AlfalfaGEDB | Msa0076680

M. sativa cultivar zhongmu-4 / Msa0076680

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
Msa0076680	sp\|Q8S3D5\|LRL2_ARATH	36.154	130	81	1	189	316	136	265	3.29e-17	84.0

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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
Msa0076680	G7IEF8	91.692	325	26	1	1	324	1	325	0.0	612

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TFs/TRs:

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Gene ID	Type	Classification
Msa0076680	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
Msa0076680	MtrunA17_Chr1g0185741	90.759	303	27	1	1	302	1	303	0.0	566
Msa0076680	MtrunA17_Chr4g0074161	35.811	148	75	3	189	316	212	359	1.04e-17	83.2
Msa0076680	MtrunA17_Chr1g0190731	33.577	137	79	1	189	313	199	335	1.23e-15	76.6
Msa0076680	MtrunA17_Chr1g0184841	33.333	117	66	1	212	316	149	265	1.04e-11	64.3

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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
Msa0076680	AT5G64980.1	44.715	123	66	2	190	310	218	340	1.55e-22	96.7
Msa0076680	AT5G64980.2	44.715	123	66	2	190	310	218	340	1.55e-22	96.7
Msa0076680	AT2G24260.2	34.132	167	83	5	169	316	23	181	2.99e-18	83.2
Msa0076680	AT4G30980.1	36.154	130	81	1	189	316	136	265	3.35e-18	84.0
Msa0076680	AT4G30980.2	36.154	130	81	1	189	316	184	313	5.83e-18	84.0
Msa0076680	AT2G24260.1	34.132	167	83	5	169	316	126	284	1.20e-17	82.8
Msa0076680	AT5G58010.1	33.108	148	75	4	189	314	105	250	1.62e-14	73.2
Msa0076680	AT1G03040.2	28.962	183	112	3	146	310	91	273	1.02e-12	68.2
Msa0076680	AT1G03040.1	29.630	189	110	4	145	310	90	278	1.24e-12	67.8
Msa0076680	AT4G02590.3	33.628	113	61	1	212	310	112	224	1.65e-11	63.9

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Find 77 sgRNAs with CRISPR-Local

Find 153 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAACAGATTACCACATC+TGG	0.432844	1_2:-52906205	None:intergenic
AAACAAGGGTTAAAACTTAA+AGG	0.276505	1_2:-52904707	None:intergenic
AAAGGCTTAAAAGGGTATCA+TGG	0.502625	1_2:-52904616	None:intergenic
AACCAACACTTTGGAAGAAG+TGG	0.489754	1_2:+52904853	Msa0076680:CDS
AACTGAACCAAGCTATGCAA+TGG	0.660513	1_2:+52907196	Msa0076680:CDS
AAGTAGCCATGATGTTTCTG+AGG	0.620893	1_2:+52904816	Msa0076680:CDS
AAGTTAGAGAAAGAAAGGTA+TGG	0.549135	1_2:-52904577	None:intergenic
AATAGCCATTATCACACTCT+TGG	0.527667	1_2:+52904991	Msa0076680:CDS
AATTAACTAACCTCAGCATA+GGG	0.551131	1_2:-52905295	None:intergenic
ACAACTGAGTATAATATGAT+TGG	0.400574	1_2:+52904967	Msa0076680:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGTTAGAGAAAGAAAGGTA+TGG	-	chr1_2:52904580-52904599	None:intergenic	30.0%
GAGTAATGAAAAAGTGGTAA+AGG	-	chr1_2:52904678-52904697	None:intergenic	30.0%
GAAGTTGAGTAATGAAAAAG+TGG	-	chr1_2:52904684-52904703	None:intergenic	30.0%
GTAGTGAAAACAAAAATGGA+AGG	+	chr1_2:52904736-52904755	Msa0076680:exon	30.0%
CAAATTCAAAACCAACACTT+TGG	+	chr1_2:52904844-52904863	Msa0076680:CDS	30.0%
AGGAAGGTAAAGTTAATGAA+TGG	+	chr1_2:52905099-52905118	Msa0076680:intron	30.0%
AATTAACTAACCTCAGCATA+GGG	-	chr1_2:52905298-52905317	None:intergenic	30.0%
TATGCAAACGTGAAACTATT+TGG	-	chr1_2:52905718-52905737	None:intergenic	30.0%
GCTTCTCAATTTGATCATAT+AGG	+	chr1_2:52905861-52905880	Msa0076680:CDS	30.0%
CCATCTCTGATAAAATCATA+AGG	+	chr1_2:52905991-52906010	Msa0076680:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	52904519	52907485	52904519	ID=Msa0076680;Name=Msa0076680
chr1_2	mRNA	52904519	52907485	52904519	ID=Msa0076680-mRNA-1;Parent=Msa0076680;Name=Msa0076680-mRNA-1;_AED=0.01;_eAED=0.01;_QI=232\|1\|1\|1\|1\|1\|7\|249\|324
chr1_2	exon	52904519	52905104	52904519	ID=Msa0076680-mRNA-1:exon:16350;Parent=Msa0076680-mRNA-1
chr1_2	exon	52905223	52905306	52905223	ID=Msa0076680-mRNA-1:exon:16351;Parent=Msa0076680-mRNA-1
chr1_2	exon	52905816	52905974	52905816	ID=Msa0076680-mRNA-1:exon:16352;Parent=Msa0076680-mRNA-1
chr1_2	exon	52906148	52906213	52906148	ID=Msa0076680-mRNA-1:exon:16353;Parent=Msa0076680-mRNA-1
chr1_2	exon	52906365	52906430	52906365	ID=Msa0076680-mRNA-1:exon:16354;Parent=Msa0076680-mRNA-1
chr1_2	exon	52906582	52906641	52906582	ID=Msa0076680-mRNA-1:exon:16355;Parent=Msa0076680-mRNA-1
chr1_2	exon	52907051	52907485	52907051	ID=Msa0076680-mRNA-1:exon:16356;Parent=Msa0076680-mRNA-1
chr1_2	five_prime_UTR	52904519	52904750	52904519	ID=Msa0076680-mRNA-1:five_prime_utr;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52904751	52905104	52904751	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52905223	52905306	52905223	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52905816	52905974	52905816	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52906148	52906213	52906148	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52906365	52906430	52906365	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52906582	52906641	52906582	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	CDS	52907051	52907236	52907051	ID=Msa0076680-mRNA-1:cds;Parent=Msa0076680-mRNA-1
chr1_2	three_prime_UTR	52907237	52907485	52907237	ID=Msa0076680-mRNA-1:three_prime_utr;Parent=Msa0076680-mRNA-1

Gene Sequence

>Msa0076680

ATGGAAGGAGAAAGTAACAACAAAGAGAACAGTTCAGAGCAACTTTCATATGAAAATGAAGGAACAAGTAGCCATGATGTTTCTGAGGAACATCAAATTCAAAACCAACACTTTGGAAGAAGTGGGATAGAGTGGAATTTCTTACCAAAACTACCTCAAAATAACTATGTTGAATATCTCTCTGAATCCTCATGCTATCTTCCAAACACTACTACAACAACTGAGTATAATATGATTGGGAATAGCCATTATCACACTCTTGGTAGTAGCAGCAGCAGTTTCAATGATCCTGGAAAAGCTGATTTTGGTTTTAAGCTTATTGATTCTTCAAGTCATGATTTTGGTGTTAGGAAGCATGTAGGATTTTGGAGACATGATGAAGGAGAGGAAGCACTTCAAGTTGAAACTAGAAGTAGTCAAAATCTTCCCTATGCTGAGGGTCATGCAACATGGACACCTGATTCAGTTGGAGATAAGCAATATGCTTCTCAATTTGATCATATAGGAGTAGTTGCTGCACCTTCTTTACTTCCAGATCCAAAATCAGGAGGTAGCTCCACAAAACAGAAAAGTGAGAAAACACGTTACTCTGATCGTCAACGCAGGCAACGTATCGCTGATAACCTCAAAGCTTTACATGAATTGCTGCCGACTCCAGATGTGGGTAGTCAAGCTTACATATTGGATGATATCATTGACTATGTTAAATACTTGCAGATTCAAGTGAAGGAACTAAGTGGAAGTAAATTGCAAGCTGATTCAAATGCTATACCACTAGTTTTCCATGAGGGTTATGGGCATTATATAAAGGAACAGATTTTGAATGAGCCTCTTGAAGAGATAATGGGGAAACTACTAGAAGTGAATTCAGCAGAAACATGTCAGCTACTTGAAAACAAAGGTCTTGTTCTGCTGCCTATTGCTTTGGTTGATGAACTGAACCAAGCTATGCAATGGTTGAACCAAGCTAGCTAG

Protein sequence

>Msa0076680

MEGESNNKENSSEQLSYENEGTSSHDVSEEHQIQNQHFGRSGIEWNFLPKLPQNNYVEYLSESSCYLPNTTTTTEYNMIGNSHYHTLGSSSSSFNDPGKADFGFKLIDSSSHDFGVRKHVGFWRHDEGEEALQVETRSSQNLPYAEGHATWTPDSVGDKQYASQFDHIGVVAAPSLLPDPKSGGSSTKQKSEKTRYSDRQRRQRIADNLKALHELLPTPDVGSQAYILDDIIDYVKYLQIQVKELSGSKLQADSNAIPLVFHEGYGHYIKEQILNEPLEEIMGKLLEVNSAETCQLLENKGLVLLPIALVDELNQAMQWLNQAS*