AlfalfaGEDB | Msa0299960

M. sativa cultivar zhongmu-4 / Msa0299960

KEGG: -
GO: -
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
Msa0299960	XP_013465109.1	85.714	217	24	3	1	210	1	217	7.47e-125	362

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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
Msa0299960	sp\|F4JIJ7\|BH162_ARATH	40.884	181	87	6	12	175	11	188	4.48e-33	120

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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
Msa0299960	A0A072VAT4	85.714	217	24	3	1	210	1	217	3.57e-125	362

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TFs/TRs:

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Gene ID	Type	Classification
Msa0299960	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
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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
Msa0299960	MtrunA17_Chr2g0324511	82.209	163	19	2	1	153	1	163	5.81e-90	261
Msa0299960	MtrunA17_Chr4g0040201	65.979	194	58	4	9	194	8	201	2.67e-83	246
Msa0299960	MtrunA17_Chr2g0324521	86.957	115	9	2	45	153	2	116	1.09e-63	193
Msa0299960	MtrunA17_Chr2g0324571	80.342	117	15	1	45	153	2	118	2.08e-62	190
Msa0299960	MtrunA17_Chr2g0324531	84.746	59	9	0	152	210	2	60	6.17e-30	105
Msa0299960	MtrunA17_Chr2g0282341	39.552	134	69	3	48	173	4	133	4.86e-28	102

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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
Msa0299960	AT4G20970.1	40.884	181	87	6	12	175	11	188	4.55e-34	120
Msa0299960	AT1G10585.1	29.825	171	114	3	7	175	9	175	4.11e-15	70.9
Msa0299960	AT1G10586.1	26.471	170	119	3	7	174	9	174	4.37e-12	62.4
Msa0299960	AT5G51780.1	29.586	169	105	3	14	169	3	170	1.47e-11	61.2
Msa0299960	AT5G51780.2	29.586	169	105	3	14	169	26	193	2.07e-11	61.2

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Find 49 sgRNAs with CRISPR-Local

Find 250 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATAGAGATTCATGAAAT+GGG	0.456591	2_3:-55254118	Msa0299960:CDS
AACAAGAAAGAAAGTTTAAA+AGG	0.273993	2_3:-55254157	Msa0299960:CDS
AACAGCCTTTCTTTCGACTT+TGG	0.416457	2_3:+55255351	None:intergenic
AATTCGAAGGTTTCTTTCAA+TGG	0.323190	2_3:-55255407	Msa0299960:exon
ACAAGTGATTGTAACATGTG+GGG	0.739715	2_3:-55254086	Msa0299960:CDS
ACTGCATGAAGAGAACGTCG+AGG	0.768331	2_3:-55254026	Msa0299960:CDS
AGAGAAGAAAGAAAGTTTAA+TGG	0.275748	2_3:-55254182	Msa0299960:CDS
AGAGTTTGTGAACGGATCTA+TGG	0.326191	2_3:-55253226	Msa0299960:CDS
AGGAAGAAGAGAGTTGAGTT+TGG	0.335218	2_3:+55255291	None:intergenic
AGGTTGAAAGAGTTTGTGAA+CGG	0.618184	2_3:-55253234	Msa0299960:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATTCGAAGGTTTCTTTCAA+TGG	-	chr2_3:55253207-55253226	Msa0299960:CDS	30.0%
TGGAACATAATCAACAAGAA+TGG	-	chr2_3:55253227-55253246	Msa0299960:CDS	30.0%
TCTTCCTAGCTATAATTCTA+AGG	-	chr2_3:55253339-55253358	Msa0299960:intron	30.0%
TTCACCTTAGAATTATAGCT+AGG	+	chr2_3:55253346-55253365	None:intergenic	30.0%
AATCCTTAAACAATGCCTTT+AGG	+	chr2_3:55253416-55253435	None:intergenic	30.0%
GAAATGTTAACAAGTGTTCT+TGG	+	chr2_3:55253547-55253566	None:intergenic	30.0%
GATGAAGAAAATAGTTTCGT+AGG	+	chr2_3:55254000-55254019	None:intergenic	30.0%
GGGTTTATGAAGGAAAAAAA+GGG	+	chr2_3:55254262-55254281	None:intergenic	30.0%
TGGGTTTATGAAGGAAAAAA+AGG	+	chr2_3:55254263-55254282	None:intergenic	30.0%
GTGAAATTTCACAAGTATGA+TGG	+	chr2_3:55254283-55254302	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	55253098	55255538	55253098	ID=Msa0299960;Name=Msa0299960
chr2_3	mRNA	55253098	55255538	55253098	ID=Msa0299960-mRNA-1;Parent=Msa0299960;Name=Msa0299960-mRNA-1;_AED=0.03;_eAED=0.03;_QI=128\|1\|1\|1\|1\|1\|3\|27\|210
chr2_3	exon	55253098	55253301	55253098	ID=Msa0299960-mRNA-1:exon:17657;Parent=Msa0299960-mRNA-1
chr2_3	exon	55253967	55254287	55253967	ID=Msa0299960-mRNA-1:exon:17656;Parent=Msa0299960-mRNA-1
chr2_3	exon	55255276	55255538	55255276	ID=Msa0299960-mRNA-1:exon:17655;Parent=Msa0299960-mRNA-1
chr2_3	five_prime_UTR	55255411	55255538	55255411	ID=Msa0299960-mRNA-1:five_prime_utr;Parent=Msa0299960-mRNA-1
chr2_3	CDS	55255276	55255410	55255276	ID=Msa0299960-mRNA-1:cds;Parent=Msa0299960-mRNA-1
chr2_3	CDS	55253967	55254287	55253967	ID=Msa0299960-mRNA-1:cds;Parent=Msa0299960-mRNA-1
chr2_3	CDS	55253125	55253301	55253125	ID=Msa0299960-mRNA-1:cds;Parent=Msa0299960-mRNA-1
chr2_3	three_prime_UTR	55253098	55253124	55253098	ID=Msa0299960-mRNA-1:three_prime_utr;Parent=Msa0299960-mRNA-1

Gene Sequence

>Msa0299960

ATGGAACATAATCAACAAGAATGGCAACCTTCTTCAACCAAAGTCGAAAGAAAGGCTGTTGAGAAAAATAGGAGAAATCAGATGAAGATCCTCTATTCCAAACTCAACTCTCTTCTTCCTAGCTATAATTCTAAGGAATTAACGTTACCATTACCTGATCAAGTAGATGAGGCTATAAACTACATAAAGAGCCTAGAGACAAATCTAAAGTTGGCAAAAGAGAAGAAAGAAAGTTTAATGGGAAACAAGAAAGAAAGTTTAAAAGGAAGCATAAAGTTGCCAAAAATAGAGATTCATGAAATGGGACCCACTCTACAAGTGATTGTAACATGTGGGGTTGATGACCATTTTATTTTCTGTGAAATTATGAGAATACTGCATGAAGAGAACGTCGAGGTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTACATGCTCAGATTCCGCAAACTTTGTTACAATTTGGAGCAATCAAAATAAGTGAGAGGTTGAAAGAGTTTGTGAACGGATCTATGGGCGATGTGGAAACACAGTCTCAATTGTGGGATCTTGAAATTGGATCTGAGAGTTGGGAGCTTCTACATTCTGTAGTAACCATGAGTTTACCAAATCCTTAA

Protein sequence

>Msa0299960

MEHNQQEWQPSSTKVERKAVEKNRRNQMKILYSKLNSLLPSYNSKELTLPLPDQVDEAINYIKSLETNLKLAKEKKESLMGNKKESLKGSIKLPKIEIHEMGPTLQVIVTCGVDDHFIFCEIMRILHEENVEVISSNSSLAGDSLLHTVHAQIPQTLLQFGAIKISERLKEFVNGSMGDVETQSQLWDLEIGSESWELLHSVVTMSLPNP*