AlfalfaGEDB | Msa0936040

M. sativa cultivar zhongmu-4 / Msa0936040

KEGG: K14638
GO: GO:0008150 GO:0009605 GO:0009607 GO:0009624 GO:0043207 GO:0050896 GO:0051704 GO:0051707
PFAM: PF00854.24

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
Msa0936040	sp\|Q9LFR1\|PTR50_ARATH	61.470	558	185	11	1	541	1	545	0.0	651

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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
Msa0936040	G7KJG0	98.339	542	8	1	1	542	1	541	0.0	1090

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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
Msa0363460	Msa0936040	0.801252	9.828784e-49	-8.615850e-47
Msa0455230	Msa0936040	0.805246	1.464788e-49	-8.615850e-47
Msa0722930	Msa0936040	0.805395	1.362868e-49	-8.615850e-47
Msa0723140	Msa0936040	0.806026	1.004515e-49	-8.615850e-47
Msa0870330	Msa0936040	0.899655	1.598037e-77	-8.615850e-47
Msa0936040	Msa0972980	0.933626	1.407831e-95	-8.615850e-47
Msa0936040	Msa1336960	0.835652	1.481081e-56	-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
Msa0936040	MtrunA17_Chr6g0451841	98.339	542	8	1	1	542	1	541	0.0	1090
Msa0936040	MtrunA17_Chr4g0014871	38.745	542	292	10	12	537	37	554	1.02e-129	390
Msa0936040	MtrunA17_Chr4g0014841	37.803	537	301	7	12	537	36	550	1.05e-126	382
Msa0936040	MtrunA17_Chr4g0014781	38.333	540	302	7	12	540	36	555	4.96e-126	380
Msa0936040	MtrunA17_Chr4g0014791	37.616	537	302	9	12	537	36	550	3.55e-125	378
Msa0936040	MtrunA17_Chr3g0077151	38.078	541	294	9	12	540	35	546	7.71e-125	377
Msa0936040	MtrunA17_Chr4g0014801	37.523	549	308	8	4	537	24	552	4.39e-122	370
Msa0936040	MtrunA17_Chr8g0353031	35.420	559	306	14	12	542	25	556	3.05e-114	350
Msa0936040	MtrunA17_Chr4g0008651	34.901	553	311	10	16	542	45	574	1.27e-113	349
Msa0936040	MtrunA17_Chr4g0005901	36.166	553	304	9	13	537	40	571	3.01e-111	343

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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
Msa0936040	AT5G14940.1	61.470	558	185	11	1	541	1	545	0.0	651
Msa0936040	AT3G01350.1	60.036	553	201	8	5	541	5	553	0.0	613
Msa0936040	AT1G22540.1	40.840	524	282	6	24	537	47	552	1.77e-130	392
Msa0936040	AT1G72140.1	38.910	532	276	11	24	536	51	552	1.51e-124	377
Msa0936040	AT1G72120.1	39.065	535	295	8	12	534	34	549	8.11e-123	372
Msa0936040	AT1G72125.1	39.212	533	277	10	24	534	46	553	5.02e-122	370
Msa0936040	AT1G72130.1	36.716	542	310	8	2	540	26	537	1.09e-120	366
Msa0936040	AT3G54450.1	35.929	565	306	14	5	541	10	546	8.70e-118	359
Msa0936040	AT1G22550.1	37.288	531	292	9	24	534	47	556	5.97e-114	349
Msa0936040	AT3G53960.1	34.403	561	306	11	12	538	42	574	9.18e-106	330

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Find 97 sgRNAs with CRISPR-Local

Find 260 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACCAAAACATGATCATG+TGG	0.607034	6_3:-6642241	Msa0936040:five_prime_UTR
AAAAGATGAGGACATTATGG+TGG	0.581494	6_3:+6641258	None:intergenic
AACAACCAGAAAATGCTTAT+TGG	0.321275	6_3:+6637878	None:intergenic
AACTTATCTAACTGATGTTG+TGG	0.535055	6_3:-6641389	Msa0936040:CDS
AAGATGGTTAATAGTTGGGT+TGG	0.477748	6_3:-6641343	Msa0936040:CDS
AAGCATTAAGGTCATAAATA+AGG	0.365962	6_3:-6638314	Msa0936040:CDS
AAGGTATAAACGTGATGCAA+AGG	0.571082	6_3:-6638018	Msa0936040:CDS
AATCATAGCGATGATTATCG+CGG	0.703876	6_3:-6637972	Msa0936040:CDS
AATCCATCTCTACAAGCCTT+TGG	0.428240	6_3:-6639171	Msa0936040:CDS
AATTCATGCATTCTCCTCAT+AGG	0.453128	6_3:-6642098	Msa0936040:intron

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TGTAACAGAGTTAGTACTAT+CGG	-	chr6_3:6637452-6637471	Msa0936040:three_prime_UTR	30.0%
AAAACCAAAACATGATCATG+TGG	-	chr6_3:6637526-6637545	Msa0936040:exon	30.0%
TCTCTCTTAAGTTTGGATAT+TGG	-	chr6_3:6637574-6637593	Msa0936040:CDS	30.0%
AGCAAAATTCATCCCTAATA+AGG	+	chr6_3:6637771-6637790	None:intergenic	30.0%
TAATGTTGCAAAGGAGATTA+CGG	+	chr6_3:6637972-6637991	None:intergenic	30.0%
TAATCTCCTTTGCAACATTA+TGG	-	chr6_3:6637972-6637991	Msa0936040:CDS	30.0%
AATCTCCTTTGCAACATTAT+GGG	-	chr6_3:6637973-6637992	Msa0936040:CDS	30.0%
AATTCAAATCCATTCAACTG+GGG	+	chr6_3:6638023-6638042	None:intergenic	30.0%
CAATTCAAATCCATTCAACT+GGG	+	chr6_3:6638024-6638043	None:intergenic	30.0%
AGATTGATGCAAGTTCAATA+GGG	+	chr6_3:6638107-6638126	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr6_3	gene	6637436	6642353	6637436	ID=Msa0936040;Name=Msa0936040
chr6_3	mRNA	6637436	6642353	6637436	ID=Msa0936040-mRNA-1;Parent=Msa0936040;Name=Msa0936040-mRNA-1;_AED=0.06;_eAED=0.06;_QI=200\|1\|1\|1\|1\|1\|4\|108\|542
chr6_3	exon	6637436	6638372	6637436	ID=Msa0936040-mRNA-1:exon:2123;Parent=Msa0936040-mRNA-1
chr6_3	exon	6638787	6639313	6638787	ID=Msa0936040-mRNA-1:exon:2122;Parent=Msa0936040-mRNA-1
chr6_3	exon	6641246	6641463	6641246	ID=Msa0936040-mRNA-1:exon:2121;Parent=Msa0936040-mRNA-1
chr6_3	exon	6642099	6642353	6642099	ID=Msa0936040-mRNA-1:exon:2120;Parent=Msa0936040-mRNA-1
chr6_3	five_prime_UTR	6642154	6642353	6642154	ID=Msa0936040-mRNA-1:five_prime_utr;Parent=Msa0936040-mRNA-1
chr6_3	CDS	6642099	6642153	6642099	ID=Msa0936040-mRNA-1:cds;Parent=Msa0936040-mRNA-1
chr6_3	CDS	6641246	6641463	6641246	ID=Msa0936040-mRNA-1:cds;Parent=Msa0936040-mRNA-1
chr6_3	CDS	6638787	6639313	6638787	ID=Msa0936040-mRNA-1:cds;Parent=Msa0936040-mRNA-1
chr6_3	CDS	6637544	6638372	6637544	ID=Msa0936040-mRNA-1:cds;Parent=Msa0936040-mRNA-1
chr6_3	three_prime_UTR	6637436	6637543	6637436	ID=Msa0936040-mRNA-1:three_prime_utr;Parent=Msa0936040-mRNA-1

Gene Sequence

>Msa0936040

ATGGCTGGTGGACAGAAAACCAAGAGGCTCAGCAATTCATGCATTCTCCTCATAGTCATTGCAGGTATAGAGAGGTTTGCATTCAAAGGGGTAGCCTCAAATTTGGTAACTTATCTAACTGATGTTGTGGACTTAAGCAATTCATCTGCAGCAAAGATGGTTAATAGTTGGGTTGGATTCACTTCCATAATGCCATTGTTGGTGGCACCTATTGCTGATGCTTATTGGGCTAAATATTCCACCATAATGTCCTCATCTTTTCTCTATGTTATGGGACTTGCAGCATTGACAACAACAGCACTAGCAAGATCATGGCATCACAAAAACAGATCAATGTCATCTTCATTTCTTTCATTATCTCTCTATTTAATCTCATTAGGCCAAGGTGGATATAATCCATCTCTACAAGCCTTTGGAGCTGATCAACTTGGTGAAGATGAAGAACTACCTTGTAGTAACACAGATGACACAAGTAGCAACAAAAAAGCACTTTTCTTTCAATGGTGGTATTTTGGTGTTTGTGCTGGAAGCCTAATGGGTGTAACATTCATGTCTTACATCCAAGACACATTTGGTTGGGTAATAGGGTTTGCTATACCTGCGATTTCGATGCTTCTTTCTATCTTGATTTTCTCTAGTGGAAGCTCTATATATTCGTATAAGCAACAAGATGATGATGATGATCTTCGAGATAAGAAGCCTTTCACGAACATGTTTAAGAGTATAAAAGAATCTGCATTGAAATGCTTCCATTGTGAAATTACTCTACCAAATGACAAGTCTGAAAATGTCGAACTAGAGCTTCAAGAGAGACCACTTTGTCGCGAAAACTGTGAAAGCATTAAGGTCATAAATAAGGATTCTAAAATCAGCATGTGTCTGCTACCAAATGTAAAGGTTATGATTAAGCTATTGCCTATATGGACAATGCTTCTCATGTTTGCAGTGATTTTCCAACAACCTGCAACTTTTTTCACCAAACAAGGCATGACAATGAAGAGAAACATAGGTTCAAATTTCAAGATACCACCGGCCACACTCCAAAGTGCGATAACATTGTCCATAATACTATTGATGCCGTTATACGACAGAGTTTTTATACCGTTCGCTCAGCTGATAACACGACAGGAAAAAGGTATAAACGTGATGCAAAGGATGGGAATCGGAATGGTTCTCTCAATCATAGCGATGATTATCGCGGCACTAGTTGAAATGAAACGCCTTGCTATCGGCCGACAAATGAGAAGTGAAGGATTACTATCAGAAATAGTACCAATAAGCATTTTCTGGTTGTTACCACAGTACATTCTTCTTGGTATATCAGATATTTTCACAGTGGTTGGTATGCAAGAATTTTTTTACGGTGAAGTTCCGAAGAATATGAGAACAATGGGAATCGCATTGTATACAAGTGTTTTCGGAGTTGGAAGCTTTGTTAGTGCATTGATGATTACACTTGTTGAAGTATACACAAGTTCAAAAGGAACTCCAAGTTGGTTTTCTGATGATATGGTCGAGGCACGTTTGGATAATTACTATTGGCTTCTAGCTTGGTTAAGTTCAATTAGCTTATTGTTGTATACACTATTGTGTAAATATTACTATAATAAGAGTGAATCAGATAGTTAA

Protein sequence

>Msa0936040

MAGGQKTKRLSNSCILLIVIAGIERFAFKGVASNLVTYLTDVVDLSNSSAAKMVNSWVGFTSIMPLLVAPIADAYWAKYSTIMSSSFLYVMGLAALTTTALARSWHHKNRSMSSSFLSLSLYLISLGQGGYNPSLQAFGADQLGEDEELPCSNTDDTSSNKKALFFQWWYFGVCAGSLMGVTFMSYIQDTFGWVIGFAIPAISMLLSILIFSSGSSIYSYKQQDDDDDLRDKKPFTNMFKSIKESALKCFHCEITLPNDKSENVELELQERPLCRENCESIKVINKDSKISMCLLPNVKVMIKLLPIWTMLLMFAVIFQQPATFFTKQGMTMKRNIGSNFKIPPATLQSAITLSIILLMPLYDRVFIPFAQLITRQEKGINVMQRMGIGMVLSIIAMIIAALVEMKRLAIGRQMRSEGLLSEIVPISIFWLLPQYILLGISDIFTVVGMQEFFYGEVPKNMRTMGIALYTSVFGVGSFVSALMITLVEVYTSSKGTPSWFSDDMVEARLDNYYWLLAWLSSISLLLYTLLCKYYYNKSESDS*