AlfalfaGEDB | Msa0552960

M. sativa cultivar zhongmu-4 / Msa0552960

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043565 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00010.29

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
Msa0552960	XP_013456557.1	99.291	282	2	0	1	282	1	282	0.0	575

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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
Msa0552960	sp\|Q9LT23\|BH121_ARATH	62.348	247	79	5	6	246	58	296	4.71e-94	283

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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
Msa0552960	A0A072UNE9	99.291	282	2	0	1	282	1	282	0.0	575

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TFs/TRs:

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Gene ID	Type	Classification
Msa0552960	TF	bHLH

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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
Msa0552960	Msa0582990	0.889446	2.404605e-73	-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
Msa0552960	MtrunA17_Chr4g0038511	99.291	282	2	0	1	282	1	282	0.0	575
Msa0552960	MtrunA17_Chr1g0161461	53.957	278	110	5	6	272	77	347	3.78e-92	276
Msa0552960	MtrunA17_Chr4g0042041	44.361	133	57	3	6	137	76	192	7.73e-25	99.4
Msa0552960	MtrunA17_Chr2g0319301	52.083	96	45	1	9	103	72	167	2.87e-23	95.1
Msa0552960	MtrunA17_Chr4g0060591	45.000	100	55	0	7	106	29	128	3.85e-21	89.4
Msa0552960	MtrunA17_Chr1g0167821	40.000	140	71	4	11	144	95	227	1.35e-18	82.8
Msa0552960	MtrunA17_Chr2g0323031	45.263	95	51	1	11	104	110	204	2.18e-18	82.4

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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
Msa0552960	AT3G19860.1	62.753	247	78	5	6	246	5	243	7.45e-96	284
Msa0552960	AT3G19860.3	62.753	247	78	5	6	246	36	274	1.74e-95	284
Msa0552960	AT3G19860.2	62.348	247	79	5	6	246	58	296	4.78e-95	283
Msa0552960	AT4G36060.2	43.636	275	105	7	9	274	29	262	6.93e-54	176
Msa0552960	AT4G36060.1	43.636	275	105	7	9	274	47	280	2.32e-53	175
Msa0552960	AT4G36060.4	44.255	235	89	5	9	235	29	229	8.97e-52	171
Msa0552960	AT4G36060.3	44.255	235	89	5	9	235	47	247	4.05e-51	169
Msa0552960	AT5G54680.1	37.975	158	70	4	11	167	76	206	8.65e-22	91.7
Msa0552960	AT4G14410.2	40.152	132	64	4	11	132	129	255	1.96e-18	83.2
Msa0552960	AT4G14410.3	40.152	132	64	4	11	132	129	255	1.96e-18	83.2

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Find 100 sgRNAs with CRISPR-Local

Find 173 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACCTACATTTAGCCACAC+TGG	0.600095	4_1:-49756105	None:intergenic
AAATGATCTCAGAGAAGAAA+AGG	0.463510	4_1:+49755112	Msa0552960:CDS
AACAAGAACAAGAATAAGAT+TGG	0.370287	4_1:+49753867	Msa0552960:five_prime_UTR
AACTAAGGACTATGTATCCA+TGG	0.564461	4_1:+49755183	Msa0552960:CDS
AAGACTAGATGAAATAAGCA+TGG	0.625916	4_1:-49756162	None:intergenic
AAGGAAACCAGTTTCACAGA+AGG	0.607572	4_1:+49755702	Msa0552960:CDS
AAGGGAACATATGTTGAACA+AGG	0.603401	4_1:-49755341	None:intergenic
AATGATAAAGCGACCATTCT+AGG	0.234923	4_1:+49754898	Msa0552960:CDS
AATGGATCATTCCGTTATGA+TGG	0.543467	4_1:+49755211	Msa0552960:CDS
AATTGTATTCGGAGCTAAAA+AGG	0.247255	4_1:-49755360	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CTAGAATTCATTCATGTGTT+AGG	+	chr4_1:49754776-49754795	Msa0552960:intron	30.0%
GTTTACTAACTTGAGAAGTA+AGG	-	chr4_1:49754948-49754967	None:intergenic	30.0%
AAATGATCTCAGAGAAGAAA+AGG	+	chr4_1:49755112-49755131	Msa0552960:CDS	30.0%
ATTGTATTCGGAGCTAAAAA+GGG	-	chr4_1:49755362-49755381	None:intergenic	30.0%
AATTGTATTCGGAGCTAAAA+AGG	-	chr4_1:49755363-49755382	None:intergenic	30.0%
TTCAATTTGTCACAAGGAAT+AGG	-	chr4_1:49756056-49756075	None:intergenic	30.0%
TGCAATTTCAATTTGTCACA+AGG	-	chr4_1:49756062-49756081	None:intergenic	30.0%
TGACAAATTGAAATTGCAGA+TGG	+	chr4_1:49756064-49756083	Msa0552960:three_prime_UTR	30.0%
TTAGGAGAGTTTGTGATTAA+GGG	-	chr4_1:49756137-49756156	None:intergenic	30.0%
TTTAGGAGAGTTTGTGATTA+AGG	-	chr4_1:49756138-49756157	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	49753724	49756235	49753724	ID=Msa0552960;Name=Msa0552960
chr4_1	mRNA	49753724	49756235	49753724	ID=Msa0552960-mRNA-1;Parent=Msa0552960;Name=Msa0552960-mRNA-1;_AED=0.11;_eAED=0.11;_QI=230\|1\|1\|1\|0.75\|0.6\|5\|423\|282
chr4_1	exon	49753724	49753935	49753724	ID=Msa0552960-mRNA-1:exon:13984;Parent=Msa0552960-mRNA-1
chr4_1	exon	49754505	49754622	49754505	ID=Msa0552960-mRNA-1:exon:13985;Parent=Msa0552960-mRNA-1
chr4_1	exon	49754881	49755008	49754881	ID=Msa0552960-mRNA-1:exon:13986;Parent=Msa0552960-mRNA-1
chr4_1	exon	49755098	49755565	49755098	ID=Msa0552960-mRNA-1:exon:13987;Parent=Msa0552960-mRNA-1
chr4_1	exon	49755660	49756235	49755660	ID=Msa0552960-mRNA-1:exon:13988;Parent=Msa0552960-mRNA-1
chr4_1	five_prime_UTR	49753724	49753935	49753724	ID=Msa0552960-mRNA-1:five_prime_utr;Parent=Msa0552960-mRNA-1
chr4_1	five_prime_UTR	49754505	49754522	49754505	ID=Msa0552960-mRNA-1:five_prime_utr;Parent=Msa0552960-mRNA-1
chr4_1	CDS	49754523	49754622	49754523	ID=Msa0552960-mRNA-1:cds;Parent=Msa0552960-mRNA-1
chr4_1	CDS	49754881	49755008	49754881	ID=Msa0552960-mRNA-1:cds;Parent=Msa0552960-mRNA-1
chr4_1	CDS	49755098	49755565	49755098	ID=Msa0552960-mRNA-1:cds;Parent=Msa0552960-mRNA-1
chr4_1	CDS	49755660	49755812	49755660	ID=Msa0552960-mRNA-1:cds;Parent=Msa0552960-mRNA-1
chr4_1	three_prime_UTR	49755813	49756235	49755813	ID=Msa0552960-mRNA-1:three_prime_utr;Parent=Msa0552960-mRNA-1

Gene Sequence

>Msa0552960

ATGGAAATTACACCTGCTAGAAAGACACAAAAGGCTGACCGAGAAAAGTTAAGGAGGGATCGACTCAATGAACAGTTTTTAGAGCTGGGTAACATTTTAGACCCTGATAGGCCTAAAAATGATAAAGCGACCATTCTAGGAGATACAGTTCAATTGCTGAAGGACCTTACTTCTCAAGTTAGTAAACTAAAAGATGAATATACTATGCTAAATGAAGAATCTCGTGAGTTGTCTCAGGAGAAAAATGATCTCAGAGAAGAAAAGGCTTCTCTTAAATCAGATATTGAGAATTTGAATAACCAGTATCAGCTGCAACTAAGGACTATGTATCCATGGCCTGCAATGGATCATTCCGTTATGATGGCTCCACCAACATATCCGTATCCAGTTCCAATGCCGGTACCTGCTGGTTCAATTCCCATGCAGCCGTACCCCTACTATGCTAATCAACATCCTGCAGTCATCCCTAACCCTTGTTCAACATATGTTCCCTTTTTAGCTCCGAATACAATTGTTGAACAACAATCCACTCAATACGTATCCCCGCCTCTTCATCCAGGTAGCCGGTCCCACGTATCAGGAAAACAAGACTCCAAAAACAAATCATCCAGGGAGAGCAAGGCTCAAAGAAATGAGGATTCTAATGATGTAGCCACAGACCTTGAGTTGAAGACTCCTGGGTCTTCCGCAGATCAGGATTTAACATCCGCACAAAAAAAATCTAGTAAGTCGTCGAGGAAGGAAACCAGTTTCACAGAAGGTAGTTCGTTAGGCAAGTGTTCTTCATCTCACAGTGTTCAGGATAGCTCATCAAGTAGTGTAGTGGGGAGCAGAAAGGCTAGTGAATGA

Protein sequence

>Msa0552960

MEITPARKTQKADREKLRRDRLNEQFLELGNILDPDRPKNDKATILGDTVQLLKDLTSQVSKLKDEYTMLNEESRELSQEKNDLREEKASLKSDIENLNNQYQLQLRTMYPWPAMDHSVMMAPPTYPYPVPMPVPAGSIPMQPYPYYANQHPAVIPNPCSTYVPFLAPNTIVEQQSTQYVSPPLHPGSRSHVSGKQDSKNKSSRESKAQRNEDSNDVATDLELKTPGSSADQDLTSAQKKSSKSSRKETSFTEGSSLGKCSSSHSVQDSSSSSVVGSRKASE*