AlfalfaGEDB | Msa0105960

M. sativa cultivar zhongmu-4 / Msa0105960

KEGG: -
GO: -
PFAM: PF03101.18

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
Msa0105960	XP_029126074.1	55.814	215	70	5	1	191	1	214	8.15e-61	216

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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
Msa0105960	sp\|Q9SY66\|FRS11_ARATH	34.722	144	86	3	52	188	56	198	4.60e-17	82.8

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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
Msa0105960	A0A2Z6MDB1	60.274	146	53	2	52	193	13	157	1.35e-53	181

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TFs/TRs:

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Gene ID	Type	Classification
Msa0105960	TF	FAR1

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
No data available in table

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PPI

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Gene1	Gene2	Type
No data available in table

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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
Msa0105960	MtrunA17_Chr2g0287651	51.111	180	73	4	26	191	47	225	2.11e-50	175
Msa0105960	MtrunA17_Chr1g0203051	36.620	142	85	2	54	191	89	229	7.18e-29	113
Msa0105960	MtrunA17_Chr1g0171741	36.800	125	73	3	51	171	140	262	1.43e-22	92.4
Msa0105960	MtrunA17_Chr5g0448761	34.028	144	90	2	52	190	68	211	4.17e-17	79.7
Msa0105960	MtrunA17_Chr2g0276841	34.028	144	87	3	52	188	78	220	7.29e-17	79.0
Msa0105960	MtrunA17_Chr1g0203721	36.054	147	87	4	52	193	71	215	7.51e-16	75.9
Msa0105960	MtrunA17_Chr6g0458391	43.089	123	61	4	52	168	233	352	2.38e-15	74.3
Msa0105960	MtrunA17_Chr6g0458391	33.065	124	77	2	52	172	99	219	6.60e-14	70.1
Msa0105960	MtrunA17_Chr1g0198761	30.303	198	114	6	20	195	13	208	5.99e-14	70.5
Msa0105960	MtrunA17_Chr3g0082121	29.121	182	108	4	27	192	17	193	2.24e-13	68.6

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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
Msa0105960	AT1G10240.2	34.722	144	86	3	52	188	56	198	4.67e-18	82.8
Msa0105960	AT1G10240.1	34.722	144	86	3	52	188	56	198	4.67e-18	82.8
Msa0105960	AT4G38180.1	34.266	143	90	2	52	190	81	223	3.68e-17	80.1
Msa0105960	AT5G28530.1	27.211	147	99	3	49	189	60	204	7.88e-12	64.7
Msa0105960	AT5G28530.3	27.211	147	99	3	49	189	60	204	8.56e-12	64.3
Msa0105960	AT5G28530.2	27.211	147	99	3	49	189	60	204	8.56e-12	64.3
Msa0105960	AT3G59470.2	37.000	100	57	2	52	148	90	186	9.64e-12	63.2
Msa0105960	AT5G28530.4	27.211	147	99	3	49	189	60	204	1.17e-11	63.9
Msa0105960	AT5G28530.5	27.211	147	99	3	49	189	60	204	1.32e-11	63.9
Msa0105960	AT3G59470.3	37.000	100	57	2	52	148	78	174	1.40e-11	62.8

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Find 43 sgRNAs with CRISPR-Local

Find 250 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGCACCGGTTTCGTTGTT+AGG	0.291848	1_3:+14840149	Msa0105960:CDS
AAAGTGTACCGCAGCAAAGT+TGG	0.448110	1_3:+14840178	Msa0105960:CDS
AACACTTGACTAGGGTCAAT+AGG	0.418818	1_3:+14840257	Msa0105960:CDS
AAGTGTACCGCAGCAAAGTT+GGG	0.465894	1_3:+14840179	Msa0105960:CDS
ACATTTATTTCCTGCATATC+GGG	0.352320	1_3:+14840417	Msa0105960:CDS
AGAAAGCTTGAGATGGAGAG+TGG	0.639417	1_3:+14840345	Msa0105960:intron
AGTTATCAACACCGGATCAG+AGG	0.615238	1_3:-14841406	None:intergenic
ATAATCCAGAAAGCTTGAGA+TGG	0.638128	1_3:+14840338	Msa0105960:intron
ATCAAAACATGTCATATAAT+GGG	0.298640	1_3:+14840490	Msa0105960:CDS
ATCTTTCCTAACAACGAAAC+CGG	0.440915	1_3:-14840155	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TGGTGATTACAATGAGAATT+TGG	+	chr1_3:14840009-14840028	Msa0105960:CDS	30.0%
TTGGATTCTTGTGTAATAGA+TGG	+	chr1_3:14840028-14840047	Msa0105960:CDS	30.0%
ATTCTTGTGTAATAGATGGT+AGG	+	chr1_3:14840032-14840051	Msa0105960:CDS	30.0%
AAGCAAAAAACACTTGACTA+GGG	+	chr1_3:14840249-14840268	Msa0105960:CDS	30.0%
ACATTTATTTCCTGCATATC+GGG	+	chr1_3:14840417-14840436	Msa0105960:CDS	30.0%
TTTCAAGAAAGCAATGTACT+CGG	+	chr1_3:14841089-14841108	Msa0105960:intron	30.0%
AAAACTCTTCAAATTCCTCT+GGG	-	chr1_3:14841122-14841141	None:intergenic	30.0%
ATACGAGAACAAGGAATTAT+GGG	+	chr1_3:14841197-14841216	Msa0105960:intron	30.0%
TGGTGATTACAATGAGAATT+TGG	+	chr1_3:14840009-14840028	Msa0105960:CDS	30.0%
TTGGATTCTTGTGTAATAGA+TGG	+	chr1_3:14840028-14840047	Msa0105960:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_3	gene	14839899	14841488	14839899	ID=Msa0105960;Name=Msa0105960
chr1_3	mRNA	14839899	14841488	14839899	ID=Msa0105960-mRNA-1;Parent=Msa0105960;Name=Msa0105960-mRNA-1;_AED=0.24;_eAED=0.31;_QI=0\|0\|0\|1\|0\|0.25\|4\|0\|223
chr1_3	exon	14839899	14840053	14839899	ID=Msa0105960-mRNA-1:exon:5768;Parent=Msa0105960-mRNA-1
chr1_3	exon	14840111	14840334	14840111	ID=Msa0105960-mRNA-1:exon:5769;Parent=Msa0105960-mRNA-1
chr1_3	exon	14840347	14840546	14840347	ID=Msa0105960-mRNA-1:exon:5770;Parent=Msa0105960-mRNA-1
chr1_3	exon	14841399	14841488	14841399	ID=Msa0105960-mRNA-1:exon:5771;Parent=Msa0105960-mRNA-1
chr1_3	CDS	14839899	14840053	14839899	ID=Msa0105960-mRNA-1:cds;Parent=Msa0105960-mRNA-1
chr1_3	CDS	14840111	14840334	14840111	ID=Msa0105960-mRNA-1:cds;Parent=Msa0105960-mRNA-1
chr1_3	CDS	14840347	14840546	14840347	ID=Msa0105960-mRNA-1:cds;Parent=Msa0105960-mRNA-1
chr1_3	CDS	14841399	14841488	14841399	ID=Msa0105960-mRNA-1:cds;Parent=Msa0105960-mRNA-1

Gene Sequence

>Msa0105960

ATGGATAGCTCTGATGATTCTGATTTTAATTTTGATGAGGATGGAGATAATGGGTATTCTACTTCTAGTGAAGACGATGAAAGTATAGAGTCTAGAGACCACGATGTCTCTGGTGATTACAATGAGAATTTGGATTCTTGTGTAATAGATGGTAGTGAAGAAGAGGCTTATGCCTTTTATCAAAAGTATGCAAAAAGCACCGGTTTCGTTGTTAGGAAAGATAAAGTGTACCGCAGCAAAGTTGGGAAACAAATTGTAATGCGACAGTTTGTGTGCAATAGAAATGGATTAAGAAGCAAAAAACACTTGACTAGGGTCAATAGGAAAAGAGAACATAGACCCCTCACCCGGAATAATTGTCCAGCTCGCCTTCGTATACAAAGCTTGAGATGGAGAGTGGTAATTTTTGAAGGGTGTCATAACCATGAACTAACCCCATCAAAATATATACATTTATTTCCTGCATATCGGGGATTGACGGATGCTGATAAAGCTCAAGTTGACAGTATGCAATCGTATGGTATCAAAACATGTCATATAATGGGGTACATGGTGGCAAACAAGGGTGGATATGATGCTAGTAATACCTCTGATCCGGTGTTGATAACTGGTCTGGATAATATTGAGAAAGATGCTGCAAAGATTTATACATCCGAGATATTCAAAAAA

Protein sequence

>Msa0105960

MDSSDDSDFNFDEDGDNGYSTSSEDDESIESRDHDVSGDYNENLDSCVIDGSEEEAYAFYQKYAKSTGFVVRKDKVYRSKVGKQIVMRQFVCNRNGLRSKKHLTRVNRKREHRPLTRNNCPARLRIQSLRWRVVIFEGCHNHELTPSKYIHLFPAYRGLTDADKAQVDSMQSYGIKTCHIMGYMVANKGGYDASNTSDPVLITGLDNIEKDAAKIYTSEIFKK