AlfalfaGEDB | Msa0566500

M. sativa cultivar zhongmu-4 / Msa0566500

KEGG: -
GO: GO:0008150 GO:0010941 GO:0043067 GO:0043069 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060548 GO:0065007
PFAM: PF06943.15

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
Msa0566500	GAU35901.1	84.091	176	27	1	1	175	1	176	4.99e-96	286

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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
Msa0566500	sp\|Q6ASS2\|LOL3_ORYSJ	59.140	186	64	3	1	174	1	186	1.31e-64	199

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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
Msa0566500	A0A2Z6MWU7	84.091	176	27	1	1	175	1	176	2.38e-96	286

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TFs/TRs:

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Gene ID	Type	Classification
Msa0566500	TF	C2C2-LSD

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0000550	Msa0566500	0.807022	6.191131e-50	-8.615850e-47
Msa0011720	Msa0566500	-0.815647	8.304467e-52	-8.615850e-47
Msa0017510	Msa0566500	-0.832713	8.078570e-56	-8.615850e-47
Msa0038350	Msa0566500	0.857262	1.839992e-62	-8.615850e-47
Msa0039420	Msa0566500	0.801719	7.886556e-49	-8.615850e-47
Msa0048000	Msa0566500	-0.821303	4.337328e-53	-8.615850e-47
Msa0050760	Msa0566500	-0.800195	1.615297e-48	-8.615850e-47
Msa0063350	Msa0566500	0.809841	1.550192e-50	-8.615850e-47
Msa0090280	Msa0566500	0.802021	6.836070e-49	-8.615850e-47
Msa0092990	Msa0566500	-0.803260	3.794434e-49	-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
Msa0566500	MtrunA17_Chr8g0381011	79.787	188	13	2	1	175	1	176	2.40e-99	284
Msa0566500	MtrunA17_Chr2g0303181	65.556	180	50	3	1	175	1	173	5.09e-77	227
Msa0566500	MtrunA17_Chr4g0054701	72.072	111	31	0	2	112	31	141	2.33e-55	172
Msa0566500	MtrunA17_Chr4g0047341	51.389	72	35	0	41	112	40	111	1.22e-21	85.9
Msa0566500	MtrunA17_Chr4g0047341	45.588	68	36	1	3	70	41	107	7.08e-11	57.4

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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
Msa0566500	AT4G20380.2	64.516	186	53	4	1	175	6	189	2.49e-64	196
Msa0566500	AT4G20380.7	64.516	186	53	4	1	175	6	189	2.49e-64	196
Msa0566500	AT4G20380.6	64.516	186	53	4	1	175	1	184	3.08e-64	196
Msa0566500	AT4G20380.3	64.516	186	53	4	1	175	1	184	3.08e-64	196
Msa0566500	AT4G20380.4	64.516	186	53	4	1	175	1	184	3.08e-64	196
Msa0566500	AT4G20380.1	64.516	186	53	4	1	175	1	184	3.08e-64	196
Msa0566500	AT4G20380.5	64.516	186	53	4	1	175	1	184	3.08e-64	196
Msa0566500	AT4G20380.8	56.604	212	53	4	1	175	1	210	6.30e-60	186
Msa0566500	AT1G32540.1	71.818	110	31	0	2	111	65	174	4.54e-55	172
Msa0566500	AT1G32540.3	71.818	110	31	0	2	111	32	141	4.77e-54	169

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Find 90 sgRNAs with CRISPR-Local

Find 360 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACATTGGTTGCCCCTCTA+GGG	0.521552	4_1:-67594414	None:intergenic
AAACGTTGATATGGGGATAA+AGG	0.376173	4_1:-67593807	None:intergenic
AACTATATTGTGGAGGCTGT+AGG	0.590469	4_1:+67594645	Msa0566500:CDS
AACTTGTGTGTAATGGTTGT+AGG	0.557278	4_1:+67594377	Msa0566500:CDS
AAGAAGAAAACGTTGATATG+GGG	0.575509	4_1:-67593814	None:intergenic
AAGATGAAGATGAAGTAGAG+AGG	0.567265	4_1:+67593590	Msa0566500:five_prime_UTR
AAGGAAAAGAAATATGAAAG+AGG	0.541246	4_1:-67593788	None:intergenic
AAGGATACATGAGTGTTGTC+CGG	0.538194	4_1:-67596784	None:intergenic
AAGTAGCCCATGTCCCTTGC+GGG	0.401008	4_1:+67596756	Msa0566500:CDS
AAGTCGCAAGGAAGGAAGAA+AGG	0.479378	4_1:+67593654	Msa0566500:five_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACACTCTTTCGAAATTTCTT+TGG	-	chr4_1:67593567-67593586	None:intergenic	30.0%
TGGGAATAATTTGATTGTGT+TGG	-	chr4_1:67593732-67593751	None:intergenic	30.0%
AAGAAGAAAACGTTGATATG+GGG	-	chr4_1:67593817-67593836	None:intergenic	30.0%
TTAGGCAAAACTTCAAATTC+GGG	-	chr4_1:67594115-67594134	None:intergenic	30.0%
GATGTACGAACATTACATAT+AGG	-	chr4_1:67594526-67594545	None:intergenic	30.0%
GATATGTCTCAACTATATTG+TGG	+	chr4_1:67594635-67594654	Msa0566500:CDS	30.0%
GTGGTTTAGTATTAGTTAAG+CGG	+	chr4_1:67594787-67594806	Msa0566500:intron	30.0%
TGGTTTAGTATTAGTTAAGC+GGG	+	chr4_1:67594788-67594807	Msa0566500:intron	30.0%
TTGAACTGTATTTGGATAAG+AGG	+	chr4_1:67594999-67595018	Msa0566500:intron	30.0%
TGTGAGTGGTTTATTTATGT+TGG	+	chr4_1:67595252-67595271	Msa0566500:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	67593486	67598885	67593486	ID=Msa0566500;Name=Msa0566500
chr4_1	mRNA	67593486	67598885	67593486	ID=Msa0566500-mRNA-1;Parent=Msa0566500;Name=Msa0566500-mRNA-1;_AED=0.09;_eAED=0.14;_QI=447\|0.8\|0.83\|1\|1\|1\|6\|472\|175
chr4_1	exon	67593486	67593930	67593486	ID=Msa0566500-mRNA-1:exon:22192;Parent=Msa0566500-mRNA-1
chr4_1	exon	67594365	67594478	67594365	ID=Msa0566500-mRNA-1:exon:22193;Parent=Msa0566500-mRNA-1
chr4_1	exon	67594630	67594740	67594630	ID=Msa0566500-mRNA-1:exon:22194;Parent=Msa0566500-mRNA-1
chr4_1	exon	67596747	67596859	67596747	ID=Msa0566500-mRNA-1:exon:22195;Parent=Msa0566500-mRNA-1
chr4_1	exon	67598104	67598253	67598104	ID=Msa0566500-mRNA-1:exon:22196;Parent=Msa0566500-mRNA-1
chr4_1	exon	67598372	67598885	67598372	ID=Msa0566500-mRNA-1:exon:22197;Parent=Msa0566500-mRNA-1
chr4_1	five_prime_UTR	67593486	67593930	67593486	ID=Msa0566500-mRNA-1:five_prime_utr;Parent=Msa0566500-mRNA-1
chr4_1	five_prime_UTR	67594365	67594366	67594365	ID=Msa0566500-mRNA-1:five_prime_utr;Parent=Msa0566500-mRNA-1
chr4_1	CDS	67594367	67594478	67594367	ID=Msa0566500-mRNA-1:cds;Parent=Msa0566500-mRNA-1
chr4_1	CDS	67594630	67594740	67594630	ID=Msa0566500-mRNA-1:cds;Parent=Msa0566500-mRNA-1
chr4_1	CDS	67596747	67596859	67596747	ID=Msa0566500-mRNA-1:cds;Parent=Msa0566500-mRNA-1
chr4_1	CDS	67598104	67598253	67598104	ID=Msa0566500-mRNA-1:cds;Parent=Msa0566500-mRNA-1
chr4_1	CDS	67598372	67598413	67598372	ID=Msa0566500-mRNA-1:cds;Parent=Msa0566500-mRNA-1
chr4_1	three_prime_UTR	67598414	67598885	67598414	ID=Msa0566500-mRNA-1:three_prime_utr;Parent=Msa0566500-mRNA-1

Gene Sequence

>Msa0566500

ATGCAGAGTCAACTTGTGTGTAATGGTTGTAGGAGCATGTTGCTTTACCCTAGAGGGGCAACCAATGTTTGTTGTGCATTGTGCAACACAATTACCTCTGTTCCTCCACCTGGGATGGATATGTCTCAACTATATTGTGGAGGCTGTAGGACATTGTTAATGTACACACGCGGAGCTACAAGTGTCAGATGTTCTTGCTGTCATACTGTAAACCTTGCTCCAGTATCTAATCAAGTAGCCCATGTCCCTTGCGGGAACTGCCGGACAACACTCATGTATCCTTATGGAGCTCCTTCAGTCAAATGTGCTGTTTGTCACTATATTACGAATATCAATCATAGAAAGGATGATGTTGGTGTTTTCTGTTCTGATAATCTAATGAATATCAATGTGATTCTGTTTTACTACCTACAGTCAATGCCCCAATCTCAGAGCCAAACAGTGGTGGTAGAAAATCCAATGTCTGTTGATTCAAGTGGGAAATTGGTGAGCAATGTTGTTGTTGGTGTTACAACAGATAAGAAATAA

Protein sequence

>Msa0566500

MQSQLVCNGCRSMLLYPRGATNVCCALCNTITSVPPPGMDMSQLYCGGCRTLLMYTRGATSVRCSCCHTVNLAPVSNQVAHVPCGNCRTTLMYPYGAPSVKCAVCHYITNINHRKDDVGVFCSDNLMNINVILFYYLQSMPQSQSQTVVVENPMSVDSSGKLVSNVVVGVTTDKK*