AlfalfaGEDB | Msa0004150

M. sativa cultivar zhongmu-4 / Msa0004150

KEGG: -
GO: -
PFAM: -

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
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TFs/TRs:

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Gene ID	Type	Classification
Msa0004150	TF	C2H2

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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
Msa0004150	MtrunA17_Chr1g0156521	92.701	411	22	2	1	411	1	403	0.0	749
Msa0004150	MtrunA17_Chr3g0114991	59.489	274	88	8	152	408	183	450	3.05e-106	321
Msa0004150	MtrunA17_Chr4g0042091	50.833	240	105	3	179	408	200	436	1.10e-69	226
Msa0004150	MtrunA17_Chr3g0104431	43.396	265	123	10	164	409	133	389	3.04e-58	195
Msa0004150	MtrunA17_Chr2g0280501	34.383	381	221	10	45	408	8	376	2.21e-54	184
Msa0004150	MtrunA17_Chr5g0399041	40.097	207	100	7	206	409	105	290	6.54e-37	136
Msa0004150	MtrunA17_Chr4g0056461	40.609	197	86	6	217	409	106	275	1.09e-36	135
Msa0004150	MtrunA17_Chr8g0376191	39.766	171	88	4	248	409	2	166	4.68e-32	119
Msa0004150	MtrunA17_Chr2g0280521	48.113	106	55	0	213	318	10	115	4.01e-25	99.4
Msa0004150	MtrunA17_Chr5g0445321	32.124	193	114	7	222	407	1	183	3.84e-24	98.6

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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
Msa0004150	AT1G75710.1	59.267	464	131	13	1	410	1	460	2.73e-168	480
Msa0004150	AT4G27240.1	39.070	430	196	13	27	408	19	430	7.83e-73	234
Msa0004150	AT5G54630.1	49.388	245	98	5	184	408	233	471	2.37e-68	224
Msa0004150	AT4G27240.2	38.119	404	184	13	27	382	19	404	2.63e-60	202
Msa0004150	AT2G29660.1	42.570	249	117	7	184	409	128	373	4.41e-53	181
Msa0004150	AT1G11490.2	37.109	256	137	7	173	408	113	364	5.65e-41	149
Msa0004150	AT1G11490.1	37.109	256	137	7	173	408	113	364	5.65e-41	149
Msa0004150	AT4G12450.1	34.703	219	101	5	201	409	91	277	3.26e-31	120
Msa0004150	AT4G22560.1	37.500	208	91	6	206	409	92	264	1.47e-29	115
Msa0004150	AT1G62520.1	36.585	205	104	7	207	409	100	280	1.68e-28	113

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Find 123 sgRNAs with CRISPR-Local

Find 274 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATGTACTCTCTCTTTCA+TGG	0.393696	1_1:+6612327	None:intergenic
AAACAAGGAAGAATAGCTCT+TGG	0.523135	1_1:+6607819	None:intergenic
AAACATTATGTTAACCTGCT+AGG	0.471824	1_1:+6611762	None:intergenic
AAATGTACTCTCTCTTTCAT+GGG	0.564311	1_1:+6612328	None:intergenic
AACATCTCTGAAGCTACAAA+TGG	0.481428	1_1:+6612034	None:intergenic
AACATTATGTTAACCTGCTA+GGG	0.496126	1_1:+6611763	None:intergenic
AATATTGGTTACTCAAAATT+AGG	0.189002	1_1:-6612071	Msa0004150:CDS
AATCCACGGTGTGCCGCGGA+CGG	0.561977	1_1:-6608191	Msa0004150:CDS
ACACACAACGAACAATCCAA+CGG	0.693116	1_1:-6608268	Msa0004150:CDS
ACATCATCATCATCTTCAAG+AGG	0.620776	1_1:-6611837	Msa0004150:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAATGTACTCTCTCTTTCAT+GGG	+	chr1_1:6607566-6607585	None:intergenic	30.0%
AAAATGTACTCTCTCTTTCA+TGG	+	chr1_1:6607567-6607586	None:intergenic	30.0%
AACATTATGTTAACCTGCTA+GGG	+	chr1_1:6608131-6608150	None:intergenic	30.0%
AAACATTATGTTAACCTGCT+AGG	+	chr1_1:6608132-6608151	None:intergenic	30.0%
CAGTGCAGAAAAACAAAATT+AGG	+	chr1_1:6608585-6608604	None:intergenic	30.0%
CAAGATTAGAACACTATGAA+AGG	+	chr1_1:6608844-6608863	None:intergenic	30.0%
ACTATTACTGCAGTCATTTA+TGG	+	chr1_1:6609676-6609695	None:intergenic	30.0%
CTTGTATTCCAATTAATGCA+CGG	-	chr1_1:6609725-6609744	Msa0004150:intron	30.0%
CTAAAATTGAATCATGTGTG+TGG	-	chr1_1:6609894-6609913	Msa0004150:intron	30.0%
AAAATTGAATCATGTGTGTG+GGG	-	chr1_1:6609896-6609915	Msa0004150:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	6607497	6612416	6607497	ID=Msa0004150;Name=Msa0004150
chr1_1	mRNA	6607497	6612416	6607497	ID=Msa0004150-mRNA-1;Parent=Msa0004150;Name=Msa0004150-mRNA-1;_AED=0.00;_eAED=0.00;_QI=122\|1\|1\|1\|1\|1\|3\|291\|412
chr1_1	exon	6607497	6608407	6607497	ID=Msa0004150-mRNA-1:exon:2286;Parent=Msa0004150-mRNA-1
chr1_1	exon	6610479	6610579	6610479	ID=Msa0004150-mRNA-1:exon:2285;Parent=Msa0004150-mRNA-1
chr1_1	exon	6611777	6612416	6611777	ID=Msa0004150-mRNA-1:exon:2284;Parent=Msa0004150-mRNA-1
chr1_1	five_prime_UTR	6612295	6612416	6612295	ID=Msa0004150-mRNA-1:five_prime_utr;Parent=Msa0004150-mRNA-1
chr1_1	CDS	6611777	6612294	6611777	ID=Msa0004150-mRNA-1:cds;Parent=Msa0004150-mRNA-1
chr1_1	CDS	6610479	6610579	6610479	ID=Msa0004150-mRNA-1:cds;Parent=Msa0004150-mRNA-1
chr1_1	CDS	6607788	6608407	6607788	ID=Msa0004150-mRNA-1:cds;Parent=Msa0004150-mRNA-1
chr1_1	three_prime_UTR	6607497	6607787	6607497	ID=Msa0004150-mRNA-1:three_prime_utr;Parent=Msa0004150-mRNA-1

Gene Sequence

>Msa0004150

ATGGCTCTCCTTAATTCCTTGCCTGAACAATCCCACCCCAAGAAAACACCCCCAAAACCCAAACAAAAGAACCAACCAAAACAGAAACAAAAACCAAAACCAAAACAAAAACCACCTTCTTCATGGGACCAAATAAAAAACCTCCTATCATGCAAACAGATCGAAGGTTCAAGAGTTCATGATCCTTCAAAACCAAACAACAATATTGGTTACTCAAAATTAGGTTCTTCTTGTAGCTCCATTTGTAGCTTCAGAGATGTTGTTCATGGAAACACTAGAGTTGTTCATAGGTCTGATAATTCATCACCAGAGAGTAGTATCTTGGGTCAAGAAACAAGTTTACTCAAAAGAAAACCTGTCACTGCTTCATCATCATCAACATCAACTCGCTCTGCATCATGTTCTGGGAAATCATCCAACGGTGGAGGAAACTACACATCATCATCATCTTCAAGAGGAATGCAGTTTAGGAAGCTATCTGGATGTTATGAATGTCACATGATCGTTGACCCTAGCAGGCTACCAATTCCTAGAAGCACATTATGTCGTTGTGATAAGTGTGGAGAGGTCTTCCCTAAGATTGAAAGCTTGGAACTTCATCAAGCTGTTCGACATGCAGTTTCGGAGCTGGGTCCAGAGGATTCAGGCAGAAACATAGTAGAGATAATCTTCAAATCTAGCTGGTTAAAGAGAGAGACTCCAATGTGCAAGATTGAACGGATACTAAAAGTCCACAACACACAACGAACAATCCAACGGTTCGAGGAATGCAGAGACGCGGTAAAATCCCGTGCATCCAACACCACCAAGAAAAATCCACGGTGTGCCGCGGACGGCAACGAACTCCTCCGTTTCCACAGCACATCGCTATCGTGTGCACTCGGTGCAAGTGGTTCCTCCGCCCTTTGCGCCGTGCCTGGATGCGGAGTTTGCAACATAATCCGGCACGGTTTTCAAAAGAAAGGTGGAGTGAAGACCAATGCTAGTAGTGGTAGGGCCCATGACAATTCAGTTGGAGAAGATTCTAGAAGGGCAATGCTGGTGTGCCGCGTGATTGCCGGGAAAGTGAAGCGCGTGGCGGAGGAAGGTGCACCGGTGGTGTCAGAGGAGGAAATGGTGTGTTTTGATTCTATTGTGGAGAATGCTGGGAGTTACTCTAATCTCGAAGATTTAACTGTTTTCAATCCAAGAGCTATTCTTCCTTGTTTCGTAGTTATTTACAAAGTGCTTCCATGTTGA

Protein sequence

>Msa0004150

MALLNSLPEQSHPKKTPPKPKQKNQPKQKQKPKPKQKPPSSWDQIKNLLSCKQIEGSRVHDPSKPNNNIGYSKLGSSCSSICSFRDVVHGNTRVVHRSDNSSPESSILGQETSLLKRKPVTASSSSTSTRSASCSGKSSNGGGNYTSSSSSRGMQFRKLSGCYECHMIVDPSRLPIPRSTLCRCDKCGEVFPKIESLELHQAVRHAVSELGPEDSGRNIVEIIFKSSWLKRETPMCKIERILKVHNTQRTIQRFEECRDAVKSRASNTTKKNPRCAADGNELLRFHSTSLSCALGASGSSALCAVPGCGVCNIIRHGFQKKGGVKTNASSGRAHDNSVGEDSRRAMLVCRVIAGKVKRVAEEGAPVVSEEEMVCFDSIVENAGSYSNLEDLTVFNPRAILPCFVVIYKVLPC*