AlfalfaGEDB | Msa0000780

M. sativa cultivar zhongmu-4 / Msa0000780

KEGG: K11294
GO: GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0031425 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901259 GO:1901360 GO:1901363
PFAM: PF00076.25

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
Msa0000780	sp\|P19684\|ROC5_NICSY	71.500	200	56	1	114	312	113	312	5.87e-103	307

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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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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0000780	Msa0001460	0.852554	4.277583e-61	-8.615850e-47
Msa0000780	Msa0001950	0.839203	1.823852e-57	-8.615850e-47
Msa0000780	Msa0003470	0.818013	2.446129e-52	-8.615850e-47
Msa0000780	Msa0004610	0.807167	5.770134e-50	-8.615850e-47
Msa0000780	Msa0006700	0.804869	1.756356e-49	-8.615850e-47
Msa0000780	Msa0008850	0.830498	2.839810e-55	-8.615850e-47
Msa0000780	Msa0012460	0.832448	9.397247e-56	-8.615850e-47
Msa0000780	Msa0014410	0.800104	1.685332e-48	-8.615850e-47
Msa0000780	Msa0017120	0.858531	7.730919e-63	-8.615850e-47
Msa0000780	Msa0017940	0.821109	4.807675e-53	-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
Msa0000780	MtrunA17_Chr7g0267571	92.901	324	17	1	1	324	1	318	0.0	617
Msa0000780	MtrunA17_Chr1g0177101	56.688	314	112	8	12	319	11	306	1.21e-105	311
Msa0000780	MtrunA17_Chr1g0181111	38.246	285	141	7	27	297	12	275	2.21e-46	158
Msa0000780	MtrunA17_Chr3g0087481	32.982	285	140	5	10	294	2	235	5.50e-42	145
Msa0000780	MtrunA17_Chr3g0116631	35.636	275	142	9	41	297	28	285	2.47e-41	145
Msa0000780	MtrunA17_Chr4g0058151	39.560	182	101	2	116	297	123	295	2.29e-40	143
Msa0000780	MtrunA17_Chr4g0058151	46.341	82	44	0	219	300	123	204	4.97e-15	74.3
Msa0000780	MtrunA17_Chr1g0168601	37.576	165	91	1	133	297	80	232	4.46e-36	130
Msa0000780	MtrunA17_Chr1g0168601	35.417	96	59	1	97	192	138	230	3.41e-11	62.4
Msa0000780	MtrunA17_Chr5g0411091	33.333	183	113	4	117	298	98	272	2.13e-25	103

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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
Msa0000780	AT3G52380.1	64.651	215	72	2	113	323	114	328	1.03e-99	297
Msa0000780	AT2G37220.1	39.583	192	106	2	116	297	92	283	2.33e-43	151
Msa0000780	AT1G60000.1	38.462	182	101	1	116	297	86	256	6.99e-42	146
Msa0000780	AT1G60000.1	38.384	99	59	1	97	195	161	257	9.02e-14	70.5
Msa0000780	AT5G50250.1	34.074	270	147	8	39	297	37	286	2.29e-38	138
Msa0000780	AT2G35410.1	34.586	266	147	6	41	294	21	271	1.00e-37	137
Msa0000780	AT3G52150.2	37.755	196	116	2	103	294	60	253	2.56e-37	134
Msa0000780	AT3G52150.1	37.755	196	116	2	103	294	60	253	2.56e-37	134
Msa0000780	AT4G24770.1	38.462	182	103	2	116	297	151	323	3.96e-37	135
Msa0000780	AT4G24770.1	49.367	79	40	0	114	192	243	321	4.52e-18	84.0

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Find 112 sgRNAs with CRISPR-Local

Find 329 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGTAAGGAACAGCTACAG+AGG	0.638782	1_1:+2085308	Msa0000780:CDS
AAATGATAACCTTCTCTTGA+GGG	0.434451	1_1:+2086014	Msa0000780:three_prime_UTR
AACTTCCCAGAAGTGCCAAA+AGG	0.552002	1_1:+2085260	Msa0000780:CDS
AAGATCTATGCCGGAAACCT+TGG	0.470085	1_1:+2085350	Msa0000780:CDS
AAGGAAAGCAATCAAGGGAG+AGG	0.577296	1_1:+2083781	None:intergenic
AAGGGAAGGAAAGCAATCAA+GGG	0.622467	1_1:+2083776	None:intergenic
AAGTGCCAAAAGGAGGTGAA+AGG	0.618488	1_1:+2085270	Msa0000780:CDS
AATCAAGGGAGAGGAACAAT+TGG	0.500363	1_1:+2083790	Msa0000780:five_prime_UTR
AATCATCTTTCTTCACGTGC+TGG	0.510076	1_1:-2085771	None:intergenic
AATGATATACAGCAAGTTGG+TGG	0.588262	1_1:+2085221	Msa0000780:intron

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTTGATAGGTGACAAAGATA+AGG	-	chr1_1:2083836-2083855	None:intergenic	30.0%
TATCTTTGTCACCTATCAAA+TGG	+	chr1_1:2083836-2083855	Msa0000780:five_prime_UTR	30.0%
CAAGAATTGAGTAGTGAAAT+GGG	-	chr1_1:2083905-2083924	None:intergenic	30.0%
TGTGAAGAAGTCATTGAAAA+CGG	-	chr1_1:2084317-2084336	None:intergenic	30.0%
TTCAATGACTTCTTCACAAT+TGG	+	chr1_1:2084319-2084338	Msa0000780:CDS	30.0%
TTACTGTTGTCTGTTTGATT+AGG	+	chr1_1:2084433-2084452	Msa0000780:intron	30.0%
TTTAATAGTTGTCGCAGTAA+TGG	+	chr1_1:2084872-2084891	Msa0000780:intron	30.0%
TGCAATTCTCTGTCATATAA+AGG	-	chr1_1:2084916-2084935	None:intergenic	30.0%
AAAAAACAATGTTGAAGGCT+CGG	+	chr1_1:2085733-2085752	Msa0000780:CDS	30.0%
ATCTATCAAACTAGTCATAC+TGG	+	chr1_1:2085854-2085873	Msa0000780:three_prime_UTR	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	2083783	2086098	2083783	ID=Msa0000780;Name=Msa0000780
chr1_1	mRNA	2083783	2086098	2083783	ID=Msa0000780-mRNA-1;Parent=Msa0000780;Name=Msa0000780-mRNA-1;_AED=0.06;_eAED=0.06;_QI=165\|1\|1\|1\|1\|1\|4\|317\|324
chr1_1	exon	2083783	2084382	2083783	ID=Msa0000780-mRNA-1:exon:390;Parent=Msa0000780-mRNA-1
chr1_1	exon	2084535	2084636	2084535	ID=Msa0000780-mRNA-1:exon:391;Parent=Msa0000780-mRNA-1
chr1_1	exon	2085233	2085541	2085233	ID=Msa0000780-mRNA-1:exon:392;Parent=Msa0000780-mRNA-1
chr1_1	exon	2085653	2086098	2085653	ID=Msa0000780-mRNA-1:exon:393;Parent=Msa0000780-mRNA-1
chr1_1	five_prime_UTR	2083783	2083947	2083783	ID=Msa0000780-mRNA-1:five_prime_utr;Parent=Msa0000780-mRNA-1
chr1_1	CDS	2083948	2084382	2083948	ID=Msa0000780-mRNA-1:cds;Parent=Msa0000780-mRNA-1
chr1_1	CDS	2084535	2084636	2084535	ID=Msa0000780-mRNA-1:cds;Parent=Msa0000780-mRNA-1
chr1_1	CDS	2085233	2085541	2085233	ID=Msa0000780-mRNA-1:cds;Parent=Msa0000780-mRNA-1
chr1_1	CDS	2085653	2085781	2085653	ID=Msa0000780-mRNA-1:cds;Parent=Msa0000780-mRNA-1
chr1_1	three_prime_UTR	2085782	2086098	2085782	ID=Msa0000780-mRNA-1:three_prime_utr;Parent=Msa0000780-mRNA-1

Gene Sequence

>Msa0000780

ATGGCTACTGCAACAGCTTATGTTTCATCTTCAATCTTCAATAGAATCAATAACCTCTCATTCACACACTCTTCCATTTCTCTCACCACCACCAACTTCCCTCAAAGACCCATTTCCCATAAACCCTTCAATCTCACCCTCAAGTCTCAAAGTTTCAATCTTTCATCTCTCCCACTTCAATCTCTTCACCCTCCATTCGTTGCCACAGATGAATTTCAAACATCTCAAGACACCATAGTTTCCCAACTTGAAGAACCAGAACCAGAACAAAAAACAGAACCAGAAACCTCTGATAAACCAAAGCAAGATGAAGAACAGAAAGTAACAACCTTAGACGATGCTGGAAGACTCTATGTTGGAAATTTGCCGTTTTCAATGACTTCTTCACAATTGGCTGAGATTTTTGCAGAAGCTGGCACAGTTGTGTCTGTTGAGATTGTGTATGATCGAGTTACCGACAGAAGCAGAGGATTTGCATTTGTTACGATGAAAAGTGCTGAAGAAGCTAAAGAAGCAATTCGAATGTTTGATGGCTCTCAAGTTGGTGGTAGGAGTGCTAAGGTAAACTTCCCAGAAGTGCCAAAAGGAGGTGAAAGGTTAGTAATGGGGCAAAAAGTAAGGAACAGCTACAGAGGCTTTGTAGACAGCCCTCACAAGATCTATGCCGGAAACCTTGGTTGGGGACTGAACTCTCAGGATCTTAGAGATGCCTTTGCTGAACAGCCAGGCTTACTGGGTGCTAAGGTCATCTATGAGAGGGACAATGGAAGATCTCGGGGTTTTGGATTTGTCACTTTTGAAACTGCTGAGCATTTGGAGGCTGCTTTGAACGCCATGAACGGTGTGGAGGTTCAAGGCCGGCCGTTGCGATTGAATTTGGCTGCAGCGAGGATATCTCCATCTCCTCCAGTAATTGAAGAAAATACAAAAAACAATGTTGAAGGCTCGGAATTGATGTCTAGTGCCAGCACGTGA

Protein sequence

>Msa0000780

MATATAYVSSSIFNRINNLSFTHSSISLTTTNFPQRPISHKPFNLTLKSQSFNLSSLPLQSLHPPFVATDEFQTSQDTIVSQLEEPEPEQKTEPETSDKPKQDEEQKVTTLDDAGRLYVGNLPFSMTSSQLAEIFAEAGTVVSVEIVYDRVTDRSRGFAFVTMKSAEEAKEAIRMFDGSQVGGRSAKVNFPEVPKGGERLVMGQKVRNSYRGFVDSPHKIYAGNLGWGLNSQDLRDAFAEQPGLLGAKVIYERDNGRSRGFGFVTFETAEHLEAALNAMNGVEVQGRPLRLNLAAARISPSPPVIEENTKNNVEGSELMSSAST*