	145	93	3	18	155	20	161	2.61e-15	69.3
Msa0417970	MtrunA17_Chr2g0316051	28.906	128	88	3	28	155	36	160	5.09e-12	60.5

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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
Msa0417970	AT4G08685.1	48.734	158	81	0	3	160	2	159	1.97e-54	169
Msa0417970	AT1G78040.1	38.182	165	97	3	3	162	2	166	2.15e-33	116
Msa0417970	AT1G78040.3	38.182	165	97	3	3	162	2	166	2.15e-33	116
Msa0417970	AT1G78040.2	38.182	165	97	3	3	162	2	166	2.15e-33	116
Msa0417970	AT5G10130.1	40.909	154	86	2	3	154	4	154	5.65e-30	107
Msa0417970	AT4G18596.1	32.317	164	102	3	1	155	1	164	6.78e-23	89.7
Msa0417970	AT4G18596.2	32.317	164	102	3	1	155	47	210	1.60e-22	89.7
Msa0417970	AT5G45880.1	31.325	166	103	3	1	155	1	166	1.37e-21	86.3
Msa0417970	AT1G29140.1	35.075	134	83	2	26	155	30	163	1.98e-20	83.2

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Find 87 sgRNAs with CRISPR-Local

Find 266 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATTATCGGCGCGTCACG+CGG	0.638390	3_2:+65488887	Msa0417970:five_prime_UTR
AAAGTGTAAGAAAGTGATGA+AGG	0.543243	3_2:+65488863	None:intergenic
AAATCCAAAGTAAATAAACT+AGG	0.569739	3_2:-65490642	None:intergenic
AACTCTTGAAGCCATAGTGA+AGG	0.589099	3_2:-65489365	None:intergenic
AAGAACCCTTTCTGCTTGAA+GGG	0.515228	3_2:+65489445	Msa0417970:CDS
AAGCAGAAAGGGTTCTTGGC+TGG	0.404947	3_2:-65489439	None:intergenic
AAGTTGTGTTCTCAAAGCCA+GGG	0.636901	3_2:+65490346	Msa0417970:CDS
AATGTTATACATGGCAGAGG+AGG	0.630027	3_2:+65490554	Msa0417970:CDS
AATTCCTAGTTTATTTACTT+TGG	0.368713	3_2:+65490638	Msa0417970:three_prime_UTR
ACACGACCCTTCAAGCAGAA+AGG	0.545423	3_2:-65489451	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GAACAATAGAATATCAAAGG+GGG	-	chr3_2:65489063-65489082	None:intergenic	30.0%
AGAAGAAGAAGAATGAGAAA+TGG	-	chr3_2:65489332-65489351	None:intergenic	30.0%
AAGAGATCTGAGAGTAAAAA+GGG	-	chr3_2:65489538-65489557	None:intergenic	30.0%
AAAGAGATCTGAGAGTAAAA+AGG	-	chr3_2:65489539-65489558	None:intergenic	30.0%
ATGTTAAATGAATGACCTTG+CGG	+	chr3_2:65489881-65489900	Msa0417970:intron	30.0%
TGTTTGATTCATGTAACCAT+TGG	+	chr3_2:65490109-65490128	Msa0417970:intron	30.0%
TGTGTTAACAAACTACCATA+TGG	-	chr3_2:65490254-65490273	None:intergenic	30.0%
TGGAGAATATACAATCTATG+TGG	+	chr3_2:65490383-65490402	Msa0417970:CDS	30.0%
ATATACAATCTATGTGGATC+AGG	+	chr3_2:65490389-65490408	Msa0417970:CDS	30.0%
GAACAATAGAATATCAAAGG+GGG	-	chr3_2:65489063-65489082	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	65488878	65491043	65488878	ID=Msa0417970;Name=Msa0417970
chr3_2	mRNA	65488878	65491043	65488878	ID=Msa0417970-mRNA-1;Parent=Msa0417970;Name=Msa0417970-mRNA-1;_AED=0.01;_eAED=0.01;_QI=495\|1\|1\|1\|1\|1\|2\|408\|162
chr3_2	exon	65488878	65489529	65488878	ID=Msa0417970-mRNA-1:exon:14778;Parent=Msa0417970-mRNA-1
chr3_2	exon	65490304	65491043	65490304	ID=Msa0417970-mRNA-1:exon:14779;Parent=Msa0417970-mRNA-1
chr3_2	five_prime_UTR	65488878	65489372	65488878	ID=Msa0417970-mRNA-1:five_prime_utr;Parent=Msa0417970-mRNA-1
chr3_2	CDS	65489373	65489529	65489373	ID=Msa0417970-mRNA-1:cds;Parent=Msa0417970-mRNA-1
chr3_2	CDS	65490304	65490635	65490304	ID=Msa0417970-mRNA-1:cds;Parent=Msa0417970-mRNA-1
chr3_2	three_prime_UTR	65490636	65491043	65490636	ID=Msa0417970-mRNA-1:three_prime_utr;Parent=Msa0417970-mRNA-1

Gene Sequence

>Msa0417970

ATGGCTTCAAGAGTTGCTTTTTTGTTGTTTTTGTGTGTTCTTCCAGCGATGGTTATGGCCATTCGCCCAGCCAAGAACCCTTTCTGCTTGAAGGGTCGTGTTGTATGTGACCCTTGCCGTGCTGGTTATGAAACTTCTGCTATCACTCACATTGCTGGTGCCGAGGTTATGCTGGAATGCAAGCAAAGGAACAGCAACGAAGTTGTGTTCTCAAAGCCAGGGAAGACTGATGCAACTGGAGAATATACAATCTATGTGGATCAGGATCGCGCAGATGAAGTGTGTGATGTGAAGCTAATAAACAGCCCTGAGCGTAGTTGCAGCGAAAGAGCACCTGGGCGTGACCAAGCACGTGTTATTCTCACCCGTTACAACGGCATTGCCTCTAATGACAGGTTTGCCAATGCAATGTTATACATGGCAGAGGAGGTTGCTTCTGGCTGTGCTGAGGTCCTCAAGCAAATGCAAGAATTGGATGAAGAGAATTAA

Protein sequence

>Msa0417970

MASRVAFLLFLCVLPAMVMAIRPAKNPFCLKGRVVCDPCRAGYETSAITHIAGAEVMLECKQRNSNEVVFSKPGKTDATGEYTIYVDQDRADEVCDVKLINSPERSCSERAPGRDQARVILTRYNGIASNDRFANAMLYMAEEVASGCAEVLKQMQELDEEN*