AlfalfaGEDB | Msa1252230

M. sativa cultivar zhongmu-4 / Msa1252230

KEGG: -
GO: -
PFAM: -

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
Msa1252230	XP_013446179.1	69.369	222	31	3	66	250	139	360	1.15e-94	292
Msa1252230	XP_013446179.1	89.394	66	7	0	1	66	1	66	3.97e-28	120

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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
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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
Msa1252230	A0A072TSM2	69.369	222	31	3	66	250	139	360	5.50e-95	292
Msa1252230	A0A072TSM2	89.394	66	7	0	1	66	1	66	1.90e-28	120

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TFs/TRs:

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Gene ID	Type	Classification
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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
Msa0017160	Msa1252230	0.805857	1.090021e-49	-8.615850e-47
Msa0269360	Msa1252230	0.800731	1.255704e-48	-8.615850e-47
Msa0789270	Msa1252230	0.816042	6.781028e-52	-8.615850e-47
Msa0789280	Msa1252230	0.812722	3.674931e-51	-8.615850e-47
Msa0789290	Msa1252230	0.818094	2.345634e-52	-8.615850e-47
Msa0789300	Msa1252230	0.814096	1.833422e-51	-8.615850e-47
Msa0796590	Msa1252230	0.807122	5.898649e-50	-8.615850e-47
Msa0908170	Msa1252230	0.800437	1.442197e-48	-8.615850e-47
Msa1089530	Msa1252230	0.804409	2.190237e-49	-8.615850e-47
Msa1252230	Msa1262130	0.806750	7.068998e-50	-8.615850e-47

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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
Msa1252230	MtrunA17_Chr8g0368481	69.369	222	31	3	66	250	139	360	1.06e-98	292
Msa1252230	MtrunA17_Chr8g0368481	89.394	66	7	0	1	66	1	66	3.65e-32	120
Msa1252230	MtrunA17_Chr8g0368491	60.177	226	53	3	62	250	120	345	1.09e-80	246
Msa1252230	MtrunA17_Chr8g0368491	94.118	34	2	0	33	66	18	51	3.14e-13	68.2
Msa1252230	MtrunA17_Chr5g0413351	40.175	229	92	5	62	250	105	328	6.30e-42	145
Msa1252230	MtrunA17_Chr3g0117481	32.479	234	101	6	66	250	127	352	2.33e-27	107
Msa1252230	MtrunA17_Chr4g0058951	33.913	230	97	6	62	245	125	345	5.40e-27	106
Msa1252230	MtrunA17_Chr7g0228251	33.906	233	106	8	53	247	95	317	2.92e-26	104
Msa1252230	MtrunA17_Chr1g0194161	31.081	222	108	7	62	245	110	324	6.48e-18	81.6

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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
Msa1252230	AT1G70505.3	36.279	215	96	6	66	242	111	322	3.69e-28	109
Msa1252230	AT1G70505.4	36.279	215	96	6	66	242	137	348	5.00e-28	110
Msa1252230	AT1G10660.2	35.160	219	99	8	62	240	101	316	2.08e-25	102
Msa1252230	AT1G10660.1	35.160	219	99	8	62	240	101	316	2.08e-25	102
Msa1252230	AT1G10660.3	35.160	219	99	8	62	240	101	316	2.08e-25	102
Msa1252230	AT1G10660.4	35.160	219	99	8	62	240	101	316	2.08e-25	102
Msa1252230	AT5G62960.1	31.801	261	100	9	25	245	120	342	7.62e-24	98.6
Msa1252230	AT3G27770.2	32.857	210	95	7	66	235	65	268	1.57e-20	88.2
Msa1252230	AT3G27770.1	32.381	210	96	6	66	235	108	311	1.76e-20	89.0
Msa1252230	AT1G70505.2	44.444	117	59	4	66	180	111	223	1.22e-18	82.8

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Find 54 sgRNAs with CRISPR-Local

Find 409 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATAAATAAGCCGTAACA+TGG	0.575164	8_2:-49070620	None:intergenic
AAATTACCTGATAAATTATC+TGG	0.284897	8_2:-49066312	None:intergenic
AAATTGAGAACATACCATAA+GGG	0.597196	8_2:-49069733	None:intergenic
AATGTGATATCACTTATCAA+TGG	0.522615	8_2:+49065114	Msa1252230:CDS
AATTATCAATCACTGAATGA+AGG	0.531601	8_2:+49070723	Msa1252230:three_prime_UTR
AATTCCTGATTAGGACACTT+AGG	0.504450	8_2:-49066250	None:intergenic
ACATACCATAAGGGAGCATA+TGG	0.428499	8_2:-49069724	None:intergenic
ACTGAATTAGAGATTCTTCT+TGG	0.267469	8_2:+49065075	Msa1252230:CDS
ACTTCCTAAGTGTCCTAATC+AGG	0.415815	8_2:+49066246	Msa1252230:CDS
ACTTTGGTCACTATTTACTT+TGG	0.380949	8_2:+49065787	Msa1252230:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACTGAATTAGAGATTCTTCT+TGG	+	chr8_2:49065075-49065094	Msa1252230:CDS	30.0%
TGTTATATGAAGATGAAGCT+TGG	+	chr8_2:49065307-49065326	Msa1252230:intron	30.0%
CTATAAACAAGAAGCCAATA+AGG	-	chr8_2:49065357-49065376	None:intergenic	30.0%
ATTGCCAATGTTATTGTTTC+AGG	+	chr8_2:49065411-49065430	Msa1252230:intron	30.0%
ACTTTGGTCACTATTTACTT+TGG	+	chr8_2:49065787-49065806	Msa1252230:CDS	30.0%
CTTTGGTCACTATTTACTTT+GGG	+	chr8_2:49065788-49065807	Msa1252230:CDS	30.0%
TTTGGTCACTATTTACTTTG+GGG	+	chr8_2:49065789-49065808	Msa1252230:CDS	30.0%
TTAGTGAGGGAATTTAGAAA+TGG	+	chr8_2:49065903-49065922	Msa1252230:intron	30.0%
CAAGCTGAAAGTAAAATTGA+GGG	-	chr8_2:49066093-49066112	None:intergenic	30.0%
TAATCAGGAATTTCATACCA+GGG	+	chr8_2:49066261-49066280	Msa1252230:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_2	gene	49065045	49070859	49065045	ID=Msa1252230;Name=Msa1252230
chr8_2	mRNA	49065045	49070859	49065045	ID=Msa1252230-mRNA-1;Parent=Msa1252230;Name=Msa1252230-mRNA-1;_AED=0.41;_eAED=0.44;_QI=0\|0.4\|0.5\|1\|0.2\|0.33\|6\|150\|250
chr8_2	exon	49065045	49065241	49065045	ID=Msa1252230-mRNA-1:exon:14824;Parent=Msa1252230-mRNA-1
chr8_2	exon	49065777	49065810	49065777	ID=Msa1252230-mRNA-1:exon:14825;Parent=Msa1252230-mRNA-1
chr8_2	exon	49066109	49066327	49066109	ID=Msa1252230-mRNA-1:exon:14826;Parent=Msa1252230-mRNA-1
chr8_2	exon	49068742	49068835	49068742	ID=Msa1252230-mRNA-1:exon:14827;Parent=Msa1252230-mRNA-1
chr8_2	exon	49069693	49069783	49069693	ID=Msa1252230-mRNA-1:exon:14828;Parent=Msa1252230-mRNA-1
chr8_2	exon	49070592	49070859	49070592	ID=Msa1252230-mRNA-1:exon:14829;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49065045	49065241	49065045	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49065777	49065810	49065777	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49066109	49066327	49066109	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49068742	49068835	49068742	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49069693	49069783	49069693	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	CDS	49070592	49070709	49070592	ID=Msa1252230-mRNA-1:cds;Parent=Msa1252230-mRNA-1
chr8_2	three_prime_UTR	49070710	49070859	49070710	ID=Msa1252230-mRNA-1:three_prime_utr;Parent=Msa1252230-mRNA-1

Gene Sequence

>Msa1252230

ATGATCAAATTACCAAAGCTCCTTTTCCTCACTGAATTAGAGATTCTTCTTGGTTATGTACCAAAGAAAAATGTGATATCACTTATCAATGGACCAACAGATACAACTGCATTAAGTTATTGGTTGAATTGGAGATTCTTCTTTTGTGCACTATGGATTTTCATTTCAATGACACTAGCATGTTATTTAATATTCAAATTGACCTTCACTTTGGTCACTATTTACTTTGGGCTTGGATCATCTTTATCAATATATGGATGTTTATTTAAACACAATGAATTTGGGGCAAGAACAGTAAATGGTGCTTCTATAGATGCAGAAAGCACTTATATGGCTCCATCTCTTGAAGGGGTTTTAGATATTCCTGTACTTCCTAAGTGTCCTAATCAGGAATTTCATACCAGGGAAATTGCTGGTGTGTGGGGTTACATTTTCCAGATAATTTATCAGACTTGTGCAGGTGCTGTATTTCTCACTGACTTTGTATTTTGGTTCGTCCTTTATCCAGTGAGAGCATTCAATAACGACAAACTTGATTTTGTAAGTGACCTTACCCTTTCCTTGATCTGTCATCTCCATATGCTCCCTTATGGTATGTTCTCAATTTCACTTTGTCACCATTGCTCAAATATATTGTACTTGGGAGTGAATCTCATGCATTTTCCATGTTACGGCTTATTTATTTTGATAGTGAAGTTGAAGCATTTTTGGTTATCTAGATCATTTCCTGGGTCATCAAGAATTGTACATTGA

Protein sequence

>Msa1252230

MIKLPKLLFLTELEILLGYVPKKNVISLINGPTDTTALSYWLNWRFFFCALWIFISMTLACYLIFKLTFTLVTIYFGLGSSLSIYGCLFKHNEFGARTVNGASIDAESTYMAPSLEGVLDIPVLPKCPNQEFHTREIAGVWGYIFQIIYQTCAGAVFLTDFVFWFVLYPVRAFNNDKLDFVSDLTLSLICHLHMLPYGMFSISLCHHCSNILYLGVNLMHFPCYGLFILIVKLKHFWLSRSFPGSSRIVH*