AlfalfaGEDB | Msa0262140

M. sativa cultivar zhongmu-4 / Msa0262140

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
Msa0262140	XP_039687055.1	47.867	211	57	3	1	158	1	211	2.42e-44	155

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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
Msa0262140	A0A072VCG2	47.867	211	57	3	1	158	1	211	1.16e-44	155

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TFs/TRs:

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Gene ID	Type	Classification
Msa0262140	TF	bHLH

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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
Msa0262140	MtrunA17_Chr2g0324511	68.116	69	19	1	1	69	1	66	3.24e-23	89.7
Msa0262140	MtrunA17_Chr2g0324531	76.000	50	12	0	109	158	3	52	2.41e-21	81.6
Msa0262140	MtrunA17_Chr4g0040201	60.317	63	20	2	9	69	8	67	2.48e-14	67.4
Msa0262140	MtrunA17_Chr4g0040201	64.286	42	15	0	109	150	160	201	1.82e-12	62.4

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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
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Find 37 sgRNAs with CRISPR-Local

Find 278 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACTATCTTTCTTTCGACTT+TGG	0.382287	2_2:-60861707	None:intergenic
AAGGCCTATAAATTAGAGCA+TGG	0.635613	2_2:+60865241	Msa0262140:CDS
AATACAGACGCATTTGATAT+TGG	0.233999	2_2:+60865078	Msa0262140:intron
ACCTCAAATTGATTGAGTCC+TGG	0.525940	2_2:-60865160	None:intergenic
AGATAGACAATGAGTTGAAT+AGG	0.389032	2_2:+60865119	Msa0262140:CDS
AGATTGAAAGCATTTGTGGA+AGG	0.584279	2_2:+60867207	Msa0262140:CDS
ATACAGACGCATTTGATATT+GGG	0.358600	2_2:+60865079	Msa0262140:intron
ATGGATCATAATCAACAAGG+AGG	0.711780	2_2:+60861667	Msa0262140:CDS
ATTGGGTACGGATCTCAACA+AGG	0.665088	2_2:+60865096	Msa0262140:CDS
ATTTCAAGATCCCACAATTG+AGG	0.491118	2_2:-60867255	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AACTATCTTTCTTTCGACTT+TGG	-	chr2_2:60861710-60861729	None:intergenic	30.0%
TAGAAAAGAGGATCTTCATT+TGG	-	chr2_2:60861750-60861769	None:intergenic	30.0%
TCACCTTTGGATTATAGTTA+GGG	-	chr2_2:60861789-60861808	None:intergenic	30.0%
TTCACCTTTGGATTATAGTT+AGG	-	chr2_2:60861790-60861809	None:intergenic	30.0%
CATGTATGTATATTCATGTG+AGG	+	chr2_2:60861894-60861913	Msa0262140:intron	30.0%
TACAAGTGATTGTAACATGT+GGG	-	chr2_2:60862886-60862905	None:intergenic	30.0%
GGAGAAGAAAGAAAGTTTAA+TGG	-	chr2_2:60862999-60863018	None:intergenic	30.0%
TAGGGTTTAGTAATAAGAAG+AGG	+	chr2_2:60863167-60863186	Msa0262140:intron	30.0%
ATAGTGTGACATTGGTAAAT+TGG	+	chr2_2:60863805-60863824	Msa0262140:intron	30.0%
TCATTAGTACATGTTTAGGA+GGG	-	chr2_2:60864115-60864134	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_2	gene	60861667	60867311	60861667	ID=Msa0262140;Name=Msa0262140
chr2_2	mRNA	60861667	60867311	60861667	ID=Msa0262140-mRNA-1;Parent=Msa0262140;Name=Msa0262140-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0\|0\|0\|0.5\|0\|0\|4\|0\|158
chr2_2	exon	60861667	60861804	60861667	ID=Msa0262140-mRNA-1:exon:18742;Parent=Msa0262140-mRNA-1
chr2_2	exon	60865085	60865262	60865085	ID=Msa0262140-mRNA-1:exon:18743;Parent=Msa0262140-mRNA-1
chr2_2	exon	60865951	60865958	60865951	ID=Msa0262140-mRNA-1:exon:18744;Parent=Msa0262140-mRNA-1
chr2_2	exon	60867162	60867311	60867162	ID=Msa0262140-mRNA-1:exon:18745;Parent=Msa0262140-mRNA-1
chr2_2	CDS	60861667	60861804	60861667	ID=Msa0262140-mRNA-1:cds;Parent=Msa0262140-mRNA-1
chr2_2	CDS	60865085	60865262	60865085	ID=Msa0262140-mRNA-1:cds;Parent=Msa0262140-mRNA-1
chr2_2	CDS	60865951	60865958	60865951	ID=Msa0262140-mRNA-1:cds;Parent=Msa0262140-mRNA-1
chr2_2	CDS	60867162	60867311	60867162	ID=Msa0262140-mRNA-1:cds;Parent=Msa0262140-mRNA-1

Gene Sequence

>Msa0262140

ATGGATCATAATCAACAAGGAGGTCGACCTTGTTCTTCAACCAAAGTCGAAAGAAAGATAGTTGAGAAAAATAGGAGAAACCAAATGAAGATCCTCTTTTCTAAACTCAACTCTCTTCTCCCTAACTATAATCCAAAGACGCATTTGATATTGGGTACGGATCTCAACAAGGAGATAGACAATGAGTTGAATAGGTATGTCACTTTAATCGATCCAGGACTCAATCAATTTGAGGTTGTCGTGGATAAATATGATGGAAAGCTGTATTTCTCTCATGGAATAGAAGAACTGAACAAGGCCTATAAATTAGAGCATGGATGCTATATTCCGCAATCTTTGTTACGATTTGGAGAAACCAAAATAGGCGAGAGATTGAAAGCATTTGTGGAAGGATCCGTGAGCGATGTGGAAACACAACCTCAATTGTGGGATCTTGAAATTGGAAGTGAGAGTTGGGAGCTTCTACATTCTGTA

Protein sequence

>Msa0262140

MDHNQQGGRPCSSTKVERKIVEKNRRNQMKILFSKLNSLLPNYNPKTHLILGTDLNKEIDNELNRYVTLIDPGLNQFEVVVDKYDGKLYFSHGIEELNKAYKLEHGCYIPQSLLRFGETKIGERLKAFVEGSVSDVETQPQLWDLEIGSESWELLHSV