AlfalfaGEDB | Msa0335120

M. sativa cultivar zhongmu-4 / Msa0335120

KEGG: -
GO: -
PFAM: PF04640.17

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
Msa0335120	RHN75377.1	74.627	134	22	1	1	122	2	135	1.06e-65	209

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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
No data available in table

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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
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TFs/TRs:

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Gene ID	Type	Classification
Msa0335120	TF	PLATZ

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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
Msa0335120	MtrunA17_Chr2g0320521	74.627	134	22	1	1	122	2	135	9.74e-70	209
Msa0335120	MtrunA17_Chr4g0020811	58.209	134	44	1	1	122	2	135	2.35e-47	149
Msa0335120	MtrunA17_Chr2g0308401	57.143	133	45	1	2	122	1	133	7.73e-46	145
Msa0335120	MtrunA17_Chr2g0320561	49.624	133	55	1	2	122	1	133	7.90e-42	138
Msa0335120	MtrunA17_Chr2g0320551	51.128	133	53	1	2	122	1	133	1.09e-41	135
Msa0335120	MtrunA17_Chr1g0179781	41.481	135	57	4	1	122	2	127	2.66e-27	100
Msa0335120	MtrunA17_Chr7g0265291	37.778	135	61	3	2	122	4	129	5.66e-24	91.7
Msa0335120	MtrunA17_Chr5g0411151	35.338	133	66	4	1	122	31	154	1.53e-22	88.6
Msa0335120	MtrunA17_Chr5g0395181	35.156	128	63	4	6	122	22	140	6.36e-22	86.3
Msa0335120	MtrunA17_Chr8g0366581	35.156	128	63	3	6	122	34	152	2.39e-21	85.5

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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
Msa0335120	AT4G17900.2	40.650	123	53	4	6	117	21	134	3.19e-22	87.4
Msa0335120	AT4G17900.1	40.650	123	53	4	6	117	35	148	3.30e-22	87.8
Msa0335120	AT1G43000.2	36.090	133	65	3	1	122	12	135	1.74e-21	85.9
Msa0335120	AT1G43000.1	36.090	133	65	3	1	122	5	128	1.92e-21	85.5
Msa0335120	AT1G32700.1	37.795	127	59	4	7	122	14	131	3.51e-21	84.7
Msa0335120	AT2G27930.3	34.884	129	70	3	7	122	6	133	8.88e-19	77.4
Msa0335120	AT2G27930.2	34.884	129	70	3	7	122	6	133	8.88e-19	77.4
Msa0335120	AT2G27930.1	34.884	129	70	3	7	122	6	133	1.20e-18	77.8
Msa0335120	AT2G27930.4	34.884	129	70	3	7	122	6	133	1.20e-18	77.8
Msa0335120	AT1G21000.1	33.083	133	69	3	1	122	12	135	9.49e-18	76.6

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Find 12 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACATTATGTAAAAGTAATA+AGG	0.320284	2_4:+54190745	None:intergenic
AATCTTGTATCTCATTGATT+GGG	0.448397	2_4:+54190828	None:intergenic
AGATACAAGATTGGTATAAT+TGG	0.287922	2_4:-54190817	Msa0335120:CDS
AGGATATGATGGTTATGCCC+TGG	0.608474	2_4:-54191310	Msa0335120:CDS
ATATGTCAAAGAAATCTTGT+GGG	0.576587	2_4:-54190769	Msa0335120:CDS
CAATCAATGAGATACAAGAT+TGG	0.552028	2_4:-54190826	Msa0335120:CDS
CAATCTTGTATCTCATTGAT+TGG	0.323377	2_4:+54190827	None:intergenic
CGACTGTATTCATAAACAAG+AGG	0.573759	2_4:-54190858	Msa0335120:CDS
GATATGTCAAAGAAATCTTG+TGG	0.556486	2_4:-54190770	Msa0335120:CDS
GATTGATATTTACAAGTATT+TGG	0.197324	2_4:-54190920	Msa0335120:CDS

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CRISPR-GE

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badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	TACAAGTATTTGGACTTTCT+AGG	-	chr2_4:54191139-54191158	Msa0335120:intron	30.0%
	CAATCTTGTATCTCATTGAT+TGG	+	chr2_4:54191225-54191244	None:intergenic	30.0%
	CAATCAATGAGATACAAGAT+TGG	-	chr2_4:54191223-54191242	Msa0335120:intron	30.0%
	GATATGTCAAAGAAATCTTG+TGG	-	chr2_4:54191279-54191298	Msa0335120:CDS	30.0%
	CACTTTAAACAACAGTCACT+TGG	+	chr2_4:54190920-54190939	None:intergenic	35.0%
	CGACTGTATTCATAAACAAG+AGG	-	chr2_4:54191191-54191210	Msa0335120:intron	35.0%
	TTGGAACTACAAATCAGGTG+AGG	-	chr2_4:54191077-54191096	Msa0335120:intron	40.0%
!	ATTTGTAGTTCCAAATATCA+AGG	+	chr2_4:54191071-54191090	None:intergenic	25.0%
!	AGATACAAGATTGGTATAAT+TGG	-	chr2_4:54191232-54191251	Msa0335120:CDS	25.0%
!	ATATGTCAAAGAAATCTTGT+GGG	-	chr2_4:54191280-54191299	Msa0335120:CDS	25.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	54190741	54191330	54190741	ID=Msa0335120;Name=Msa0335120
chr2_4	mRNA	54190741	54191330	54190741	ID=Msa0335120-mRNA-1;Parent=Msa0335120;Name=Msa0335120-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0\|0\|0\|1\|0\|0\|3\|0\|126
chr2_4	exon	54191230	54191330	54191230	ID=Msa0335120-mRNA-1:exon:16389;Parent=Msa0335120-mRNA-1
chr2_4	exon	54191151	54191193	54191151	ID=Msa0335120-mRNA-1:exon:16388;Parent=Msa0335120-mRNA-1
chr2_4	exon	54190741	54190977	54190741	ID=Msa0335120-mRNA-1:exon:16387;Parent=Msa0335120-mRNA-1
chr2_4	CDS	54191230	54191330	54191230	ID=Msa0335120-mRNA-1:cds;Parent=Msa0335120-mRNA-1
chr2_4	CDS	54191151	54191193	54191151	ID=Msa0335120-mRNA-1:cds;Parent=Msa0335120-mRNA-1
chr2_4	CDS	54190741	54190977	54190741	ID=Msa0335120-mRNA-1:cds;Parent=Msa0335120-mRNA-1

Gene Sequence	>Msa0335120 GATATGATGGTTATGCCCTGGTTGAAAAATTTGCTTTCAATCACTGCATTTTTCACTAAATGTGAAGTTCAACCGAACGAGTCAAAATATGAGCGCATCATATTTTGCATAAAATCTCATCACAAAGATCATCAAGTAATCCAAGTGAGGAGATCATCTTATACTGACGTTGTTAAGACGATTGATATTTACAAGTATTTGGACTTTCTAGGAATTCAAACGTATGTGATTAGCAACTTTACGACTGTATTCATAAACAAGAGGCCTTATTCCCAATCAATGAGATACAAGATTGGTATAATTGGTTGTAGTAGTGACTATCTTTGTAAGATATGTCAAAGAAATCTTGTGGGTCCTTATTACTTTTACATAATGTTTTAA
Protein sequence	>Msa0335120 DMMVMPWLKNLLSITAFFTKCEVQPNESKYERIIFCIKSHHKDHQVIQVRRSSYTDVVKTIDIYKYLDFLGIQTYVISNFTTVFINKRPYSQSMRYKIGIIGCSSDYLCKICQRNLVGPYYFYIMF*