AlfalfaGEDB | Msa0006680

M. sativa cultivar zhongmu-4 / Msa0006680

KEGG: K04454|K09260
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006996 GO:0007275 GO:0008150 GO:0009553 GO:0009657 GO:0009658 GO:0009791 GO:0009888 GO:0009889 GO:0009909 GO:0009911 GO:0009960 GO:0009987 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048316 GO:0048518 GO:0048580 GO:0048582 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051049 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071840 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000026 GO:2000112 GO:2000241 GO:2000243 GO:2001141
PFAM: PF00319.21

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
Msa0006680	sp\|Q9FKK2\|AGL62_ARATH	54.255	188	79	3	5	189	3	186	9.40e-61	196

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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
Msa0006680	TF	MADS-M-type

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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
Msa0006680	MtrunA17_Chr8g0355091	91.983	237	19	0	1	237	1	237	5.71e-163	450
Msa0006680	MtrunA17_Chr1g0149391	93.671	237	15	0	1	237	1	237	1.66e-154	428
Msa0006680	MtrunA17_Chr1g0206701	90.295	237	23	0	1	237	1	237	4.77e-150	417
Msa0006680	MtrunA17_Chr1g0206721	89.474	228	24	0	1	228	1	228	5.04e-145	404
Msa0006680	MtrunA17_Chr2g0292791	87.764	237	29	0	1	237	1	237	1.56e-144	403
Msa0006680	MtrunA17_Chr1g0206691	85.455	220	32	0	18	237	1	220	1.85e-140	392
Msa0006680	MtrunA17_Chr3g0099421	85.388	219	32	0	1	219	26	244	1.99e-140	394
Msa0006680	MtrunA17_Chr3g0099411	80.365	219	24	1	1	219	1	200	8.17e-125	352
Msa0006680	MtrunA17_Chr3g0089141	72.766	235	46	3	1	225	1	227	7.57e-119	338
Msa0006680	MtrunA17_Chr5g0422941	67.511	237	77	0	1	237	1	237	3.81e-118	336

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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
Msa0006680	AT5G60440.1	54.255	188	79	3	5	189	3	186	9.56e-62	196
Msa0006680	AT2G24840.1	50.000	164	71	4	6	163	60	218	2.12e-45	152
Msa0006680	AT1G65360.1	39.207	227	123	6	5	225	3	220	4.33e-42	143
Msa0006680	AT1G01530.1	42.424	198	90	5	4	192	2	184	5.72e-42	143
Msa0006680	AT4G36590.1	46.061	165	83	2	5	163	3	167	4.26e-40	138
Msa0006680	AT2G34440.1	37.349	166	92	4	9	169	2	160	4.97e-28	105
Msa0006680	AT3G66656.1	41.985	131	71	2	9	134	2	132	1.60e-25	99.0
Msa0006680	AT3G04100.1	30.864	162	108	3	2	159	7	168	1.70e-22	91.7
Msa0006680	AT1G72350.1	33.553	152	68	3	9	160	43	161	3.79e-22	91.3
Msa0006680	AT2G45660.2	34.524	168	82	6	10	162	3	157	6.59e-20	83.6

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Find 50 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAAATGAGGTTGCAACAT+AGG	0.496587	1_1:+9657810	None:intergenic
AATATTGAGCTCGCGCACGT+TGG	0.641144	1_1:+9658157	None:intergenic
AATGAAAATACCTTCTCCCC+AGG	0.587583	1_1:+9658278	None:intergenic
ACAAATGAGGTTGCAACATA+GGG	0.527904	1_1:+9657811	None:intergenic
ACAGAGAGTGCAAAGCTCGC+TGG	0.525634	1_1:+9658331	None:intergenic
ACTTTCTCGAAGCGCCGTAG+TGG	0.571963	1_1:-9658368	Msa0006680:CDS
AGAGCTGAGCCACTTGCGCA+AGG	0.589828	1_1:-9658084	Msa0006680:CDS
AGCCCACCAAAATTGAGTCT+CGG	0.589062	1_1:+9658058	None:intergenic
AGCGAGCTTTGCACTCTCTG+TGG	0.578965	1_1:-9658329	Msa0006680:CDS
AGGCAACCGAGACTCAATTT+TGG	0.344827	1_1:-9658064	Msa0006680:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAAATGGAAAGGTTTGAGT+AGG	+	chr1_1:9658280-9658299	None:intergenic	30.0%
GAACCATTTCCAACAAAAAA+TGG	+	chr1_1:9658295-9658314	None:intergenic	30.0%
TTGTTGAAACCAAACAAATG+AGG	+	chr1_1:9658406-9658425	None:intergenic	30.0%
TCTATGACCGTATCAACATT+GGG	+	chr1_1:9657956-9657975	None:intergenic	35.0%
ATCTATGACCGTATCAACAT+TGG	+	chr1_1:9657957-9657976	None:intergenic	35.0%
TGCTAATAGACTTGTAATCC+AGG	-	chr1_1:9658249-9658268	Msa0006680:CDS	35.0%
GCTAATAGACTTGTAATCCA+GGG	-	chr1_1:9658250-9658269	Msa0006680:CDS	35.0%
ACAAATGAGGTTGCAACATA+GGG	+	chr1_1:9658393-9658412	None:intergenic	35.0%
AACAAATGAGGTTGCAACAT+AGG	+	chr1_1:9658394-9658413	None:intergenic	35.0%
ATGTTGCAACCTCATTTGTT+TGG	-	chr1_1:9658394-9658413	Msa0006680:CDS	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	9657755	9658468	9657755	ID=Msa0006680;Name=Msa0006680
chr1_1	mRNA	9657755	9658468	9657755	ID=Msa0006680-mRNA-1;Parent=Msa0006680;Name=Msa0006680-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|237
chr1_1	exon	9657755	9658468	9657755	ID=Msa0006680-mRNA-1:exon:3450;Parent=Msa0006680-mRNA-1
chr1_1	CDS	9657755	9658468	9657755	ID=Msa0006680-mRNA-1:cds;Parent=Msa0006680-mRNA-1

Gene Sequence

>Msa0006680

ATGTCAAGTGGAAGGAAAAGCCGAGGTCGCCAAAAGATTGAGATGAAAAAAATGAGCAACGAGAGCAACTTGCAAGTGACTTTCTCGAAGCGCCGTAGTGGGCTCTTCAAGAAAGCCAGCGAGCTTTGCACTCTCTGTGGTGCAGATGTTGCTCTCGTTGTTTTCTCACCTGGGGAGAAGGTATTTTCATTTGGCCAACCCAATGTTGATACGGTCATAGATCGTTATCTCTCTCGAGTCCCACCCCAAAACAATGGTACCATGCAATTCATTGAGGCTCACCGTAGTGCCAACGTGCGCGAGCTCAATATTCAGTTGACTCAGATCAACCAGCTATTGGACAATGAGAAGAAACGCGCTGAAGAGCTGAGCCACTTGCGCAAGGCAACCGAGACTCAATTTTGGTGGGCTGGTTCCGTTGATGGGATGAATATGGCCCAACTTGAATTTTTCAAAAAGGCTTTGGAGGAGATTAAGAAACTTGTTGTACATCATGCTAATAGACTTGTAATCCAGGGCGCTCCTACTCAAACCTTTCCATTTTTTGTTGGAAATGGTTCATCCTCTAACATGCCTCTCGATCATCAACCAAATCCTCCGCAAACTCAAATATTTCCAGCACAATTTTTTCAGAACCCTATGTTGCAACCTCATTTGTTTGGTTTCAACAATATGGGGGGAGGAGGTGGATATGGACCCTCCGGATTCTTTTGA

Protein sequence

>Msa0006680

MSSGRKSRGRQKIEMKKMSNESNLQVTFSKRRSGLFKKASELCTLCGADVALVVFSPGEKVFSFGQPNVDTVIDRYLSRVPPQNNGTMQFIEAHRSANVRELNIQLTQINQLLDNEKKRAEELSHLRKATETQFWWAGSVDGMNMAQLEFFKKALEEIKKLVVHHANRLVIQGAPTQTFPFFVGNGSSSNMPLDHQPNPPQTQIFPAQFFQNPMLQPHLFGFNNMGGGGGYGPSGFF*