AlfalfaGEDB | Msa1339180

M. sativa cultivar zhongmu-4 / Msa1339180

KEGG: -
GO: -
PFAM: PF05142.15

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
Msa1339180	XP_024636124.1	92.965	199	13	1	1	199	4	201	3.09e-116	339

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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
Msa1339180	sp\|Q9SJT8\|SRS3_ARATH	51.111	135	45	3	11	138	3	123	7.48e-39	134

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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
Msa1339180	A0A396I9B8	92.965	199	13	1	1	199	4	201	1.47e-116	339

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TFs/TRs:

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Gene ID	Type	Classification
Msa1339180	TF	SRS

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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
Msa0606110	Msa1339180	0.802409	5.688087e-49	-8.615850e-47
Msa0647060	Msa1339180	0.841337	5.051320e-58	-8.615850e-47

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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
Msa1339180	MtrunA17_Chr4g0035591	92.965	199	13	1	1	199	4	201	2.84e-120	339
Msa1339180	MtrunA17_Chr8g0372461	49.265	136	61	2	13	140	117	252	3.85e-41	142
Msa1339180	MtrunA17_Chr3g0142171	50.000	146	52	5	14	139	83	227	1.90e-39	136
Msa1339180	MtrunA17_Chr5g0404781	45.283	159	57	4	15	143	98	256	1.83e-38	134
Msa1339180	MtrunA17_Chr1g0155791	41.892	148	62	2	15	138	120	267	1.73e-33	122
Msa1339180	MtrunA17_Chr5g0441921	39.216	153	62	3	17	138	124	276	6.45e-28	107
Msa1339180	MtrunA17_Chr8g0353111	36.571	175	74	3	6	143	113	287	1.47e-27	106
Msa1339180	MtrunA17_Chr0c01g0489181	86.275	51	7	0	1	51	51	101	3.62e-26	97.1
Msa1339180	MtrunA17_Chr3g0082511	34.810	158	72	4	17	143	134	291	5.26e-24	96.7
Msa1339180	MtrunA17_Chr2g0281741	86.364	44	6	0	8	51	141	184	4.11e-22	89.0

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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
Msa1339180	AT2G21400.4	49.265	136	61	2	11	138	3	138	7.43e-40	134
Msa1339180	AT2G21400.3	51.111	135	45	3	11	138	4	124	7.58e-40	134
Msa1339180	AT2G21400.1	51.111	135	45	3	11	138	3	123	7.60e-40	134
Msa1339180	AT2G21400.2	49.265	136	61	2	11	138	4	139	7.90e-40	134
Msa1339180	AT1G75520.1	36.866	217	89	5	14	194	122	326	1.12e-36	130
Msa1339180	AT5G66350.3	40.244	164	75	3	17	161	120	279	1.52e-35	127
Msa1339180	AT5G66350.2	40.244	164	75	3	17	161	120	279	1.83e-35	127
Msa1339180	AT5G66350.1	40.244	164	75	3	17	161	120	279	2.03e-35	127
Msa1339180	AT3G51060.1	36.150	213	100	6	15	191	142	354	2.91e-35	127
Msa1339180	AT2G18120.2	43.165	139	70	3	15	144	70	208	1.88e-34	122

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Find 45 sgRNAs with CRISPR-Local

Find 130 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACACATATCAGAAGCACT+TGG	0.635365	tig0003042:-43116	Msa1339180:CDS
AAAGATGGCAATGGATGCGG+TGG	0.637766	tig0003042:+42373	None:intergenic
AACACATGTCAATGTGGCCA+TGG	0.579628	tig0003042:+42648	None:intergenic
AAGATGTATTCAACACAATT+AGG	0.212765	tig0003042:-43252	Msa1339180:CDS
AAGTGCTTCTGATATGTGTT+TGG	0.503819	tig0003042:+43118	None:intergenic
AATTTCTACACTTGTTTGAT+AGG	0.288184	tig0003042:+42588	None:intergenic
ACCACCTTCATGAACATAAA+AGG	0.327971	tig0003042:-43041	Msa1339180:CDS
AGAAGGATTGTGCATACTCA+AGG	0.587247	tig0003042:-43176	Msa1339180:CDS
AGATGTATTCAACACAATTA+GGG	0.426718	tig0003042:-43251	Msa1339180:CDS
AGGGAAAGAAGAAGTGTTAA+AGG	0.254491	tig0003042:-43232	Msa1339180:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GTATCCCTTGTACTTATTAT+TGG	+	tig0003042:42870-42889	None:intergenic	30.0%
TTCTGATGAGTTCAAATTTC+CGG	-	tig0003042:42932-42951	Msa1339180:intron	30.0%
AGTGGTATTCTTTATGATCA+AGG	-	tig0003042:43065-43084	Msa1339180:CDS	30.0%
CCTAATTGTGTTGAATACAT+GGG	+	tig0003042:42366-42385	None:intergenic	30.0%
GTATCCCTTGTACTTATTAT+TGG	+	tig0003042:42870-42889	None:intergenic	30.0%
TTCTGATGAGTTCAAATTTC+CGG	-	tig0003042:42932-42951	Msa1339180:intron	30.0%
AGTGGTATTCTTTATGATCA+AGG	-	tig0003042:43065-43084	Msa1339180:CDS	30.0%
AGAAGTTGCTGCAAAAACAA+AGG	-	tig0003042:42465-42484	Msa1339180:CDS	35.0%
AAGTGCTTCTGATATGTGTT+TGG	+	tig0003042:42500-42519	None:intergenic	35.0%
ACCACCTTCATGAACATAAA+AGG	-	tig0003042:42574-42593	Msa1339180:CDS	35.0%

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Chromosome	Type	Strat	End	Strand	Name
tig0003042	gene	42366	43271	42366	ID=Msa1339180;Name=Msa1339180
tig0003042	mRNA	42366	43271	42366	ID=Msa1339180-mRNA-1;Parent=Msa1339180;Name=Msa1339180-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0\|1\|0\|1\|1\|0\|2\|0\|199
tig0003042	exon	43016	43271	43016	ID=Msa1339180-mRNA-1:exon:1998;Parent=Msa1339180-mRNA-1
tig0003042	exon	42366	42706	42366	ID=Msa1339180-mRNA-1:exon:1997;Parent=Msa1339180-mRNA-1
tig0003042	CDS	43016	43271	43016	ID=Msa1339180-mRNA-1:cds;Parent=Msa1339180-mRNA-1
tig0003042	CDS	42366	42706	42366	ID=Msa1339180-mRNA-1:cds;Parent=Msa1339180-mRNA-1

Gene Sequence

>Msa1339180

ATGTATTCAACACAATTAGGGAAAGAAGAAGTGTTAAAGGGTCTGAAATGTCAAGACTGTGGGAACCAAGCAAAGAAGGATTGTGCATACTCAAGGTGCAGAAGTTGCTGCAAAAACAAAGGTTTTCACTGCCAAACACATATCAGAAGCACTTGGATTCCTGCCGATAGAAGAAGGCGTCACAGAATGGACCATCCTTCTGATCAGCACCACCTTCATGAACATAAAAGGCACAAGCAGATCAACACTATTTCAAGTTCTGATGAGTTCAAATTTCCGGCTGTTACGAGTTCCATGGCCACATTGACATGTGTTCAGGTGCGCTCTATGGACGAAACGGTTAATGAAACGGCCTATCAAACAAGTGTAGAAATTGGAGGACATGTATTTAGTGGTATTCTTTATGATCAAGGCCCTGATCAACAAAGCTTCAATACTATACACTCCCTTGATCAGCAACAAAATCTTAATCTTTTTAGTAGTAATGCAATCCACACAGGTGATGATGGTGCAAGTGCAAGTGCAACTATAGGTGCTACTGCTTCTCATCGTCGCTTTTTATTTCCTCCACCGCATCCATTGCCATCTTTCAGGCCC

Protein sequence

>Msa1339180

MYSTQLGKEEVLKGLKCQDCGNQAKKDCAYSRCRSCCKNKGFHCQTHIRSTWIPADRRRRHRMDHPSDQHHLHEHKRHKQINTISSSDEFKFPAVTSSMATLTCVQVRSMDETVNETAYQTSVEIGGHVFSGILYDQGPDQQSFNTIHSLDQQQNLNLFSSNAIHTGDDGASASATIGATASHRRFLFPPPHPLPSFRP