AlfalfaGEDB | Msa1321550

M. sativa cultivar zhongmu-4 / Msa1321550

KEGG: K07766
GO: GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0016787 GO:0016817 GO:0016818 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
PFAM: PF00293.31

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
Msa1321550	sp\|Q9LHK1\|NUD16_ARATH	72.000	175	46	2	1	172	1	175	4.26e-80	238

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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
Msa1321550	G7LGT1	97.674	172	4	0	1	172	1	172	3.14e-122	351

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TFs/TRs:

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Gene ID	Type	Classification
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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
Msa0005890	Msa1321550	0.815921	7.214876e-52	-8.615850e-47
Msa0077560	Msa1321550	0.812171	4.848982e-51	-8.615850e-47
Msa0098040	Msa1321550	0.800849	1.188474e-48	-8.615850e-47
Msa0175750	Msa1321550	0.803401	3.548586e-49	-8.615850e-47
Msa0221000	Msa1321550	0.812038	5.182802e-51	-8.615850e-47
Msa0225860	Msa1321550	0.805943	1.045598e-49	-8.615850e-47
Msa0240900	Msa1321550	0.802945	4.409853e-49	-8.615850e-47
Msa0298470	Msa1321550	0.817102	3.924121e-52	-8.615850e-47
Msa0320500	Msa1321550	0.808925	2.436762e-50	-8.615850e-47
Msa0337700	Msa1321550	0.810459	1.140950e-50	-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
Msa1321550	MtrunA17_Chr8g0353331	97.674	172	4	0	1	172	1	172	6.05e-126	351
Msa1321550	MtrunA17_Chr7g0252391	55.952	168	71	2	1	165	1	168	1.59e-58	182
Msa1321550	MtrunA17_Chr3g0110281	52.500	160	65	3	4	160	35	186	9.06e-50	159
Msa1321550	MtrunA17_Chr5g0434521	47.134	157	74	2	5	160	14	162	4.06e-44	144
Msa1321550	MtrunA17_Chr6g0479111	47.134	157	74	2	1	157	73	220	1.20e-43	144
Msa1321550	MtrunA17_Chr1g0161131	47.468	158	75	3	1	157	1	151	2.90e-42	139
Msa1321550	MtrunA17_Chr8g0391621	48.428	159	72	5	1	157	1	151	7.25e-42	137
Msa1321550	MtrunA17_Chr1g0189471	87.879	66	8	0	1	66	1	66	2.30e-39	128

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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
Msa1321550	AT3G12600.1	72.000	175	46	2	1	172	1	175	4.33e-81	238
Msa1321550	AT3G12600.2	70.732	164	45	2	12	172	3	166	3.62e-74	220
Msa1321550	AT3G26690.1	57.143	168	65	4	1	161	1	168	2.12e-54	171
Msa1321550	AT3G26690.2	57.143	168	65	4	1	161	1	168	2.12e-54	171
Msa1321550	AT1G12880.1	54.070	172	73	3	1	166	1	172	2.12e-52	166
Msa1321550	AT1G18300.1	48.428	159	75	2	3	160	42	194	8.05e-48	154
Msa1321550	AT1G14860.1	50.311	161	73	3	1	161	1	154	3.81e-46	149
Msa1321550	AT2G01670.1	50.955	157	70	3	1	157	6	155	9.97e-46	148
Msa1321550	AT1G73540.1	47.500	160	71	4	3	160	43	191	1.16e-43	144

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Find 70 sgRNAs with CRISPR-Local

Find 266 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGGAGAAGCGGTTAGAA+CGG	0.546783	8_4:-27579262	None:intergenic
AAAATACCAGAAATAGGAGT+TGG	0.506282	8_4:+27583261	Msa1321550:CDS
AACAAAAGACCTGGTCCACT+AGG	0.578546	8_4:-27581336	None:intergenic
AAGAGAAGCTATAGAAGAAG+CGG	0.568408	8_4:+27582525	Msa1321550:CDS
AAGATGAGTTCAGTCCAGAA+GGG	0.667305	8_4:+27583177	Msa1321550:CDS
AAGCACTTCAACAATCTTCT+CGG	0.437562	8_4:-27581301	None:intergenic
AAGCGGTTAGAACGGATCAA+TGG	0.477919	8_4:-27579254	None:intergenic
AATGTTTGCTTTGTTTGTCA+AGG	0.532894	8_4:+27583214	Msa1321550:CDS
AATTTCGATTTCAATGGCGA+AGG	0.612949	8_4:+27579442	Msa1321550:five_prime_UTR
ACCTTTGGAAACAAAAGACC+TGG	0.602229	8_4:-27581345	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGAATGAAGAAATGGGAAA+AGG	-	chr8_4:27579296-27579315	None:intergenic	30.0%
AGAGAGAAGAATGAAGAAAT+GGG	-	chr8_4:27579302-27579321	None:intergenic	30.0%
GTGTTTGAGAAATTACGATT+TGG	+	chr8_4:27579739-27579758	Msa1321550:intron	30.0%
GTTGATGTATGTCTCTATTA+TGG	+	chr8_4:27579833-27579852	Msa1321550:intron	30.0%
AAAGTCAATGTATAAGGTGA+AGG	+	chr8_4:27579876-27579895	Msa1321550:intron	30.0%
TGATTATATGCTATGAAGCA+CGG	+	chr8_4:27579973-27579992	Msa1321550:intron	30.0%
AATGATGTCAGAAAATGACA+TGG	+	chr8_4:27580030-27580049	Msa1321550:intron	30.0%
GATAATACTTGTGTTGCATA+TGG	+	chr8_4:27580217-27580236	Msa1321550:intron	30.0%
TAGATTGTATCTGTTGTGAT+AGG	+	chr8_4:27580483-27580502	Msa1321550:intron	30.0%
ATTAAAACAATGGATGAGTC+TGG	+	chr8_4:27580519-27580538	Msa1321550:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_4	gene	27579253	27583708	27579253	ID=Msa1321550;Name=Msa1321550
chr8_4	mRNA	27579253	27583708	27579253	ID=Msa1321550-mRNA-1;Parent=Msa1321550;Name=Msa1321550-mRNA-1;_AED=0.23;_eAED=0.23;_QI=270\|1\|1\|1\|0.75\|0.6\|5\|317\|172
chr8_4	exon	27579253	27579293	27579253	ID=Msa1321550-mRNA-1:exon:9236;Parent=Msa1321550-mRNA-1
chr8_4	exon	27579323	27579622	27579323	ID=Msa1321550-mRNA-1:exon:9237;Parent=Msa1321550-mRNA-1
chr8_4	exon	27581257	27581365	27581257	ID=Msa1321550-mRNA-1:exon:9238;Parent=Msa1321550-mRNA-1
chr8_4	exon	27582484	27582567	27582484	ID=Msa1321550-mRNA-1:exon:9239;Parent=Msa1321550-mRNA-1
chr8_4	exon	27583137	27583708	27583137	ID=Msa1321550-mRNA-1:exon:9240;Parent=Msa1321550-mRNA-1
chr8_4	five_prime_UTR	27579253	27579293	27579253	ID=Msa1321550-mRNA-1:five_prime_utr;Parent=Msa1321550-mRNA-1
chr8_4	five_prime_UTR	27579323	27579551	27579323	ID=Msa1321550-mRNA-1:five_prime_utr;Parent=Msa1321550-mRNA-1
chr8_4	CDS	27579552	27579622	27579552	ID=Msa1321550-mRNA-1:cds;Parent=Msa1321550-mRNA-1
chr8_4	CDS	27581257	27581365	27581257	ID=Msa1321550-mRNA-1:cds;Parent=Msa1321550-mRNA-1
chr8_4	CDS	27582484	27582567	27582484	ID=Msa1321550-mRNA-1:cds;Parent=Msa1321550-mRNA-1
chr8_4	CDS	27583137	27583391	27583137	ID=Msa1321550-mRNA-1:cds;Parent=Msa1321550-mRNA-1
chr8_4	three_prime_UTR	27583392	27583708	27583392	ID=Msa1321550-mRNA-1:three_prime_utr;Parent=Msa1321550-mRNA-1

Gene Sequence

>Msa1321550

ATGTCTGATTTGGTTGCTCGTACGGGTCGGCATCAGCAACGCTATGAAGATGGTTATCGTCTTGTTGCTGGGTGTGTTCCCTTTAGGTATAAAAGCTGTGAAGACGACTCTAGTTCCGAGAAGATTGTTGAAGTGCTTATGATTAATTCACCTAGTGGACCAGGTCTTTTGTTTCCAAAGGGAGGTTGGGAGAATGATGAAACTGTTGAGGAGGCGGCTGTAAGAGAAGCTATAGAAGAAGCGGGAGTTCGAGGAGACCTAATGGAATGTCTTGGATACTATGAGTTTAGGAGTAAGACCCATCAAGATGAGTTCAGTCCAGAAGGGTTGTGTAAAGCTGCAATGTTTGCTTTGTTTGTCAAGGAGGAACTTGAACTATGGCCTGAGCAAAATACCAGAAATAGGAGTTGGCTGGATGTATCGGAGGCACTTGATAGCCTCCGACATGAGTGGATGAGGGACGCTCTGGAACGCTTCTGCAAATGGCATGAGGAAAAGTTTGTGGATGGAACAGAATGA

Protein sequence

>Msa1321550

MSDLVARTGRHQQRYEDGYRLVAGCVPFRYKSCEDDSSSEKIVEVLMINSPSGPGLLFPKGGWENDETVEEAAVREAIEEAGVRGDLMECLGYYEFRSKTHQDEFSPEGLCKAAMFALFVKEELELWPEQNTRNRSWLDVSEALDSLRHEWMRDALERFCKWHEEKFVDGTE*