AlfalfaGEDB | Msa0013300

M. sativa cultivar zhongmu-4 / Msa0013300

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005886 GO:0006950 GO:0008104 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009909 GO:0010048 GO:0016020 GO:0031974 GO:0031981 GO:0033036 GO:0034613 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050896 GO:0051179 GO:0051239 GO:0051641 GO:0065007 GO:0070013 GO:0070727 GO:0071944 GO:0097159 GO:1901363 GO:2000026 GO:2000241
PFAM: PF02362.24

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
Msa0013300	sp\|Q8L3W1\|VRN1_ARATH	48.363	397	145	9	3	398	2	339	8.48e-115	343

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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
Msa0013300	TF	B3

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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
Msa0013300	Msa0539400	-0.804808	1.808757e-49	-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
Msa0013300	MtrunA17_Chr1g0162441	95.872	436	15	2	1	436	1	433	0.0	840
Msa0013300	MtrunA17_Chr4g0033961	60.592	439	157	8	3	436	2	429	0.0	523
Msa0013300	MtrunA17_Chr1g0162411	49.882	423	120	14	1	363	1	391	2.46e-109	330
Msa0013300	MtrunA17_Chr1g0162421	89.655	58	6	0	21	78	7	64	2.31e-31	114
Msa0013300	MtrunA17_Chr1g0162431	83.333	54	9	0	348	401	5	58	2.87e-25	98.2
Msa0013300	MtrunA17_Chr5g0429931	50.000	84	42	0	22	105	10	93	5.67e-24	100
Msa0013300	MtrunA17_Chr5g0429931	30.387	181	93	6	221	395	89	242	1.66e-11	64.3
Msa0013300	MtrunA17_Chr4g0009491	45.455	99	54	0	7	105	225	323	5.72e-24	103
Msa0013300	MtrunA17_Chr4g0009491	41.176	85	50	0	21	105	11	95	2.93e-17	83.6
Msa0013300	MtrunA17_Chr3g0077461	44.444	99	55	0	7	105	237	335	5.76e-24	103

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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
Msa0013300	AT3G18990.1	48.363	397	145	9	3	398	2	339	8.62e-116	343
Msa0013300	AT3G18990.2	48.111	397	146	9	3	398	2	339	1.38e-114	341
Msa0013300	AT1G49480.3	64.417	163	53	4	237	398	66	224	9.76e-64	205
Msa0013300	AT1G49480.1	64.417	163	53	4	237	398	66	224	9.76e-64	205
Msa0013300	AT1G49480.2	64.417	163	53	4	237	398	66	224	9.76e-64	205
Msa0013300	AT4G01580.1	42.718	103	59	0	3	105	26	128	4.73e-24	99.4
Msa0013300	AT3G18960.2	40.777	103	61	0	3	105	26	128	8.87e-23	95.9
Msa0013300	AT3G18960.1	40.777	103	61	0	3	105	26	128	9.36e-23	96.3
Msa0013300	AT1G49475.1	35.849	106	64	2	3	105	27	131	6.93e-17	79.0
Msa0013300	AT3G18960.3	41.667	84	49	0	22	105	8	91	1.31e-16	77.8

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Find 109 sgRNAs with CRISPR-Local

Find 245 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGGTTGACAACCGAATT+TGG	0.209979	1_1:-20626413	Msa0013300:CDS
AAACTCAACCACGTTAACTG+GGG	0.714026	1_1:-20626036	Msa0013300:CDS
AACAGCAGAAGAAAGAGAAA+GGG	0.540440	1_1:-20625490	Msa0013300:CDS
AACAGGCCACTGTCTCCCAT+CGG	0.611536	1_1:+20625220	None:intergenic
AACCGAATTTGGTTTGTCGA+TGG	0.576855	1_1:-20626402	Msa0013300:CDS
AACTTGCAGTACTACCTCTC+TGG	0.523861	1_1:+20625088	None:intergenic
AAGAATTTGAACGGTGTTTC+AGG	0.187714	1_1:-20625263	Msa0013300:CDS
AATTTCATGAGTCTATCACT+CGG	0.643910	1_1:+20628542	None:intergenic
ACCTTGTCTTGCAATGCACC+AGG	0.549286	1_1:+20626138	None:intergenic
ACTCGACAGAATGGATTGGT+TGG	0.561915	1_1:+20625441	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATTTCATGAGTCTATCACT+CGG	+	chr1_1:20624955-20624974	None:intergenic	30.0%
GTTTGACTAAAAAGCTGAAT+AGG	-	chr1_1:20625040-20625059	Msa0013300:CDS	30.0%
ATTCAAAGCATAATCTTGGA+AGG	+	chr1_1:20625144-20625163	None:intergenic	30.0%
AGAGATTCAAAGCATAATCT+TGG	+	chr1_1:20625148-20625167	None:intergenic	30.0%
GTTATGATTGTTGTAAGGAA+AGG	-	chr1_1:20625330-20625349	Msa0013300:CDS	30.0%
AACTCAGTGATCAAAATCAT+GGG	+	chr1_1:20625464-20625483	None:intergenic	30.0%
AAACTCAGTGATCAAAATCA+TGG	+	chr1_1:20625465-20625484	None:intergenic	30.0%
TCTGTTATGATTCTTGATGA+AGG	-	chr1_1:20625491-20625510	Msa0013300:CDS	30.0%
CTGTTATGATTCTTGATGAA+GGG	-	chr1_1:20625492-20625511	Msa0013300:CDS	30.0%
CTTTGAATGAGAAATTCTTG+TGG	-	chr1_1:20625684-20625703	Msa0013300:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	20624950	20628566	20624950	ID=Msa0013300;Name=Msa0013300
chr1_1	mRNA	20624950	20628566	20624950	ID=Msa0013300-mRNA-1;Parent=Msa0013300;Name=Msa0013300-mRNA-1;_AED=0.15;_eAED=0.15;_QI=233\|0.66\|0.5\|1\|1\|1\|4\|0\|436
chr1_1	exon	20624950	20625360	20624950	ID=Msa0013300-mRNA-1:exon:7343;Parent=Msa0013300-mRNA-1
chr1_1	exon	20625443	20625597	20625443	ID=Msa0013300-mRNA-1:exon:7342;Parent=Msa0013300-mRNA-1
chr1_1	exon	20625851	20626532	20625851	ID=Msa0013300-mRNA-1:exon:7341;Parent=Msa0013300-mRNA-1
chr1_1	exon	20628271	20628566	20628271	ID=Msa0013300-mRNA-1:exon:7340;Parent=Msa0013300-mRNA-1
chr1_1	five_prime_UTR	20628334	20628566	20628334	ID=Msa0013300-mRNA-1:five_prime_utr;Parent=Msa0013300-mRNA-1
chr1_1	CDS	20628271	20628333	20628271	ID=Msa0013300-mRNA-1:cds;Parent=Msa0013300-mRNA-1
chr1_1	CDS	20625851	20626532	20625851	ID=Msa0013300-mRNA-1:cds;Parent=Msa0013300-mRNA-1
chr1_1	CDS	20625443	20625597	20625443	ID=Msa0013300-mRNA-1:cds;Parent=Msa0013300-mRNA-1
chr1_1	CDS	20624950	20625360	20624950	ID=Msa0013300-mRNA-1:cds;Parent=Msa0013300-mRNA-1

Gene Sequence

>Msa0013300

ATGCCTCCTCGTCCTTCTTTTCACAAGCTCATTCTCCCTTCATCCCTTCAAACTAGACAATTGAGGATTCCAGATAATTTTCTTAGGAAATATGGGGCCCAGCTTTCGACTATTGCAACCCTCACTGTTCCTGATGGCACTGTCTGGCGTCTAGGATTGAAAAAGGTTGACAACCGAATTTGGTTTGTCGATGGCTGGCAAGATTTTGTTCAACGTTACTCCATTGGCATTGGATACTTTCTAGTATTCACTTATGAAGGAAATTCAAATTTCATTGTTCATATCTTTAATATGAGTACTGCTGAGTTAAACTATCAATCAGCCATGAGAAGCCGTACTGAAGGGCCTTGCTATGCAAATTATCATCCTATTTTTGAAGACATTGAAGATATCGACTCCTTTGAATTCCTGGATTCATCACCTTCAAACCTTACTCCTGGTGCATTGCAAGACAAGGTTTTTAGTGGATCTTTGGATCAACTAACACCAGCGAAGAATCATACTCCATCATTGCAGAATTTGTTTAATGGGGGGTCTAAACTCAACCACGTTAACTGGGGAGATATCGGTGGTACTCTTTCTTCAAAGAGTGCCATTCAGTCAACCAGAGATATAGGTGTTCAGTTCAATGCTAATGAGTTTAAAAAGTCCACTGAAGGATTGAAATTGCGCTATCCTAATGAGGAAGGGGTTAATAATACTGATACGAAGAAAACTTCAAGAAAGAAGCGGAAATCAGATCCAAGTGCACAGGAAGCCACTGCTGAAAATGATGAGGAGGCAGAGCGCTATCGATTCTATGAAAGTGCGTCAGCAAGAAAAAGAACTGTAACAGCAGAAGAAAGAGAAAGGGCAATTAATGAGTCAAAGACTTTTGAACCAACCAATCCATTCTGTCGATCTTCTTCGACATTTCGTGTTGCGTACTCAGCTCGTGTTTCTGTTTTCCAGTATTTGCCTTCCTGCTTTGCAGAAAAGAATTTGAACGGTGTTTCAGGATTCATTAAGCTTCAGATCTCCGATGGGAGACAGTGGCCTGTTCGGTGCCTTTATAAAGGAGGCCGGGCAAAGTTAAGCCAAGGATGGTATGAGTTTACATTAGAGAACAATTTAGGGGAAGGCGATATCTGTGTTTTCGAGCTGCTTAGAACCAGAGAGGTAGTACTGCAAGTTACTTTGTTTCGTGTAAAAGAGGACGAGTCAGGGTTATTCAACCCTTCTTCACAGCCAAGCCAAAATGTGAGCCATGCAAAAATGTTGAACCCTCACTTGCAGCACCGTGTCAGCTCAACCAAATCAGCTAAAAATTAG

Protein sequence

>Msa0013300

MPPRPSFHKLILPSSLQTRQLRIPDNFLRKYGAQLSTIATLTVPDGTVWRLGLKKVDNRIWFVDGWQDFVQRYSIGIGYFLVFTYEGNSNFIVHIFNMSTAELNYQSAMRSRTEGPCYANYHPIFEDIEDIDSFEFLDSSPSNLTPGALQDKVFSGSLDQLTPAKNHTPSLQNLFNGGSKLNHVNWGDIGGTLSSKSAIQSTRDIGVQFNANEFKKSTEGLKLRYPNEEGVNNTDTKKTSRKKRKSDPSAQEATAENDEEAERYRFYESASARKRTVTAEERERAINESKTFEPTNPFCRSSSTFRVAYSARVSVFQYLPSCFAEKNLNGVSGFIKLQISDGRQWPVRCLYKGGRAKLSQGWYEFTLENNLGEGDICVFELLRTREVVLQVTLFRVKEDESGLFNPSSQPSQNVSHAKMLNPHLQHRVSSTKSAKN*