AlfalfaGEDB | Msa0096180

M. sativa cultivar zhongmu-4 / Msa0096180

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00319.21

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0096180	XP_013469276.1	88.535	157	17	1	1	156	1	157	2.80e-95	282

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0096180	sp\|Q9FJK3\|AGL80_ARATH	42.308	156	89	1	1	155	1	156	3.21e-30	114

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0096180	A0A072VMS9	88.535	157	17	1	1	156	1	157	1.34e-95	282

TFs/TRs:

Gene ID	Type	Classification
Msa0096180	TF	MADS-M-type

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0096180	MtrunA17_Chr1g0197321	88.535	157	17	1	1	156	1	157	2.58e-99	282
Msa0096180	MtrunA17_Chr1g0197261	72.436	156	43	0	1	156	1	156	4.39e-82	239
Msa0096180	MtrunA17_Chr5g0420351	55.484	155	69	0	1	155	1	155	1.27e-58	179
Msa0096180	MtrunA17_Chr1g0197461	57.143	154	66	0	3	156	2	155	9.53e-58	177
Msa0096180	MtrunA17_Chr1g0188681	52.903	155	73	0	1	155	1	155	2.41e-55	171
Msa0096180	MtrunA17_Chr1g0193311	56.129	155	68	0	1	155	1	155	5.65e-52	162
Msa0096180	MtrunA17_Chr1g0188661	52.903	155	73	0	1	155	1	155	1.51e-49	156
Msa0096180	MtrunA17_Chr4g0012761	52.258	155	74	0	1	155	1	155	3.90e-48	153
Msa0096180	MtrunA17_Chr7g0218151	50.968	155	76	0	1	155	1	155	4.80e-47	150
Msa0096180	MtrunA17_Chr1g0188651	50.968	155	74	1	1	155	1	153	8.93e-43	139
Msa0096180	MtrunA17_Chr3g0107351	43.226	155	87	1	3	156	2	156	3.61e-37	125
Msa0096180	MtrunA17_Chr3g0107341	42.581	155	88	1	3	156	2	156	8.62e-37	124
Msa0096180	MtrunA17_Chr3g0107361	41.935	155	89	1	3	156	2	156	1.86e-36	123
Msa0096180	MtrunA17_Chr3g0107331	40.645	155	91	1	3	156	2	156	5.47e-36	122
Msa0096180	MtrunA17_Chr3g0110131	41.667	156	90	1	1	155	1	156	8.19e-35	121
Msa0096180	MtrunA17_Chr4g0014321	35.443	158	100	2	1	156	1	158	1.27e-34	120
Msa0096180	MtrunA17_Chr4g0014031	42.405	158	89	2	1	156	1	158	2.41e-34	120
Msa0096180	MtrunA17_Chr3g0107381	35.714	154	98	1	1	153	1	154	1.54e-33	117
Msa0096180	MtrunA17_Chr5g0432691	38.854	157	95	1	1	156	1	157	1.24e-32	113
Msa0096180	MtrunA17_Chr4g0013041	34.320	169	96	4	1	156	1	167	1.65e-31	112
Msa0096180	MtrunA17_Chr8g0351751	34.375	160	101	2	1	156	1	160	6.52e-31	111
Msa0096180	MtrunA17_Chr2g0283941	35.256	156	99	2	1	154	1	156	1.41e-27	102
Msa0096180	MtrunA17_Chr4g0014121	40.385	156	91	2	1	154	29	184	1.79e-27	101
Msa0096180	MtrunA17_Chr2g0296831	40.496	121	71	1	1	120	1	121	1.34e-25	94.4
Msa0096180	MtrunA17_Chr4g0014131	40.506	158	92	2	1	156	1	158	1.89e-25	97.1
Msa0096180	MtrunA17_Chr3g0107461	32.075	159	102	3	1	155	1	157	6.00e-24	91.3
Msa0096180	MtrunA17_Chr2g0296861	34.737	95	61	1	1	94	1	95	2.83e-19	79.3
Msa0096180	MtrunA17_Chr4g0008701	35.185	108	69	1	3	109	6	113	1.08e-18	81.6
Msa0096180	MtrunA17_Chr7g0267601	33.333	108	71	1	3	109	6	113	1.43e-17	78.6
Msa0096180	MtrunA17_Chr4g0031421	34.109	129	77	3	29	152	1	126	3.27e-16	70.9
Msa0096180	MtrunA17_Chr3g0106421	32.308	130	84	3	29	155	1	129	4.42e-16	72.4
Msa0096180	MtrunA17_Chr3g0128721	26.452	155	113	1	3	156	6	160	6.43e-15	70.9
Msa0096180	MtrunA17_Chr3g0106501	32.824	131	84	3	29	156	1	130	7.86e-15	67.8
Msa0096180	MtrunA17_Chr3g0105791	31.250	128	82	3	29	152	1	126	1.41e-14	66.6
Msa0096180	MtrunA17_Chr1g0162261	40.426	94	55	1	64	156	22	115	2.55e-14	65.5
Msa0096180	MtrunA17_Chr6g0449861	29.518	166	98	6	1	157	9	164	1.17e-13	67.0
Msa0096180	MtrunA17_Chr6g0457851	27.381	168	99	6	1	157	11	166	2.97e-13	65.9
Msa0096180	MtrunA17_Chr1g0212151	27.439	164	100	5	1	155	1	154	1.27e-11	61.2
Msa0096180	MtrunA17_Chr3g0142191	27.778	162	96	4	1	154	1	149	4.50e-11	58.9
Msa0096180	MtrunA17_Chr1g0161931	32.990	97	64	1	61	156	25	121	5.48e-11	56.6
Msa0096180	MtrunA17_Chr1g0162181	37.234	94	58	1	64	156	22	115	9.58e-11	56.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0096180	AT5G48670.1	42.308	156	89	1	1	155	1	156	3.27e-31	114
Msa0096180	AT1G65300.1	37.013	154	96	1	3	155	2	155	1.21e-30	112
Msa0096180	AT3G05860.2	38.926	149	90	1	1	148	1	149	2.21e-30	109
Msa0096180	AT5G26630.1	39.744	156	93	1	1	155	1	156	2.65e-30	109
Msa0096180	AT3G05860.3	38.926	149	90	1	1	148	1	149	9.27e-30	108
Msa0096180	AT3G05860.1	38.926	149	90	1	1	148	1	149	1.31e-29	108
Msa0096180	AT1G65330.1	37.662	154	95	1	3	155	2	155	4.06e-28	105
Msa0096180	AT1G31640.1	35.333	150	95	2	3	151	2	150	7.29e-26	102
Msa0096180	AT1G22590.2	34.177	158	100	2	1	157	1	155	3.06e-25	95.1
Msa0096180	AT5G26650.1	34.641	153	99	1	4	155	2	154	6.99e-25	98.6
Msa0096180	AT5G27960.1	34.641	153	99	1	4	155	2	154	2.53e-24	96.3
Msa0096180	AT2G28700.1	40.000	110	65	1	1	109	1	110	6.36e-24	95.5
Msa0096180	AT5G06500.1	36.076	158	93	2	1	154	1	154	2.19e-22	89.7
Msa0096180	AT1G31630.1	29.801	151	104	2	3	152	2	151	4.52e-21	87.8
Msa0096180	AT5G27810.1	37.500	96	59	1	29	123	1	96	7.60e-19	77.4
Msa0096180	AT5G26580.1	30.128	156	94	3	1	155	1	142	8.60e-16	73.6
Msa0096180	AT2G40210.1	46.667	75	40	0	1	75	1	75	1.67e-14	70.1
Msa0096180	AT2G22630.1	50.000	52	26	0	1	52	1	52	2.60e-11	60.1
Msa0096180	AT2G22630.2	50.000	52	26	0	1	52	1	52	2.60e-11	60.1
Msa0096180	AT1G47760.1	30.973	113	67	3	1	110	1	105	4.79e-11	58.5

Find 33 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACCTCTCAATTATCTTAT+TGG	0.120149	1_3:-1841232	None:intergenic
ATTATCTTATTGGCTCCTTC+TGG	0.257805	1_3:-1841222	None:intergenic
TGCCTTCCTTGCTGCGTCAT+CGG	0.331092	1_3:-1841076	None:intergenic
TGCTGCGTCATCGGGAATAA+AGG	0.359895	1_3:-1841067	None:intergenic
GCCTTCCTTGCTGCGTCATC+GGG	0.360745	1_3:-1841075	None:intergenic
TCTGCATGATAAACCTTTCA+TGG	0.377114	1_3:-1841293	None:intergenic
TTCACCTTTCTTCTCGCCAT+TGG	0.379933	1_3:-1841039	None:intergenic
GAGAAGATTGATACACTTGA+TGG	0.449535	1_3:+1841489	Msa0096180:CDS
TTATTGGCTCCTTCTGGATG+TGG	0.451748	1_3:-1841216	None:intergenic
ACTGAAGAAGTGAAGGATCT+TGG	0.461931	1_3:+1841432	Msa0096180:CDS
ACCTCTGTCTGAGAATCAAA+TGG	0.473279	1_3:-1841189	None:intergenic
TCAAAGCAAGGGACAAACTA+AGG	0.480536	1_3:+1841322	Msa0096180:CDS
AAGCTACAATAAAAGAAAGA+AGG	0.492405	1_3:+1841098	Msa0096180:CDS
AGCTGGAACATCACAAAGAA+TGG	0.506592	1_3:-1841148	None:intergenic
GCAACCAATGGCGAGAAGAA+AGG	0.507401	1_3:+1841035	None:intergenic
ATGAGAATCGTGAGCAAGAG+TGG	0.520504	1_3:+1841355	Msa0096180:CDS
CTGAAAATTATAGCACAAGC+TGG	0.522219	1_3:-1841165	None:intergenic
TCCCGATGACGCAGCAAGGA+AGG	0.534188	1_3:+1841074	Msa0096180:CDS
GCGTGCTGAGAAGAAGTTGA+AGG	0.552409	1_3:+1841458	Msa0096180:CDS
AAAGAAGGGTCTCATAAAGA+AGG	0.555375	1_3:+1841113	Msa0096180:CDS
TCCATTTGATTCTCAGACAG+AGG	0.558728	1_3:+1841188	Msa0096180:CDS
TGCAGACGATTGTCAAAGCA+AGG	0.562423	1_3:+1841310	Msa0096180:CDS
AGCTACAATAAAAGAAAGAA+GGG	0.567899	1_3:+1841099	Msa0096180:CDS
CTAGAAATGTGAGCCATGAA+AGG	0.580946	1_3:+1841280	Msa0096180:CDS
ACTGACTACTGAAGAAGTGA+AGG	0.595360	1_3:+1841425	Msa0096180:CDS
TGAGAATCGTGAGCAAGAGT+GGG	0.628956	1_3:+1841356	Msa0096180:CDS
GAGGTTTCAAAGTTTAGCTG+TGG	0.630642	1_3:+1841248	Msa0096180:CDS
TTATTCCCGATGACGCAGCA+AGG	0.647670	1_3:+1841070	Msa0096180:CDS
GAGGTGTGGCCACATCCAGA+AGG	0.649175	1_3:+1841207	Msa0096180:CDS
GAGCCAATAAGATAATTGAG+AGG	0.656204	1_3:+1841229	Msa0096180:CDS
TTGATTCTCAGACAGAGGTG+TGG	0.667220	1_3:+1841193	Msa0096180:CDS
GCAGACGATTGTCAAAGCAA+GGG	0.675137	1_3:+1841311	Msa0096180:CDS
TGCTGAGAAGAAGTTGAAGG+AGG	0.675328	1_3:+1841461	Msa0096180:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	AAGCTACAATAAAAGAAAGA+AGG	+	chr1_3:1841098-1841117	Msa0096180:CDS	25.0%
!	AGCTACAATAAAAGAAAGAA+GGG	+	chr1_3:1841099-1841118	Msa0096180:CDS	25.0%
!	AAACCTCTCAATTATCTTAT+TGG	-	chr1_3:1841235-1841254	None:intergenic	25.0%
	AAAGAAGGGTCTCATAAAGA+AGG	+	chr1_3:1841113-1841132	Msa0096180:CDS	35.0%
	CTGAAAATTATAGCACAAGC+TGG	-	chr1_3:1841168-1841187	None:intergenic	35.0%
!!	ATTATCTTATTGGCTCCTTC+TGG	-	chr1_3:1841225-1841244	None:intergenic	35.0%
	GAGCCAATAAGATAATTGAG+AGG	+	chr1_3:1841229-1841248	Msa0096180:CDS	35.0%
	TCTGCATGATAAACCTTTCA+TGG	-	chr1_3:1841296-1841315	None:intergenic	35.0%
	GAGAAGATTGATACACTTGA+TGG	+	chr1_3:1841489-1841508	Msa0096180:CDS	35.0%
	AGCTGGAACATCACAAAGAA+TGG	-	chr1_3:1841151-1841170	None:intergenic	40.0%
	TCCATTTGATTCTCAGACAG+AGG	+	chr1_3:1841188-1841207	Msa0096180:CDS	40.0%
	ACCTCTGTCTGAGAATCAAA+TGG	-	chr1_3:1841192-1841211	None:intergenic	40.0%
	GAGGTTTCAAAGTTTAGCTG+TGG	+	chr1_3:1841248-1841267	Msa0096180:CDS	40.0%
	CTAGAAATGTGAGCCATGAA+AGG	+	chr1_3:1841280-1841299	Msa0096180:CDS	40.0%
	TCAAAGCAAGGGACAAACTA+AGG	+	chr1_3:1841322-1841341	Msa0096180:CDS	40.0%
!!!	AGTGGGATCTTTTTTTGCTC+AGG	+	chr1_3:1841373-1841392	Msa0096180:CDS	40.0%
	ACTGACTACTGAAGAAGTGA+AGG	+	chr1_3:1841425-1841444	Msa0096180:CDS	40.0%
	ACTGAAGAAGTGAAGGATCT+TGG	+	chr1_3:1841432-1841451	Msa0096180:CDS	40.0%
	TTGATTCTCAGACAGAGGTG+TGG	+	chr1_3:1841193-1841212	Msa0096180:CDS	45.0%
!!	TTATTGGCTCCTTCTGGATG+TGG	-	chr1_3:1841219-1841238	None:intergenic	45.0%
	TGCAGACGATTGTCAAAGCA+AGG	+	chr1_3:1841310-1841329	Msa0096180:CDS	45.0%
	GCAGACGATTGTCAAAGCAA+GGG	+	chr1_3:1841311-1841330	Msa0096180:CDS	45.0%
	ATGAGAATCGTGAGCAAGAG+TGG	+	chr1_3:1841355-1841374	Msa0096180:CDS	45.0%
	TGAGAATCGTGAGCAAGAGT+GGG	+	chr1_3:1841356-1841375	Msa0096180:CDS	45.0%
	TGCTGAGAAGAAGTTGAAGG+AGG	+	chr1_3:1841461-1841480	Msa0096180:CDS	45.0%
	TGCTGCGTCATCGGGAATAA+AGG	-	chr1_3:1841070-1841089	None:intergenic	50.0%
	TTATTCCCGATGACGCAGCA+AGG	+	chr1_3:1841070-1841089	Msa0096180:CDS	50.0%
	GCGTGCTGAGAAGAAGTTGA+AGG	+	chr1_3:1841458-1841477	Msa0096180:CDS	50.0%
	TGCCTTCCTTGCTGCGTCAT+CGG	-	chr1_3:1841079-1841098	None:intergenic	55.0%
	TCCCGATGACGCAGCAAGGA+AGG	+	chr1_3:1841074-1841093	Msa0096180:CDS	60.0%
	GCCTTCCTTGCTGCGTCATC+GGG	-	chr1_3:1841078-1841097	None:intergenic	60.0%
	GAGGTGTGGCCACATCCAGA+AGG	+	chr1_3:1841207-1841226	Msa0096180:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_3	gene	1841042	1841515	1841042	ID=Msa0096180;Name=Msa0096180
chr1_3	mRNA	1841042	1841515	1841042	ID=Msa0096180-mRNA-1;Parent=Msa0096180;Name=Msa0096180-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|157
chr1_3	exon	1841042	1841515	1841042	ID=Msa0096180-mRNA-1:exon:377;Parent=Msa0096180-mRNA-1
chr1_3	CDS	1841042	1841515	1841042	ID=Msa0096180-mRNA-1:cds;Parent=Msa0096180-mRNA-1

Gene Sequence

>Msa0096180

ATGGCGAGAAGAAAGGTGAAACTCGCCTTTATTCCCGATGACGCAGCAAGGAAGGCAAGCTACAATAAAAGAAAGAAGGGTCTCATAAAGAAGGTAAGTGAACTCACCATTCTTTGTGATGTTCCAGCTTGTGCTATAATTTTCAGTCCATTTGATTCTCAGACAGAGGTGTGGCCACATCCAGAAGGAGCCAATAAGATAATTGAGAGGTTTCAAAGTTTAGCTGTGGTAGATGAAACTAGAAATGTGAGCCATGAAAGGTTTATCATGCAGACGATTGTCAAAGCAAGGGACAAACTAAGGAAGTTGAAATATGAGAATCGTGAGCAAGAGTGGGATCTTTTTTTGCTCAGGAACTTGAAAAACAACAATGTGCTTGATGAACTGACTACTGAAGAAGTGAAGGATCTTGGTAAGCGTGCTGAGAAGAAGTTGAAGGAGGTTAATGAGAAGATTGATACACTTGATGGATGA

Protein sequence

>Msa0096180

MARRKVKLAFIPDDAARKASYNKRKKGLIKKVSELTILCDVPACAIIFSPFDSQTEVWPHPEGANKIIERFQSLAVVDETRNVSHERFIMQTIVKARDKLRKLKYENREQEWDLFLLRNLKNNNVLDELTTEEVKDLGKRAEKKLKEVNEKIDTLDG*