AlfalfaGEDB | Msa0411880

M. sativa cultivar zhongmu-4 / Msa0411880

KEGG: -
GO: -
PFAM: PF13855.9

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
Msa0411880	PNY13842.1	33.908	174	107	4	13	181	200	370	1.24e-12	79.7
Msa0411880	PNY13842.1	75.986	279	65	2	1	279	314	590	6.36e-145	429

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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
Msa0411880	sp\|Q6JN46\|EIX2_SOLLC	36.770	291	155	5	5	272	726	1010	1.30e-46	170
Msa0411880	sp\|Q6JN46\|EIX2_SOLLC	30.392	204	129	4	1	202	556	748	6.53e-17	84.0
Msa0411880	sp\|Q6JN46\|EIX2_SOLLC	27.381	168	105	4	1	151	601	768	2.56e-12	70.5

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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
Msa0411880	A0A2K3PEX8	33.908	174	107	4	13	181	200	370	5.95e-13	79.7
Msa0411880	A0A2K3PEX8	75.986	279	65	2	1	279	314	590	3.04e-145	429

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TFs/TRs:

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Gene ID	Type	Classification
No data available in table

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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0411880	Msa1198090	0.801952	7.062509e-49	-8.615850e-47

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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
Msa0411880	MtrunA17_Chr3g0097501	72.727	275	73	2	5	279	20	292	7.98e-144	405
Msa0411880	MtrunA17_Chr4g0023651	72.043	279	75	2	1	279	223	498	5.22e-141	406
Msa0411880	MtrunA17_Chr3g0095011	73.477	279	70	3	1	279	522	796	4.14e-140	413
Msa0411880	MtrunA17_Chr4g0003781	70.567	282	79	2	1	279	314	594	1.21e-139	406
Msa0411880	MtrunA17_Chr3g0097331	72.401	279	74	2	1	279	427	702	6.74e-139	407
Msa0411880	MtrunA17_Chr3g0097331	31.034	174	81	5	4	176	339	474	3.26e-12	66.6
Msa0411880	MtrunA17_Chr3g0097331	29.333	150	75	1	22	171	116	234	3.78e-12	66.2
Msa0411880	MtrunA17_Chr3g0097761	73.091	275	71	2	5	279	524	795	1.57e-137	407
Msa0411880	MtrunA17_Chr3g0097761	31.707	123	77	1	49	171	212	327	3.62e-12	66.6
Msa0411880	MtrunA17_Chr3g0097281	69.176	279	83	2	1	279	40	315	1.94e-136	387

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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
Msa0411880	AT1G74170.1	33.106	293	157	5	4	261	667	955	2.23e-38	143
Msa0411880	AT1G74170.1	30.102	196	122	4	3	194	452	636	3.25e-15	76.3
Msa0411880	AT1G74170.1	31.461	178	111	4	3	180	549	715	9.99e-14	71.6
Msa0411880	AT1G74170.2	33.106	293	157	5	4	261	735	1023	2.83e-38	143
Msa0411880	AT1G74170.2	30.102	196	122	4	3	194	520	704	2.90e-15	76.3
Msa0411880	AT1G74170.2	31.461	178	111	4	3	180	617	783	9.59e-14	71.6
Msa0411880	AT4G20140.1	35.740	277	154	8	5	279	673	927	1.03e-37	142
Msa0411880	AT4G20140.1	33.511	188	108	2	5	175	265	452	7.10e-20	90.1
Msa0411880	AT4G20140.1	31.492	181	112	3	8	184	124	296	1.01e-18	86.7
Msa0411880	AT4G20140.1	33.333	168	104	1	4	171	409	568	4.13e-17	81.6

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Find 56 sgRNAs with CRISPR-Local

Find 132 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACTGCAACACCATATAT+AGG	0.414509	3_2:-54473635	Msa0411880:CDS
AAATACTATCGGTTTGTCGA+TGG	0.563958	3_2:-54473494	Msa0411880:CDS
AATATAAGCAATCCTAAGTT+TGG	0.359728	3_2:+54474247	None:intergenic
AATGGAGGCACAAATACTAT+CGG	0.597415	3_2:-54473505	Msa0411880:CDS
ACAATACCAGAGGCGATTGG+AGG	0.582187	3_2:-54473890	Msa0411880:CDS
ACAATTGAGTTCTTTACAAA+AGG	0.423314	3_2:-54474055	Msa0411880:CDS
ACACAATGACTCTCTTATAG+AGG	0.520093	3_2:+54473595	None:intergenic
AGAGGAGCTCCACATAATTT+TGG	0.182656	3_2:+54473689	None:intergenic
AGAGTCATTGTGTCTAGGCA+TGG	0.539936	3_2:-54473585	Msa0411880:CDS
AGGTCAATAGTTCGGCTTTC+CGG	0.258221	3_2:+54474007	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GTTATTCAATCTCACATCTT+TGG	-	chr3_2:54473498-54473517	Msa0411880:CDS	30.0%
TTAAACACATTTCATTGGTC+TGG	-	chr3_2:54473604-54473623	Msa0411880:CDS	30.0%
TTATCTCACAATAACATGAG+TGG	-	chr3_2:54473772-54473791	Msa0411880:CDS	30.0%
TTTAACGGAATCATACCAAA+GGG	-	chr3_2:54473931-54473950	Msa0411880:CDS	30.0%
ATTGGCAATCCAAAATTATG+TGG	-	chr3_2:54473988-54474007	Msa0411880:CDS	30.0%
AAAACTGCAACACCATATAT+AGG	-	chr3_2:54474051-54474070	Msa0411880:CDS	30.0%
TGTTTCTTATTAGGAAATGG+AGG	-	chr3_2:54474166-54474185	Msa0411880:CDS	30.0%
GTTATTCAATCTCACATCTT+TGG	-	chr3_2:54473498-54473517	Msa0411880:CDS	30.0%
TTAAACACATTTCATTGGTC+TGG	-	chr3_2:54473604-54473623	Msa0411880:CDS	30.0%
TTATCTCACAATAACATGAG+TGG	-	chr3_2:54473772-54473791	Msa0411880:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	54473433	54474275	54473433	ID=Msa0411880;Name=Msa0411880
chr3_2	mRNA	54473433	54474275	54473433	ID=Msa0411880-mRNA-1;Parent=Msa0411880;Name=Msa0411880-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|280
chr3_2	exon	54473433	54474275	54473433	ID=Msa0411880-mRNA-1:exon:11161;Parent=Msa0411880-mRNA-1
chr3_2	CDS	54473433	54474275	54473433	ID=Msa0411880-mRNA-1:cds;Parent=Msa0411880-mRNA-1

Gene Sequence

>Msa0411880

ATGCCACCAAACTTAGGATTGCTTATATTGAGAGCTAACCAGTTTGAAGGGACTATTCCAACACAGTTATTCAATCTCACATCTTTGGTACATTTGGACCTTGCACAAAACAAATTTTCAGGATCTATGCCAGAGTGTGCTTATAACTTGACTAGCATGATTACTTTAAATTTAAACACATTTCATTGGTCTGGTTCTACAATTGAGTTCTTTACAAAAGGTCATGATTATGTGTACAAGGTTCGACCGGAAAGCCGAACTATTGACCTTTCAGCCAATAGCTTGTCTGGAGAAGTGCCACCAGAATTATTTCGACTTGCTCAAGTTCAAACATTGAACTTATCTCACAATAACATGAGTGGAACAATACCAGAGGCGATTGGAGGCATGAAAAATATGGAGTCTCTTGATCTCTCTAATAATAACTTTTACGGGGAAGTTCCTCAGAGTATGACTCTCTTAAACTTTTTGGGTTATTTGAATCTATCTTGCAACAATTTTAACGGAATCATACCAAAGGGGATTCAACTTCAAAGTTTTAATGCATCGAGCTACATTGGCAATCCAAAATTATGTGGAGCTCCTCTTACTGTTTGTGCCGTGGAAGAAGAAAATCGTAAAACTGCAACACCATATATAGGAAATGAAGATGATGACTCCTCTATAAGAGAGTCATTGTGTCTAGGCATGGGAGTTGGATTTGGAGTAGGTTTCTGGTTGATTTGTGGTCCTTTGTTTCTTATTAGGAAATGGAGGCACAAATACTATCGGTTTGTCGATGGAGTGGGTGACAAGCTCTATGTAACTTTGATGGTAACGTTAAATAGCTTTCACAGAAAATGA

Protein sequence

>Msa0411880

MPPNLGLLILRANQFEGTIPTQLFNLTSLVHLDLAQNKFSGSMPECAYNLTSMITLNLNTFHWSGSTIEFFTKGHDYVYKVRPESRTIDLSANSLSGEVPPELFRLAQVQTLNLSHNNMSGTIPEAIGGMKNMESLDLSNNNFYGEVPQSMTLLNFLGYLNLSCNNFNGIIPKGIQLQSFNASSYIGNPKLCGAPLTVCAVEEENRKTATPYIGNEDDDSSIRESLCLGMGVGFGVGFWLICGPLFLIRKWRHKYYRFVDGVGDKLYVTLMVTLNSFHRK*