AlfalfaGEDB | Msa0053900

M. sativa cultivar zhongmu-4 / Msa0053900

KEGG: -
GO: -
PFAM: PF07911.16

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
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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
Msa0053900	A0A072VER7	98.658	149	2	0	10	158	1	149	2.83e-104	304

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TFs/TRs:

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Gene ID	Type	Classification
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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
Msa0000490	Msa0053900	-0.840656	7.625094e-58	-8.615850e-47
Msa0000550	Msa0053900	-0.801950	7.068916e-49	-8.615850e-47
Msa0001790	Msa0053900	0.812500	4.108631e-51	-8.615850e-47
Msa0003470	Msa0053900	0.802975	4.346326e-49	-8.615850e-47
Msa0005350	Msa0053900	0.964112	6.432817e-123	-8.615850e-47
Msa0005360	Msa0053900	0.804578	2.019261e-49	-8.615850e-47
Msa0006700	Msa0053900	0.812055	5.139173e-51	-8.615850e-47
Msa0008410	Msa0053900	0.808104	3.649286e-50	-8.615850e-47
Msa0008850	Msa0053900	0.828072	1.101722e-54	-8.615850e-47
Msa0011720	Msa0053900	0.841931	3.523135e-58	-8.615850e-47

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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
Msa0053900	MtrunA17_Chr1g0150711	98.658	149	2	0	10	158	1	149	5.46e-108	304
Msa0053900	MtrunA17_Chr3g0136441	54.839	124	45	4	22	144	11	124	1.89e-37	125
Msa0053900	MtrunA17_Chr4g0070351	50.862	116	49	3	9	122	17	126	1.03e-30	107
Msa0053900	MtrunA17_Chr8g0344381	46.400	125	54	5	29	145	34	153	3.86e-30	107
Msa0053900	MtrunA17_Chr4g0070371	44.800	125	60	3	1	122	3	121	6.07e-29	104
Msa0053900	MtrunA17_Chr3g0140381	37.374	99	58	2	22	119	33	128	1.23e-17	74.7
Msa0053900	MtrunA17_Chr1g0205251	45.070	71	37	1	28	98	5	73	2.13e-17	73.6
Msa0053900	MtrunA17_Chr5g0394601	39.560	91	49	2	26	116	3	87	2.54e-17	73.2
Msa0053900	MtrunA17_Chr8g0340421	31.724	145	82	5	10	145	47	183	4.60e-16	71.6
Msa0053900	MtrunA17_Chr2g0331111	45.455	77	31	2	26	95	63	135	1.25e-15	70.9

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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
Msa0053900	AT1G72510.1	43.939	132	57	5	28	145	36	164	1.05e-29	106
Msa0053900	AT1G72510.2	43.939	132	57	5	28	145	36	164	1.05e-29	106
Msa0053900	AT5G20670.1	43.478	138	63	3	20	145	17	151	1.71e-28	103
Msa0053900	AT2G09970.1	37.931	145	71	6	15	145	26	165	6.04e-24	92.0
Msa0053900	AT1G54095.1	44.037	109	59	2	10	118	1	107	1.89e-20	82.4
Msa0053900	AT3G22540.1	37.500	120	59	5	22	140	2	106	7.61e-19	77.4
Msa0053900	AT4G14819.1	36.134	119	59	4	22	140	2	103	1.49e-17	73.6
Msa0053900	AT2G25780.1	35.537	121	70	4	29	147	39	153	3.11e-14	66.2
Msa0053900	AT1G79770.1	70.000	40	12	0	26	65	52	91	1.20e-13	65.1
Msa0053900	AT5G25840.1	37.008	127	60	6	29	145	46	162	3.24e-13	64.3

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Find 44 sgRNAs with CRISPR-Local

Find 108 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATGCAGCTGTTGCGGGT+TGG	0.633011	1_2:+8391517	Msa0053900:CDS
AAGCAGAAGATCTGAACTGC+TGG	0.512505	1_2:-8391706	None:intergenic
ACCGCAAAATGCAGCTGTTG+CGG	0.482069	1_2:+8391512	Msa0053900:CDS
ACGCGTACATTGCGCGCGTG+AGG	0.548939	1_2:+8391555	Msa0053900:CDS
AGAAGCTGAAGCGACAGAGA+TGG	0.523368	1_2:+8391478	Msa0053900:CDS
AGGCAAGCATTGTTGGTTGG+TGG	0.556701	1_2:+8391939	Msa0053900:three_prime_UTR
ATGCAGCTGTTGCGGGTTGG+TGG	0.517846	1_2:+8391520	Msa0053900:CDS
ATTAAGAATGAAGTGAACAT+TGG	0.485034	1_2:+8391907	Msa0053900:exon
ATTGTTGGTTGGTGGTGTCA+AGG	0.555820	1_2:+8391947	Msa0053900:three_prime_UTR
CAACTATGAGATCTACCAAG+AGG	0.689504	1_2:-8391830	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTGTTTGTGCTTAAATTCAG+AGG	+	chr1_2:8391417-8391436	Msa0053900:intron	30.0%
TGCTAGTAATCAAAATGAGA+TGG	-	chr1_2:8392137-8392156	None:intergenic	30.0%
TTGTTTGTGCTTAAATTCAG+AGG	+	chr1_2:8391417-8391436	Msa0053900:intron	30.0%
TGCTAGTAATCAAAATGAGA+TGG	-	chr1_2:8392137-8392156	None:intergenic	30.0%
TCATAGTTGCTTCTCAACAA+TGG	+	chr1_2:8391844-8391863	Msa0053900:CDS	35.0%
GTGAACATTGGATTATTGCA+AGG	+	chr1_2:8391919-8391938	Msa0053900:three_prime_UTR	35.0%
GTTAGTGATTGAATGGATGA+TGG	+	chr1_2:8392069-8392088	Msa0053900:three_prime_UTR	35.0%
TCATAGTTGCTTCTCAACAA+TGG	+	chr1_2:8391844-8391863	Msa0053900:CDS	35.0%
GTGAACATTGGATTATTGCA+AGG	+	chr1_2:8391919-8391938	Msa0053900:three_prime_UTR	35.0%
GTTAGTGATTGAATGGATGA+TGG	+	chr1_2:8392069-8392088	Msa0053900:three_prime_UTR	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	8391399	8392182	8391399	ID=Msa0053900;Name=Msa0053900
chr1_2	mRNA	8391399	8392182	8391399	ID=Msa0053900-mRNA-1;Parent=Msa0053900;Name=Msa0053900-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0\|0\|0.5\|0.5\|1\|1\|2\|275\|158
chr1_2	exon	8391399	8391404	8391399	ID=Msa0053900-mRNA-1:exon:3025;Parent=Msa0053900-mRNA-1
chr1_2	exon	8391437	8392182	8391437	ID=Msa0053900-mRNA-1:exon:3026;Parent=Msa0053900-mRNA-1
chr1_2	CDS	8391399	8391404	8391399	ID=Msa0053900-mRNA-1:cds;Parent=Msa0053900-mRNA-1
chr1_2	CDS	8391437	8391907	8391437	ID=Msa0053900-mRNA-1:cds;Parent=Msa0053900-mRNA-1
chr1_2	three_prime_UTR	8391908	8392182	8391908	ID=Msa0053900-mRNA-1:three_prime_utr;Parent=Msa0053900-mRNA-1

Gene Sequence

>Msa0053900

ATGTCGAGGAATCAAAGAAGTGTGCATATGGCTGCGAATGTTGTGAAAGAAGCTGAAGCGACAGAGATGGAAGCTGTTTTGACCGCAAAATGCAGCTGTTGCGGGTTGGTGGAAGAGTGCACACACGCGTACATTGCGCGCGTGAGGGAGAGATTCGGTGGAAGATGGATATGCGGTTTATGTGCTGAGGCAGTGAAGGAAGAAAGGGCGAGGTCGGAGAGTGATGAGAAGATGATCACAATTGATGAAGCTTTAATGCGGCACACCAAATTTCGCCAGCAGTTCAGATCTTCTGCTTCTGATCATAACAAAGATTTCATAGTTGCTGTGAAACAGATTCTTTTTAGGACTTTGGATTCTCCTAGGAGCAAGCCGAGTAAGGAACATTCTGCGTGCAGACCTCTTGGTAGATCTCATAGTTGCTTCTCAACAATGGAAACAACTCCGCCAAGGACGACAGAGACACATACAGAGTGA

Protein sequence

>Msa0053900

MSRNQRSVHMAANVVKEAEATEMEAVLTAKCSCCGLVEECTHAYIARVRERFGGRWICGLCAEAVKEERARSESDEKMITIDEALMRHTKFRQQFRSSASDHNKDFIVAVKQILFRTLDSPRSKPSKEHSACRPLGRSHSCFSTMETTPPRTTETHTE*