AlfalfaGEDB | Msa0002540

M. sativa cultivar zhongmu-4 / Msa0002540

KEGG: K17506
GO: GO:0000003 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0008150 GO:0009846 GO:0009856 GO:0022414 GO:0032501 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0044706 GO:0051704
PFAM: PF00481.24

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
Msa0002540	sp\|Q94AT1\|P2C76_ARATH	72.350	217	57	2	222	435	152	368	2.38e-102	314
Msa0002540	sp\|Q94AT1\|P2C76_ARATH	50.279	179	66	6	1	164	1	171	1.55e-42	158

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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
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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0002540	Msa0008340	0.810557	1.086258e-50	-8.615850e-47
Msa0002540	Msa0016670	0.828421	9.073642e-55	-8.615850e-47
Msa0002540	Msa0021810	0.804071	2.575146e-49	-8.615850e-47
Msa0002540	Msa0032370	0.814831	1.260940e-51	-8.615850e-47
Msa0002540	Msa0032840	-0.821187	4.612542e-53	-8.615850e-47
Msa0002540	Msa0046100	0.828526	8.559889e-55	-8.615850e-47
Msa0002540	Msa0047980	0.850567	1.562432e-60	-8.615850e-47
Msa0002540	Msa0064350	0.827953	1.176554e-54	-8.615850e-47
Msa0002540	Msa0073670	0.832476	9.251299e-56	-8.615850e-47
Msa0002540	Msa0090590	0.802207	6.259610e-49	-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
Msa0002540	MtrunA17_Chr3g0126511	93.182	220	12	2	222	438	145	364	2.89e-142	410
Msa0002540	MtrunA17_Chr3g0126511	97.561	164	4	0	1	164	1	164	2.70e-115	342
Msa0002540	MtrunA17_Chr3g0136711	64.205	176	63	0	239	414	105	280	3.77e-78	244
Msa0002540	MtrunA17_Chr3g0136711	56.471	85	37	0	80	164	20	104	1.19e-25	106
Msa0002540	MtrunA17_Chr1g0150451	64.773	176	62	0	239	414	148	323	3.83e-78	246
Msa0002540	MtrunA17_Chr1g0150451	48.214	112	51	2	53	164	43	147	1.67e-26	109
Msa0002540	MtrunA17_Chr1g0212961	61.017	177	65	2	239	415	166	338	1.44e-70	226
Msa0002540	MtrunA17_Chr1g0212961	42.405	158	62	4	26	163	16	164	1.12e-27	112
Msa0002540	MtrunA17_Chr4g0050381	35.088	342	141	10	77	414	12	276	1.84e-47	164
Msa0002540	MtrunA17_Chr2g0279151	48.045	179	87	4	239	414	105	280	3.93e-44	155

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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
Msa0002540	AT5G53140.1	72.350	217	57	2	222	435	152	368	2.41e-103	314
Msa0002540	AT5G53140.1	50.279	179	66	6	1	164	1	171	1.57e-43	158
Msa0002540	AT5G53140.2	72.350	217	57	2	222	435	152	368	2.41e-103	314
Msa0002540	AT5G53140.2	50.279	179	66	6	1	164	1	171	1.57e-43	158
Msa0002540	AT4G31750.2	65.909	176	60	0	239	414	104	279	1.92e-78	246
Msa0002540	AT4G31750.2	54.118	85	39	0	80	164	19	103	2.21e-25	105
Msa0002540	AT4G31750.1	59.420	207	71	1	239	432	104	310	2.39e-78	246
Msa0002540	AT4G31750.1	54.118	85	39	0	80	164	19	103	2.91e-25	105
Msa0002540	AT4G31750.3	59.420	207	71	1	239	432	104	310	2.39e-78	246
Msa0002540	AT4G31750.3	54.118	85	39	0	80	164	19	103	2.91e-25	105

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Find 110 sgRNAs with CRISPR-Local

Find 396 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACACACTTATAGCCAATT+TGG	0.238676	1_1:-4444851	None:intergenic
AAAGATAATTTCCGGGATGA+CGG	0.544350	1_1:+4445132	Msa0002540:CDS
AACAAGGGCTGGACCCTCTG+TGG	0.584711	1_1:+4442695	Msa0002540:CDS
AACCTAATAGAAGTGATGAG+CGG	0.688453	1_1:+4445654	Msa0002540:CDS
AAGAGAATTGAGAATGCTGG+GGG	0.703336	1_1:+4445677	Msa0002540:CDS
AAGAGTCTGCACATGCATGA+TGG	0.638768	1_1:+4448276	Msa0002540:three_prime_UTR
AAGATGAAAGACTTAGCTGT+GGG	0.649895	1_1:+4443673	Msa0002540:CDS
AAGCAGTAGAACCGTCATCC+CGG	0.586100	1_1:-4445143	None:intergenic
AAGGGCTGGACCCTCTGTGG+AGG	0.633314	1_1:+4442698	Msa0002540:CDS
AATAAGTTTATGGCTTGTAG+AGG	0.583008	1_1:+4448425	Msa0002540:three_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TAATTGCGAAAGAAATGTGA+AGG	-	chr1_1:4442304-4442323	None:intergenic	30.0%
AACACATATGGGGTTAAAAA+TGG	+	chr1_1:4443271-4443290	Msa0002540:intron	30.0%
TTATCAACTTACCAAATGAC+GGG	+	chr1_1:4443391-4443410	Msa0002540:intron	30.0%
TACTTGATCGCAATATAGAT+AGG	-	chr1_1:4443620-4443639	None:intergenic	30.0%
AATATCATAGAAATCCTCCA+TGG	-	chr1_1:4443727-4443746	None:intergenic	30.0%
ATTAAGACATCAACCATTGA+TGG	+	chr1_1:4443744-4443763	Msa0002540:CDS	30.0%
TATTAAATGCTATGCACACT+TGG	-	chr1_1:4444055-4444074	None:intergenic	30.0%
GTATAACTCACAAACTGTTT+CGG	-	chr1_1:4444083-4444102	None:intergenic	30.0%
TTGTGAGTTATACATGTTTG+TGG	+	chr1_1:4444090-4444109	Msa0002540:intron	30.0%
GGAAAATAAGATATGAGAAG+AGG	-	chr1_1:4444473-4444492	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	4442132	4448510	4442132	ID=Msa0002540;Name=Msa0002540
chr1_1	mRNA	4442132	4448510	4442132	ID=Msa0002540-mRNA-1;Parent=Msa0002540;Name=Msa0002540-mRNA-1;_AED=0.05;_eAED=0.05;_QI=289\|1\|1\|1\|0.75\|0.44\|9\|263\|438
chr1_1	exon	4442132	4442415	4442132	ID=Msa0002540-mRNA-1:exon:1377;Parent=Msa0002540-mRNA-1
chr1_1	exon	4442517	4442784	4442517	ID=Msa0002540-mRNA-1:exon:1378;Parent=Msa0002540-mRNA-1
chr1_1	exon	4443671	4443798	4443671	ID=Msa0002540-mRNA-1:exon:1379;Parent=Msa0002540-mRNA-1
chr1_1	exon	4444767	4445246	4444767	ID=Msa0002540-mRNA-1:exon:1380;Parent=Msa0002540-mRNA-1
chr1_1	exon	4445630	4445716	4445630	ID=Msa0002540-mRNA-1:exon:1381;Parent=Msa0002540-mRNA-1
chr1_1	exon	4446265	4446356	4446265	ID=Msa0002540-mRNA-1:exon:1382;Parent=Msa0002540-mRNA-1
chr1_1	exon	4447507	4447581	4447507	ID=Msa0002540-mRNA-1:exon:1383;Parent=Msa0002540-mRNA-1
chr1_1	exon	4448034	4448233	4448034	ID=Msa0002540-mRNA-1:exon:1384;Parent=Msa0002540-mRNA-1
chr1_1	exon	4448256	4448510	4448256	ID=Msa0002540-mRNA-1:exon:1385;Parent=Msa0002540-mRNA-1
chr1_1	five_prime_UTR	4442132	4442415	4442132	ID=Msa0002540-mRNA-1:five_prime_utr;Parent=Msa0002540-mRNA-1
chr1_1	five_prime_UTR	4442517	4442521	4442517	ID=Msa0002540-mRNA-1:five_prime_utr;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4442522	4442784	4442522	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4443671	4443798	4443671	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4444767	4445246	4444767	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4445630	4445716	4445630	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4446265	4446356	4446265	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4447507	4447581	4447507	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	CDS	4448034	4448225	4448034	ID=Msa0002540-mRNA-1:cds;Parent=Msa0002540-mRNA-1
chr1_1	three_prime_UTR	4448226	4448233	4448226	ID=Msa0002540-mRNA-1:three_prime_utr;Parent=Msa0002540-mRNA-1
chr1_1	three_prime_UTR	4448256	4448510	4448256	ID=Msa0002540-mRNA-1:three_prime_utr;Parent=Msa0002540-mRNA-1

Gene Sequence

>Msa0002540

ATGGTATGCGGAATTTTGATTCGAGCTGGAATTTTGACCAAGAGATTGTTGCCATTCAATTACGTTCGGAGGAAGTGTTTGCAAAGAGTTTTTGTTGTTCATTCACAATTTGTTGCGAATCGCGTGTTTAAGAATAAGTACATAGGGATGATGGTTGATACAGGTTCTATGTCAACAAGGGCTGGACCCTCTGTGGAGGATACTGTGTCCCACAAAGAGGATGATTCTGCTCGTTCTGGTTTTGTTACTGGTGGATGCAAGAGTGAAGATGAAAGACTTAGCTGTGGGTATTCAAGCTTTAGGGGGAAGAGAGTGACCATGGAGGATTTCTATGATATTAAGACATCAACCATTGATGGCCGTTCAGTGTGCTTATTTGGAATATTTGATGGTCATGGTGGTTCTCGCGCTGCTGAGTATTTGAAGGATCATCTTTTTGAGAATCTCATGAAGCATCCGAAGTTTTTGACAGATACCAAATTGGCTATAAGTGTGTTTGAATTTCACTTATTATTTCTTGTAATATTGAAGACATGTCACTTTTTACCATTTGTTTATACGTTCTTGTCAAATCTGACATCATCGGAACCATTTGAGTATGCATTTATTGTGTTAGTCCTATTTCATTCAAGGGGTCTAGGGTTGGTTCATGGAGTGCTTTTCATTTTTCAGTCTGTTATGTGGATGTTTATTAACTTAAGTAACCTTGCAGGTGAAACATATCAGCAGACGGATGCTGAGTTTTTGAACTCTGAAAAAGATAATTTCCGGGATGACGGTTCTACTGCTTCAACCGCTGTTTTGGTTGATAACCGTCTTTATGTTGCTAATGTTGGAGATTCTAGAACTGTTATATCAAAAGCCGGAAAAGCAATTGCTCTCTCTGAAGATCATAAACCTAATAGAAGTGATGAGCGGAAGAGAATTGAGAATGCTGGGGGTGTTGTCATGTGGGCAGGTACTTGGAGGGTTGGAGGGGTGCTAGCAATGTCCCGTGCATTTGGCAACCGTATGCTGAAGCCATTTGTTGTAGCAGAACCTGAAATCCAGGACCAGGAGATAGATGAAGAAACTGAGGTGCTTGTTCTTGCAAGTGATGGACTCTGGGATGTAGTACAGAATGAGGATGCTGTTTCTCTCGCACGCGCGGAAGAGGGAGCTGAGGCAGCTGCTCGTAAGTTAACGGAAGCTGCTTTTAATCGTGGTAGTGCAGATAACATTACTTGTATTGTGGTACGATTCAATCATGAAAAAAGACACGCAGCTAATCCTGATAAAGCTAGTACAGCTAGCAGTCAGCATGAGCAGAGACAATGA

Protein sequence

>Msa0002540

MVCGILIRAGILTKRLLPFNYVRRKCLQRVFVVHSQFVANRVFKNKYIGMMVDTGSMSTRAGPSVEDTVSHKEDDSARSGFVTGGCKSEDERLSCGYSSFRGKRVTMEDFYDIKTSTIDGRSVCLFGIFDGHGGSRAAEYLKDHLFENLMKHPKFLTDTKLAISVFEFHLLFLVILKTCHFLPFVYTFLSNLTSSEPFEYAFIVLVLFHSRGLGLVHGVLFIFQSVMWMFINLSNLAGETYQQTDAEFLNSEKDNFRDDGSTASTAVLVDNRLYVANVGDSRTVISKAGKAIALSEDHKPNRSDERKRIENAGGVVMWAGTWRVGGVLAMSRAFGNRMLKPFVVAEPEIQDQEIDEETEVLVLASDGLWDVVQNEDAVSLARAEEGAEAAARKLTEAAFNRGSADNITCIVVRFNHEKRHAANPDKASTASSQHEQRQ*