AlfalfaGEDB | Msa0654800

M. sativa cultivar zhongmu-4 / Msa0654800

KEGG: K11296
GO: GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00505.22

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
Msa0654800	XP_013457345.1	97.368	152	3	1	1	151	1	152	1.59e-100	295

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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
Msa0654800	sp\|O64702\|HMG14_ARATH	55.921	152	65	2	1	151	1	151	5.03e-50	160

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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
No data available in table

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TFs/TRs:

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Gene ID	Type	Classification
Msa0654800	TR	HMG

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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
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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
Msa0654800	MtrunA17_Chr4g0052011	97.368	152	3	1	1	151	1	152	1.46e-104	295
Msa0654800	MtrunA17_Chr8g0370431	46.067	89	48	0	59	147	33	121	8.22e-24	90.5
Msa0654800	MtrunA17_Chr3g0143991	47.674	86	45	0	53	138	35	120	2.42e-23	89.4
Msa0654800	MtrunA17_Chr7g0242251	51.316	76	37	0	59	134	47	122	1.47e-22	87.8
Msa0654800	MtrunA17_Chr1g0212341	48.315	89	45	1	59	146	98	186	8.54e-22	87.0
Msa0654800	MtrunA17_Chr5g0407011	38.272	81	50	0	52	132	25	105	3.55e-15	68.2

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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
Msa0654800	AT2G34450.4	55.921	152	65	2	1	151	1	151	5.11e-51	160
Msa0654800	AT2G34450.3	55.921	152	65	2	1	151	1	151	5.11e-51	160
Msa0654800	AT2G34450.1	55.921	152	65	2	1	151	1	151	5.11e-51	160
Msa0654800	AT2G34450.2	55.556	153	65	3	1	151	1	152	3.43e-49	155
Msa0654800	AT2G17560.3	43.478	115	61	1	41	151	13	127	8.71e-24	90.5
Msa0654800	AT2G17560.2	43.478	115	61	1	41	151	13	127	9.27e-24	90.5
Msa0654800	AT2G17560.1	43.478	115	61	1	41	151	13	127	9.27e-24	90.5
Msa0654800	AT3G51880.4	44.554	101	56	0	50	150	40	140	1.65e-23	90.5
Msa0654800	AT3G51880.5	44.118	102	57	0	50	151	40	141	2.13e-23	90.5
Msa0654800	AT3G51880.1	44.118	102	57	0	50	151	40	141	2.13e-23	90.5

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Find 53 sgRNAs with CRISPR-Local

Find 587 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAGAGTATAACAAGAAAA+TGG	0.350035	4_3:-63159871	Msa0654800:intron
AAGAAGTAGAAGAAAGCAGT+GGG	0.576065	4_3:+63161962	None:intergenic
AAGTAGAAGAAAGCAGTGGG+GGG	0.691336	4_3:+63161965	None:intergenic
AATATCTTTGGTTTGAACGA+CGG	0.596826	4_3:-63167836	Msa0654800:five_prime_UTR
AATGAGGCTGATTTCAAAAC+TGG	0.309626	4_3:-63167758	Msa0654800:five_prime_UTR
AATTGATGCCTTTAACAACA+AGG	0.607339	4_3:-63167798	Msa0654800:five_prime_UTR
ACAACTGAATATACAACTTA+AGG	0.407822	4_3:+63159644	None:intergenic
ACTGGAGCAAAAGTTACCAA+AGG	0.623647	4_3:-63167740	Msa0654800:five_prime_UTR
AGAAGTAGAAGAAAGCAGTG+GGG	0.730489	4_3:+63161963	None:intergenic
AGGGAATGAAGAGATCGTTG+CGG	0.720017	4_3:-63162066	Msa0654800:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GGTTTATTGAGGAATATCTT+TGG	-	chr4_3:63159549-63159568	Msa0654800:three_prime_UTR	30.0%
AATTGATGCCTTTAACAACA+AGG	-	chr4_3:63159599-63159618	Msa0654800:three_prime_UTR	30.0%
ATTGATGCCTTTAACAACAA+GGG	-	chr4_3:63159600-63159619	Msa0654800:three_prime_UTR	30.0%
AATGCTTTCAACAACTCAAA+AGG	-	chr4_3:63159715-63159734	Msa0654800:exon	30.0%
ATATTGGAAACTAAAACCCT+AGG	-	chr4_3:63159782-63159801	Msa0654800:intron	30.0%
TCTTTCACCAAATGAAAAGA+AGG	-	chr4_3:63160065-63160084	Msa0654800:intron	30.0%
CTTTCACCAAATGAAAAGAA+GGG	-	chr4_3:63160066-63160085	Msa0654800:intron	30.0%
TTTCACCAAATGAAAAGAAG+GGG	-	chr4_3:63160067-63160086	Msa0654800:intron	30.0%
ATTGGATAATGATCTGATGA+AGG	+	chr4_3:63160303-63160322	None:intergenic	30.0%
ACTTGAAACGTGTATGATTA+CGG	+	chr4_3:63160359-63160378	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_3	gene	63159459	63167960	63159459	ID=Msa0654800;Name=Msa0654800
chr4_3	mRNA	63159459	63167960	63159459	ID=Msa0654800-mRNA-1;Parent=Msa0654800;Name=Msa0654800-mRNA-1;_AED=0.01;_eAED=0.01;_QI=276\|1\|1\|1\|0.83\|0.71\|7\|274\|151
chr4_3	exon	63159459	63159783	63159459	ID=Msa0654800-mRNA-1:exon:17707;Parent=Msa0654800-mRNA-1
chr4_3	exon	63159872	63159952	63159872	ID=Msa0654800-mRNA-1:exon:17706;Parent=Msa0654800-mRNA-1
chr4_3	exon	63160933	63160977	63160933	ID=Msa0654800-mRNA-1:exon:17705;Parent=Msa0654800-mRNA-1
chr4_3	exon	63161241	63161298	63161241	ID=Msa0654800-mRNA-1:exon:17704;Parent=Msa0654800-mRNA-1
chr4_3	exon	63161962	63162117	63161962	ID=Msa0654800-mRNA-1:exon:17703;Parent=Msa0654800-mRNA-1
chr4_3	exon	63162618	63162737	63162618	ID=Msa0654800-mRNA-1:exon:17702;Parent=Msa0654800-mRNA-1
chr4_3	exon	63167740	63167960	63167740	ID=Msa0654800-mRNA-1:exon:17701;Parent=Msa0654800-mRNA-1
chr4_3	five_prime_UTR	63167740	63167960	63167740	ID=Msa0654800-mRNA-1:five_prime_utr;Parent=Msa0654800-mRNA-1
chr4_3	five_prime_UTR	63162683	63162737	63162683	ID=Msa0654800-mRNA-1:five_prime_utr;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63162618	63162682	63162618	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63161962	63162117	63161962	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63161241	63161298	63161241	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63160933	63160977	63160933	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63159872	63159952	63159872	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	CDS	63159733	63159783	63159733	ID=Msa0654800-mRNA-1:cds;Parent=Msa0654800-mRNA-1
chr4_3	three_prime_UTR	63159459	63159732	63159459	ID=Msa0654800-mRNA-1:three_prime_utr;Parent=Msa0654800-mRNA-1

Gene Sequence

>Msa0654800

ATGGCGAAAAAAGCTAAAGCCTCTCACTCTCAAAAGAACGCTTCTTCTTCGGCCTCCACCTCCGGGAAACTAGTGTTGGCGATCAAATCGAATGAGGGAATGAAGAGATCGTTGCGGCAGACTAAGTCAAGAGACTTAACCAAAGCAGTGCAAAAAAAGAACAAGCAAAAGATTGATGCTAAGAAGCCGAAGAAACCCCCCACTGCTTTCTTCTACTTCTTGGAGGATTTTCGGAAAGAGTTTAAAGATCAGAATCCAGATGTTAAGTCAATGCGTGATATCGGCAAGGCATGCGGAGAGAAGTGGAAAACAATGACTTTTGAGGAAAAAGTTCAATACTATGATATAGCAACAGAGAAACGTGCAGAATTTGATAGAGCAACAACAGAGTATAACAAGAAAATGGAAAGCGGTGAGTATGAAGAAACTGATGAGGAGTCAGAGTATGACGAGTAA

Protein sequence

>Msa0654800

MAKKAKASHSQKNASSSASTSGKLVLAIKSNEGMKRSLRQTKSRDLTKAVQKKNKQKIDAKKPKKPPTAFFYFLEDFRKEFKDQNPDVKSMRDIGKACGEKWKTMTFEEKVQYYDIATEKRAEFDRATTEYNKKMESGEYEETDEESEYDE*