AlfalfaGEDB | Msa0013570

M. sativa cultivar zhongmu-4 / Msa0013570

KEGG: K02937
GO: GO:0000463 GO:0000470 GO:0001701 GO:0001824 GO:0001825 GO:0002181 GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005829 GO:0005840 GO:0006139 GO:0006364 GO:0006396 GO:0006412 GO:0006518 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009790 GO:0009792 GO:0009987 GO:0010467 GO:0015934 GO:0016070 GO:0016072 GO:0019538 GO:0022613 GO:0022625 GO:0022626 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034470 GO:0034641 GO:0034645 GO:0034660 GO:0042254 GO:0042273 GO:0043009 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0046483 GO:0048646 GO:0048856 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904
PFAM: PF02362.24

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
Msa0013570	sp\|Q8L3W1\|VRN1_ARATH	28.940	349	193	13	17	325	6	339	4.42e-34	135

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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
Msa0013570	TF	B3

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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
Msa0013570	MtrunA17_Chr1g0163071	91.060	302	23	1	32	333	1	298	0.0	540
Msa0013570	MtrunA17_Chr1g0208771	46.288	458	218	11	33	478	13	454	1.20e-123	373
Msa0013570	MtrunA17_Chr8g0390841	42.032	502	231	14	13	477	35	513	1.14e-117	360
Msa0013570	MtrunA17_Chr1g0163081	84.354	147	22	1	474	620	1	146	2.44e-85	263
Msa0013570	MtrunA17_Chr1g0163081	36.283	113	65	4	32	140	5	114	9.48e-12	63.2
Msa0013570	MtrunA17_Chr1g0162161	74.497	149	34	1	476	620	1	149	3.43e-73	232
Msa0013570	MtrunA17_Chr1g0162161	33.929	112	67	3	32	139	3	111	6.56e-11	61.2
Msa0013570	MtrunA17_Chr1g0163101	72.414	145	38	2	478	620	32	176	6.74e-68	219
Msa0013570	MtrunA17_Chr1g0163101	34.028	144	87	4	12	150	12	152	3.63e-15	73.9
Msa0013570	MtrunA17_Chr1g0163121	70.345	145	36	1	476	620	8	145	1.30e-64	209

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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
Msa0013570	AT3G18990.1	28.940	349	193	13	17	325	6	339	4.49e-35	135
Msa0013570	AT3G18990.1	34.906	106	64	3	375	478	230	332	3.88e-12	68.6
Msa0013570	AT3G18990.2	28.653	349	194	13	17	325	6	339	2.07e-34	135
Msa0013570	AT3G18990.2	34.906	106	64	3	375	478	230	332	5.23e-12	68.6
Msa0013570	AT4G01580.1	35.714	140	79	3	16	151	29	161	1.59e-19	87.4
Msa0013570	AT3G18960.2	35.922	103	66	0	16	118	29	131	7.30e-18	82.8
Msa0013570	AT3G18960.1	35.922	103	66	0	16	118	29	131	9.94e-18	82.8
Msa0013570	AT1G49475.1	34.815	135	77	4	16	141	33	165	1.27e-15	76.3
Msa0013570	AT4G33280.1	25.163	306	200	10	30	325	36	322	2.84e-15	77.8
Msa0013570	AT1G49480.3	31.081	148	94	5	185	325	78	224	4.08e-15	75.5

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Find 100 sgRNAs with CRISPR-Local

Find 234 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTCATTTGGAAGTTTAA+GGG	0.350384	1_1:+21017869	None:intergenic
AAACTGGCCTGATTTCATGT+TGG	0.576131	1_1:+21019354	None:intergenic
AACAACAATGACTAGCAATA+AGG	0.315318	1_1:-21021791	None:intergenic
AACAAGTTGGATTACCTTGA+AGG	0.449668	1_1:+21020043	None:intergenic
AACGAATAGTAGAAGCAGAG+AGG	0.651419	1_1:+21021758	None:intergenic
AACTCTTGGATGGGAGAGTT+TGG	0.242668	1_1:-21020230	Msa0013570:CDS
AAGCATCATGTCCAATCTAG+TGG	0.644078	1_1:-21020686	Msa0013570:intron
AATATTATGCCAAATCAACG+AGG	0.719522	1_1:-21019613	Msa0013570:CDS
AATCAAATAATCCTTCTTTC+AGG	0.198997	1_1:-21020454	Msa0013570:CDS
ACAACAATGACTAGCAATAA+GGG	0.438593	1_1:-21021790	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAAATTAACCCTTCGGAAA+TGG	-	chr1_1:21017796-21017815	Msa0013570:CDS	30.0%
AAAATTAACCCTTCGGAAAT+GGG	-	chr1_1:21017797-21017816	Msa0013570:CDS	30.0%
TTATTTGTAGATGACGAAAC+GGG	+	chr1_1:21017862-21017881	None:intergenic	30.0%
GATTTGACATGTCATTCATA+TGG	+	chr1_1:21018186-21018205	None:intergenic	30.0%
ACACATTATTCACTAGATCA+TGG	-	chr1_1:21018304-21018323	Msa0013570:intron	30.0%
CACATTATTCACTAGATCAT+GGG	-	chr1_1:21018305-21018324	Msa0013570:intron	30.0%
GAAAGGATATTCAATCTCAA+GGG	+	chr1_1:21018395-21018414	None:intergenic	30.0%
TGAAAGGATATTCAATCTCA+AGG	+	chr1_1:21018396-21018415	None:intergenic	30.0%
TCACTTCTCAATTTCTTATG+TGG	+	chr1_1:21018547-21018566	None:intergenic	30.0%
CAAGAATTATACCACTAGAT+TGG	+	chr1_1:21018627-21018646	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	21017515	21021806	21017515	ID=Msa0013570;Name=Msa0013570
chr1_1	mRNA	21017515	21021806	21017515	ID=Msa0013570-mRNA-1;Parent=Msa0013570;Name=Msa0013570-mRNA-1;_AED=0.32;_eAED=0.32;_QI=0\|0\|0\|0.87\|1\|1\|8\|0\|620
chr1_1	exon	21021714	21021806	21021714	ID=Msa0013570-mRNA-1:exon:7501;Parent=Msa0013570-mRNA-1
chr1_1	exon	21020687	21021164	21020687	ID=Msa0013570-mRNA-1:exon:7500;Parent=Msa0013570-mRNA-1
chr1_1	exon	21020415	21020587	21020415	ID=Msa0013570-mRNA-1:exon:7499;Parent=Msa0013570-mRNA-1
chr1_1	exon	21020058	21020313	21020058	ID=Msa0013570-mRNA-1:exon:7498;Parent=Msa0013570-mRNA-1
chr1_1	exon	21019906	21019968	21019906	ID=Msa0013570-mRNA-1:exon:7497;Parent=Msa0013570-mRNA-1
chr1_1	exon	21019600	21019745	21019600	ID=Msa0013570-mRNA-1:exon:7496;Parent=Msa0013570-mRNA-1
chr1_1	exon	21019258	21019479	21019258	ID=Msa0013570-mRNA-1:exon:7495;Parent=Msa0013570-mRNA-1
chr1_1	exon	21017515	21017946	21017515	ID=Msa0013570-mRNA-1:exon:7494;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21021714	21021806	21021714	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21020687	21021164	21020687	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21020415	21020587	21020415	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21020058	21020313	21020058	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21019906	21019968	21019906	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21019600	21019745	21019600	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21019258	21019479	21019258	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1
chr1_1	CDS	21017515	21017946	21017515	ID=Msa0013570-mRNA-1:cds;Parent=Msa0013570-mRNA-1

Gene Sequence

>Msa0013570

ATGACTAGCAATAAGGGAAAGCATACCCTCTCTGCTTCTACTATTCGTTTCTTTAGAGTTATTACCACACCAATTCTTCAAGATGGAAAGCTTATGATACCAAAAGGTTTCACTAAGGACCATATGAATGACATGTCAAATCCAATGTTTCTCAAGACTCCAGATGGCAAAAATTGGGAAATGAGTGCGACTAAAATCAATGGGGATTTTTGGTTTCAAAAGGGTTGGAACGAATTTGCTACACATTATTCACTAGATCATGGGCACATGGTATTATTTCAATATGAAGAAAACTCTCATTTTGTGGTGCATATATTTTCCAAGAGTACCCTTGAGATTGAATATCCTTTCAATGACAATCAACATGAACAAAACAACTTTGACCAACAAAGTAGTGATGACGACTCCATTGAAATTTTTGATAAGTCACCTTCATGCAAGAAGAAGACTAGACCAAAATCACCAATTATGTGTCCTCAACCACATAAGAAATTGAGAAGTGACTCAAGTGAAGGTGTTGGAACAAGCTCGAGATTCCAAAACTTGCCTAAGCATCATGTCCAATCTAGTGAGGATACGGGTGCTAGCGCTGAATTCCGAAAAGTAAAGCACGAGCTAGAACAAGATCAAGACAAAAAGCAATACCAAGAGCAGGAGCAGTTAAATAGAGTTAGAAGCTTCAAATCAAATAATCCTTCTTTCAGGATTACCATGAAGTCTTCACATATTTATAGCACTTCCTTGTATGTCCCATCACAATTTGCTAACAATCATATGAAGAAAGAGCAAAGTGACATTCTTCTTCAACTCTTGGATGGGAGAGTTTGGGATGCTAAATATTTTTCTGGAAGAATTAAAGGTGGATGGAAGAAATTTGTAGTACACAACAAGTTGAAAATTGGGGATGTGTGTATTTTTGAACTAACTAAAAGCCAATACCTTACTTTGAAAGTAATAATATTTAGACTTGAGGAAGATCCACATTCCCCTCCCCTTCAAGAATCAGTTCAAAGAGACAAAGACTTCTCGGATGTTGAAAGTGAAACTATTATGACAAATAAAGGAGAGAAGGCAACCGAAAAAACTTCATTGCGGACAAAGGCTGAATTCTTTACGAATGAAGCTGAGAACCAAGCTGATAAATTCAACTCCAAATATCCATTTTTCAAGGTCAATATTATGCCAAATCAACGAGGGCATTCTAGATTGCATGTACCAAATTCCTTCATTACAAATTACTTGGATAACAAGGAACAGATGGTGATGTTAAAGTTTGGGAAGAAATTGTGGCCTGTAAAGTTGCATTGTTATTCCAACATGAAATCAGGCCAGTTTTGTAGAGGTTGGAAGCTATTTTGGGAAGAAAATAAATTGAAAGGTGGAGATGCATGTGTCTTTGAGCTTATCAAGAGGGAAGATGTTGTGCTTAATATGATTCCAAGGAATTTTGTAGAAAGATATTGGAAAGATGTATCAAATCCAATATCCCTTAAACTTCCAAATGAGTTTAAGTGCAAAATGTTTTGGGTACAACGTGGTTATGATATTTGGCTAGTGAATTGGAAAAGATTTGCACGATCGCTTAGATGTGGAGATCTTTTAGTTTTTCAATATAAAGGAGGGTCAGATTTTCATGTCATTGTATTAGATGATAGTAAATTGGAAATTGACTATTCAAGTATGAGATGCAACGACGAACAAGATTCTAACAAGCACTTTAAACAAGTAGAAGAAAGTGATTATGATTGTGTTGAGATTCTGAGTGATATTACTACACCTCAATGGACAAACATTGACAAGAAAAAAATTATTATGACTTCATCCCAGCAAAAAATCACAGCCAAGTTCATCTACTTCATTTGA

Protein sequence

>Msa0013570

MTSNKGKHTLSASTIRFFRVITTPILQDGKLMIPKGFTKDHMNDMSNPMFLKTPDGKNWEMSATKINGDFWFQKGWNEFATHYSLDHGHMVLFQYEENSHFVVHIFSKSTLEIEYPFNDNQHEQNNFDQQSSDDDSIEIFDKSPSCKKKTRPKSPIMCPQPHKKLRSDSSEGVGTSSRFQNLPKHHVQSSEDTGASAEFRKVKHELEQDQDKKQYQEQEQLNRVRSFKSNNPSFRITMKSSHIYSTSLYVPSQFANNHMKKEQSDILLQLLDGRVWDAKYFSGRIKGGWKKFVVHNKLKIGDVCIFELTKSQYLTLKVIIFRLEEDPHSPPLQESVQRDKDFSDVESETIMTNKGEKATEKTSLRTKAEFFTNEAENQADKFNSKYPFFKVNIMPNQRGHSRLHVPNSFITNYLDNKEQMVMLKFGKKLWPVKLHCYSNMKSGQFCRGWKLFWEENKLKGGDACVFELIKREDVVLNMIPRNFVERYWKDVSNPISLKLPNEFKCKMFWVQRGYDIWLVNWKRFARSLRCGDLLVFQYKGGSDFHVIVLDDSKLEIDYSSMRCNDEQDSNKHFKQVEESDYDCVEILSDITTPQWTNIDKKKIIMTSSQQKITAKFIYFI*