AlfalfaGEDB | Msa0288400

M. sativa cultivar zhongmu-4 / Msa0288400

KEGG: K11423
GO: GO:0000785 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464
PFAM: PF00856.31

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
Msa0288400	RHN74040.1	90.538	465	9	3	1	430	44	508	0.0	852

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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
Msa0288400	sp\|Q949T8\|ASHR3_ARATH	61.008	377	112	5	71	413	109	484	3.84e-163	471

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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
Msa0288400	A0A396J7H0	90.538	465	9	3	1	430	44	508	0.0	852

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TFs/TRs:

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Gene ID	Type	Classification
Msa0288400	TR	SET

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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
Msa0006840	Msa0288400	0.879563	1.124853e-69	-8.615850e-47
Msa0013410	Msa0288400	0.805353	1.390561e-49	-8.615850e-47
Msa0015570	Msa0288400	0.815071	1.115162e-51	-8.615850e-47
Msa0018920	Msa0288400	0.838570	2.658790e-57	-8.615850e-47
Msa0027800	Msa0288400	0.815009	1.151306e-51	-8.615850e-47
Msa0030070	Msa0288400	0.847399	1.185069e-59	-8.615850e-47
Msa0036810	Msa0288400	0.808530	2.959953e-50	-8.615850e-47
Msa0040640	Msa0288400	0.812842	3.459614e-51	-8.615850e-47
Msa0045620	Msa0288400	0.826985	2.008758e-54	-8.615850e-47
Msa0050530	Msa0288400	0.877844	4.534152e-69	-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
Msa0288400	MtrunA17_Chr2g0305371	90.538	465	9	3	1	430	44	508	0.0	852
Msa0288400	MtrunA17_Chr6g0477001	49.780	227	106	3	178	397	28	253	6.85e-73	232
Msa0288400	MtrunA17_Chr3g0125251	36.614	254	143	6	194	429	1253	1506	2.76e-42	160
Msa0288400	MtrunA17_Chr1g0201621	36.530	219	128	4	192	399	10	228	1.57e-41	153
Msa0288400	MtrunA17_Chr1g0201311	36.530	219	128	4	192	399	10	228	2.11e-41	153
Msa0288400	MtrunA17_Chr2g0297191	36.170	141	90	0	254	394	1030	1170	3.04e-27	115
Msa0288400	MtrunA17_Chr5g0403241	35.795	176	95	4	237	394	1331	1506	2.00e-24	106
Msa0288400	MtrunA17_Chr4g0075321	35.795	176	95	4	237	394	888	1063	1.73e-23	103
Msa0288400	MtrunA17_Chr5g0399801	30.882	272	116	13	185	394	827	1088	7.08e-22	98.6
Msa0288400	MtrunA17_Chr8g0373821	34.320	169	96	3	237	390	365	533	1.22e-21	97.4

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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
Msa0288400	AT4G30860.1	61.008	377	112	5	71	413	109	484	3.91e-164	471
Msa0288400	AT2G44150.1	51.092	229	102	2	179	397	29	257	1.26e-68	222
Msa0288400	AT3G59960.3	50.000	222	100	4	184	397	34	252	5.87e-58	192
Msa0288400	AT3G59960.2	50.000	222	100	4	184	397	34	252	5.87e-58	192
Msa0288400	AT3G59960.4	50.000	222	100	4	184	397	34	252	5.87e-58	192
Msa0288400	AT3G59960.1	50.000	222	100	3	184	397	34	252	3.79e-57	191
Msa0288400	AT1G76710.4	37.104	221	128	4	190	399	13	233	2.63e-39	148
Msa0288400	AT1G76710.2	37.104	221	128	4	190	399	13	233	3.03e-39	147
Msa0288400	AT1G76710.1	37.104	221	128	4	190	399	13	233	3.03e-39	147
Msa0288400	AT1G76710.3	37.104	221	128	4	190	399	13	233	3.56e-39	148

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Find 112 sgRNAs with CRISPR-Local

Find 736 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACAAATCAGGATTGTCA+AGG	0.573764	2_3:-33369553	Msa0288400:intron
AACCATCACCATGCTAGATT+CGG	0.367865	2_3:-33373271	Msa0288400:exon
AAGAACCAGAGGCGGCATTG+GGG	0.587159	2_3:+33373184	None:intergenic
AATGTGCTAAACAAGCTGTT+GGG	0.442474	2_3:-33372854	Msa0288400:CDS
AATTCAAGATTGACTTCACT+TGG	0.461493	2_3:-33370909	Msa0288400:CDS
ACAACTGTGAGTTGAATGAA+AGG	0.648042	2_3:+33373333	None:intergenic
ACAATAGATGCAACTTTCAA+AGG	0.468582	2_3:-33369029	Msa0288400:CDS
ACACGCATTGGTGTATTTGC+TGG	0.475579	2_3:-33368552	Msa0288400:CDS
ACCATCACCATGCTAGATTC+GGG	0.425891	2_3:-33373270	Msa0288400:exon
ACGAGAAAAGGAAGAGATTG+AGG	0.524595	2_3:+33373060	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TACGAGGCTAATTTCATAAT+TGG	+	chr2_3:33363655-33363674	None:intergenic	30.0%
CTCGTATAAATGCAAGTTAA+TGG	-	chr2_3:33363669-33363688	Msa0288400:intron	30.0%
AACCAATTTGGAGAAACATT+CGG	+	chr2_3:33363901-33363920	None:intergenic	30.0%
CTTAATAGTCTGGAAAAACA+AGG	+	chr2_3:33363989-33364008	None:intergenic	30.0%
TATTAAGTCCTTAAGTGTTC+AGG	-	chr2_3:33364002-33364021	Msa0288400:intron	30.0%
AACTACATTTGGATATGACA+AGG	+	chr2_3:33364276-33364295	None:intergenic	30.0%
TTCTTTCCTAATAGCTATTG+GGG	-	chr2_3:33364416-33364435	Msa0288400:intron	30.0%
AGTAATATACAGCCAATTAG+AGG	+	chr2_3:33364510-33364529	None:intergenic	30.0%
TACTTCAACAAGTGACATTT+CGG	-	chr2_3:33364924-33364943	Msa0288400:intron	30.0%
AGCTTATATCAAAACATGCA+AGG	+	chr2_3:33365111-33365130	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	33362905	33373354	33362905	ID=Msa0288400;Name=Msa0288400
chr2_3	mRNA	33362905	33373354	33362905	ID=Msa0288400-mRNA-1;Parent=Msa0288400;Name=Msa0288400-mRNA-1;_AED=0.08;_eAED=0.08;_QI=71\|0.77\|0.8\|1\|0.77\|0.8\|10\|136\|430
chr2_3	exon	33362905	33363215	33362905	ID=Msa0288400-mRNA-1:exon:11042;Parent=Msa0288400-mRNA-1
chr2_3	exon	33368510	33368590	33368510	ID=Msa0288400-mRNA-1:exon:11041;Parent=Msa0288400-mRNA-1
chr2_3	exon	33368972	33369143	33368972	ID=Msa0288400-mRNA-1:exon:11040;Parent=Msa0288400-mRNA-1
chr2_3	exon	33369349	33369427	33369349	ID=Msa0288400-mRNA-1:exon:11039;Parent=Msa0288400-mRNA-1
chr2_3	exon	33369554	33369647	33369554	ID=Msa0288400-mRNA-1:exon:11038;Parent=Msa0288400-mRNA-1
chr2_3	exon	33370599	33370692	33370599	ID=Msa0288400-mRNA-1:exon:11037;Parent=Msa0288400-mRNA-1
chr2_3	exon	33370857	33370939	33370857	ID=Msa0288400-mRNA-1:exon:11036;Parent=Msa0288400-mRNA-1
chr2_3	exon	33372072	33372235	33372072	ID=Msa0288400-mRNA-1:exon:11035;Parent=Msa0288400-mRNA-1
chr2_3	exon	33372854	33372964	33372854	ID=Msa0288400-mRNA-1:exon:11034;Parent=Msa0288400-mRNA-1
chr2_3	exon	33373044	33373354	33373044	ID=Msa0288400-mRNA-1:exon:11033;Parent=Msa0288400-mRNA-1
chr2_3	five_prime_UTR	33373284	33373354	33373284	ID=Msa0288400-mRNA-1:five_prime_utr;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33373044	33373283	33373044	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33372854	33372964	33372854	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33372072	33372235	33372072	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33370857	33370939	33370857	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33370599	33370692	33370599	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33369554	33369647	33369554	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33369349	33369427	33369349	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33368972	33369143	33368972	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33368510	33368590	33368510	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	CDS	33363041	33363215	33363041	ID=Msa0288400-mRNA-1:cds;Parent=Msa0288400-mRNA-1
chr2_3	three_prime_UTR	33362905	33363040	33362905	ID=Msa0288400-mRNA-1:three_prime_utr;Parent=Msa0288400-mRNA-1

Gene Sequence

>Msa0288400

ATGCTAGATTCGGGGAACTTAGCGCCTTCTCCGCCTCTCTCGGCACCGTGCTCCATCACTGATGCTGCCCCCGCTGCCCCCAATGCCGCCTCTGGTTCTTCTGACAATGGCTCCTCTGCCTATGCTAGGGTTTTGAAGAGGACTCGAGGTTCTCTCCGTAAAACAGACAAGCACAAGAGTTTGTGGGATCGCCTTACAGATCCTCAATCTCTTCCTTTTCTCGTTGCTGCTCCAAAGATGGTTGAATGTTGTTTCTGTCACCATGCTTTGTGTCCTGAGGATGAGCTGTTATGTTCTGTTCGTGGATGTGCTGCTCGCTATCATAAAGAATGTGCTAAACAAGCTGTTGGGGTGTGCTTCATTTGCAAGCAAAAGTTGAATTTGTTGCGGTGTGTCCGTTGCACGGTGGCTTTCCATATTAAATGTGCACCATGGCCAGAAGCCGTGATCCGTCTGGAAGATCATCCTGGGCAAGCTGTTTGTTGGAGACATTCTGATTGGCGCCTGGATAAAAGTAACGAGGAATTCAAGATTGACTTCACTTGGAAAGACATGGACAATAAGATGGAGCCACCACCATATACACACATAAGGCGCAATATGTACCTAGTGAAGAAAAAGCGTAGTGATGTCGATGATGATGTTGGGTGCACCAACTGCAGTTCTACTTGCTCTAATGATTGTGTATGCAGGGTTCAATGCATAAGCTGCTCAAAGGCTTGTCGGTGCTCTGAAAATTGTAGTAATCGGCCATTTCGAAGGGAAAAACAAATCAGGATTGTCAAGACTGAGTTTTGTGGATGGGGAGTTGAGGCTGTTGAAACAATTGAGAAAGGAGAGTTTATAATTGAGTATATTGGAGAAGTTATTGATGATGCTTTATGTGAACAAAGGCTTTGGGACATGAAATATAAGGGTGTGCAGAATTTTTACATGTGTGAGATTCGGAAAGACTTCACAATAGATGCAACTTTCAAAGGAAATTCATCACGCTTTTTAAACCATAGCTGTGATCCCAATTGTGTTTTGGAGAAGTGGCAAGTAGATGGTGAAACACGCATTGGTGTATTTGCTGGTCGTTCAATAGAAGTTGGAGAGCCATTGACATACGATTACAGATTTGTGCAATTTGGTGCAGAGGTTAAGTGCCGCTGCGGTTCCCCGAAATGTCAAGGATTTCTAGGTTCAAAAAAGAAAATTGGCAGAGTAAACATCTGTTGGGGCGCAAAACGTAAGCGAACTTCTTACCCTAGGGCAGCAAATGCTGCTGATTTGCCAAAGTATTATATGTAG

Protein sequence

>Msa0288400

MLDSGNLAPSPPLSAPCSITDAAPAAPNAASGSSDNGSSAYARVLKRTRGSLRKTDKHKSLWDRLTDPQSLPFLVAAPKMVECCFCHHALCPEDELLCSVRGCAARYHKECAKQAVGVCFICKQKLNLLRCVRCTVAFHIKCAPWPEAVIRLEDHPGQAVCWRHSDWRLDKSNEEFKIDFTWKDMDNKMEPPPYTHIRRNMYLVKKKRSDVDDDVGCTNCSSTCSNDCVCRVQCISCSKACRCSENCSNRPFRREKQIRIVKTEFCGWGVEAVETIEKGEFIIEYIGEVIDDALCEQRLWDMKYKGVQNFYMCEIRKDFTIDATFKGNSSRFLNHSCDPNCVLEKWQVDGETRIGVFAGRSIEVGEPLTYDYRFVQFGAEVKCRCGSPKCQGFLGSKKKIGRVNICWGAKRKRTSYPRAANAADLPKYYM*