AlfalfaGEDB | Msa0404990

M. sativa cultivar zhongmu-4 / Msa0404990

KEGG: -
GO: GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
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
Msa0404990	QJU69413.1	100.000	69	0	0	1	69	1	69	8.27e-42	148

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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
Msa0404990	sp\|A0A0P0X0C0\|MPH1_ORYSJ	61.905	63	24	0	7	69	5	67	3.71e-23	94.4

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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
Msa0404990	A0A6M5K8M6	100.000	69	0	0	1	69	1	69	3.95e-42	148

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TFs/TRs:

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Gene ID	Type	Classification
Msa0404990	TF	GARP-G2-like

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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
Msa0404990	Msa1270730	0.812099	5.028100e-51	-8.615850e-47
Msa0404990	Msa1428780	0.805775	1.134419e-49	-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
Msa0404990	MtrunA17_Chr3g0095611	98.551	69	1	0	1	69	1	69	2.14e-45	147
Msa0404990	MtrunA17_Chr2g0288601	61.905	63	24	0	7	69	59	121	1.40e-23	89.0
Msa0404990	MtrunA17_Chr8g0379121	57.576	66	28	0	4	69	96	161	1.67e-22	91.7
Msa0404990	MtrunA17_Chr1g0162931	66.102	59	20	0	11	69	10	68	4.37e-22	89.0
Msa0404990	MtrunA17_Chr2g0283951	59.091	66	27	0	4	69	74	139	8.30e-22	89.4
Msa0404990	MtrunA17_Chr2g0320231	62.295	61	23	0	9	69	87	147	9.40e-22	89.4
Msa0404990	MtrunA17_Chr1g0210911	61.667	60	23	0	10	69	13	72	2.63e-21	87.8
Msa0404990	MtrunA17_Chr7g0243081	53.623	69	32	0	1	69	53	121	3.85e-21	87.4
Msa0404990	MtrunA17_Chr1g0190301	56.061	66	28	1	4	69	161	225	4.88e-19	82.0
Msa0404990	MtrunA17_Chr7g0274471	55.172	58	26	0	19	76	218	275	7.03e-18	79.0

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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
Msa0404990	AT2G02060.2	60.000	70	28	0	4	73	14	83	7.34e-23	90.9
Msa0404990	AT2G02060.1	60.000	70	28	0	4	73	14	83	7.34e-23	90.9
Msa0404990	AT2G40260.1	61.765	68	25	1	3	69	65	132	2.63e-22	91.7
Msa0404990	AT1G14600.1	56.164	73	32	0	2	74	6	78	8.22e-22	88.2
Msa0404990	AT2G42660.1	61.017	59	23	0	11	69	42	100	3.54e-21	86.3
Msa0404990	AT4G04605.1	58.730	63	26	0	11	73	6	68	7.86e-21	84.7
Msa0404990	AT2G38300.1	57.812	64	27	0	6	69	41	104	2.50e-20	85.5
Msa0404990	AT4G04555.1	57.627	59	25	0	11	69	6	64	1.99e-17	73.2
Msa0404990	AT4G04580.1	52.542	59	28	0	11	69	6	64	3.46e-17	73.9
Msa0404990	AT4G28610.1	61.224	49	19	0	21	69	227	275	1.71e-16	75.1

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Find 42 sgRNAs with CRISPR-Local

Find 224 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAATAATTCTAAGAGAAG+TGG	0.514149	3_2:+38417604	Msa0404990:CDS
AACTATTCTTGCACCAACAC+TGG	0.497047	3_2:+38420360	Msa0404990:CDS
AATAGAGAACTGAAAGGGAA+TGG	0.478210	3_2:-38422354	None:intergenic
AATATACAAGACAAACAGAA+AGG	0.591808	3_2:-38422626	None:intergenic
ACAAAGTATTGATGAAGTTC+CGG	0.415452	3_2:-38417673	None:intergenic
ACCAACACTGGAAGAAAACA+AGG	0.606646	3_2:+38420372	Msa0404990:CDS
AGAAAGCATGCACTTGACTC+AGG	0.560531	3_2:-38422276	None:intergenic
AGTTTATATAATCTCTCCCA+TGG	0.511824	3_2:-38422470	None:intergenic
ATAATGTTATGTTATATTAA+GGG	0.399609	3_2:+38422576	Msa0404990:three_prime_UTR
ATAGAGAACTGAAAGGGAAT+GGG	0.491342	3_2:-38422353	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTTGAATATGATGCAAGTGA+AGG	+	chr3_2:38418024-38418043	Msa0404990:CDS	30.0%
TTGAATATGATGCAAGTGAA+GGG	+	chr3_2:38418025-38418044	Msa0404990:CDS	30.0%
ACATGAACTATATATGTACC+TGG	-	chr3_2:38418081-38418100	None:intergenic	30.0%
GAGGTTGGATCAAATATATA+TGG	-	chr3_2:38418108-38418127	None:intergenic	30.0%
GGAATATATAGAACTAACGT+AGG	-	chr3_2:38418314-38418333	None:intergenic	30.0%
AAGAAACAAAATCCAGTCTA+GGG	+	chr3_2:38418379-38418398	Msa0404990:intron	30.0%
ACAATTACAACAGTAGTATG+TGG	+	chr3_2:38418419-38418438	Msa0404990:intron	30.0%
AACGTTTGTGAGATATACAT+GGG	-	chr3_2:38418474-38418493	None:intergenic	30.0%
CTAATCCCTTAATGTAATCA+AGG	+	chr3_2:38418697-38418716	Msa0404990:intron	30.0%
CCAATACCTTGATTACATTA+AGG	-	chr3_2:38418706-38418725	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	38417533	38422665	38417533	ID=Msa0404990;Name=Msa0404990
chr3_2	mRNA	38417533	38422665	38417533	ID=Msa0404990-mRNA-1;Parent=Msa0404990;Name=Msa0404990-mRNA-1;_AED=0.06;_eAED=0.06;_QI=65\|0.5\|0.4\|1\|0.5\|0.8\|5\|317\|145
chr3_2	exon	38417533	38417727	38417533	ID=Msa0404990-mRNA-1:exon:7620;Parent=Msa0404990-mRNA-1
chr3_2	exon	38418005	38418081	38418005	ID=Msa0404990-mRNA-1:exon:7621;Parent=Msa0404990-mRNA-1
chr3_2	exon	38420345	38420440	38420345	ID=Msa0404990-mRNA-1:exon:7622;Parent=Msa0404990-mRNA-1
chr3_2	exon	38421909	38421967	38421909	ID=Msa0404990-mRNA-1:exon:7623;Parent=Msa0404990-mRNA-1
chr3_2	exon	38422273	38422665	38422273	ID=Msa0404990-mRNA-1:exon:7624;Parent=Msa0404990-mRNA-1
chr3_2	five_prime_UTR	38417533	38417597	38417533	ID=Msa0404990-mRNA-1:five_prime_utr;Parent=Msa0404990-mRNA-1
chr3_2	CDS	38417598	38417727	38417598	ID=Msa0404990-mRNA-1:cds;Parent=Msa0404990-mRNA-1
chr3_2	CDS	38418005	38418081	38418005	ID=Msa0404990-mRNA-1:cds;Parent=Msa0404990-mRNA-1
chr3_2	CDS	38420345	38420440	38420345	ID=Msa0404990-mRNA-1:cds;Parent=Msa0404990-mRNA-1
chr3_2	CDS	38421909	38421967	38421909	ID=Msa0404990-mRNA-1:cds;Parent=Msa0404990-mRNA-1
chr3_2	CDS	38422273	38422348	38422273	ID=Msa0404990-mRNA-1:cds;Parent=Msa0404990-mRNA-1
chr3_2	three_prime_UTR	38422349	38422665	38422349	ID=Msa0404990-mRNA-1:three_prime_utr;Parent=Msa0404990-mRNA-1

Gene Sequence

>Msa0404990

ATGAAGAACAATAATTCTAAGAGAAGTGGTGTAAGAAAATACCACAAATCAAAACAGCCACGCCTTCGATGGACACCGGAACTTCATCAATACTTTGTTCAAACTGTTGAAAGTCTTGGTGGAAAAGATAAGGCTAGTCCTAAACACATTTTGAATATGATGCAAGTGAAGGGGTTGAGAATCTCCCATATTAAAAGTCATCTCCAGGAACGTGAAGGGACAAACTATTCTTGCACCAACACTGGAAGAAAACAAGGCACAATTCAATCATCTTCCAATCTGCTCCAGTTGTTCACCCCAAAGATCGAGGAATATCAATCAAGAACTTCAACCTTTACACAACAAAAGACTTTCACAAGCAAGAGCCTGAGTCAAGTGCATGCTTTCTTAGTGACATATCAAATGAAGAAAGCGATTGTAGAACTACCAAATATCTAA

Protein sequence

>Msa0404990

MKNNNSKRSGVRKYHKSKQPRLRWTPELHQYFVQTVESLGGKDKASPKHILNMMQVKGLRISHIKSHLQEREGTNYSCTNTGRKQGTIQSSSNLLQLFTPKIEEYQSRTSTFTQQKTFTSKSLSQVHAFLVTYQMKKAIVELPNI*