AlfalfaGEDB | Msa0500070

M. sativa cultivar zhongmu-4 / Msa0500070

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006355 GO:0006417 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031331 GO:0032268 GO:0032269 GO:0034248 GO:0034249 GO:0043487 GO:0043488 GO:0044424 GO:0044444 GO:0044464 GO:0045935 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050779 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0061157 GO:0061158 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903311 GO:1903313 GO:1903506 GO:2000112 GO:2000113 GO:2001141
PFAM: PF00642.27

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
Msa0500070	XP_003600003.2	81.048	248	34	2	10	257	1	235	1.11e-142	410

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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
Msa0500070	sp\|Q9LT81\|C3H39_ARATH	36.972	284	117	6	32	253	93	376	7.24e-48	166

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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
Msa0500070	G7J1X0	81.048	248	34	2	10	257	1	235	5.29e-143	410

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TFs/TRs:

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Gene ID	Type	Classification
Msa0500070	TF	C3H

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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
No data available in table

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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
Msa0500070	MtrunA17_Chr3g0098251	80.851	188	27	1	10	197	1	179	5.41e-109	313
Msa0500070	MtrunA17_Chr4g0063401	56.098	205	64	6	16	195	44	247	1.47e-67	209
Msa0500070	MtrunA17_Chr8g0360671	77.037	135	14	2	64	196	40	159	5.29e-67	205
Msa0500070	MtrunA17_Chr4g0063361	50.246	203	89	4	5	195	39	241	8.10e-60	189
Msa0500070	MtrunA17_Chr4g0063391	46.364	220	95	5	1	202	1	215	7.02e-58	184
Msa0500070	MtrunA17_Chr4g0063371	39.630	270	102	8	1	249	1	230	2.27e-48	159
Msa0500070	MtrunA17_Chr8g0366501	27.397	292	131	7	37	250	86	374	5.23e-26	104

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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
Msa0500070	AT3G19360.1	36.972	284	117	6	32	253	93	376	7.36e-49	166
Msa0500070	AT3G19360.2	36.972	284	117	6	32	253	93	376	7.36e-49	166
Msa0500070	AT1G32360.1	27.961	304	123	7	37	250	85	382	5.43e-23	97.1

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Find 80 sgRNAs with CRISPR-Local

Find 272 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAACACTTATCACCATA+AGG	0.495083	3_4:-39986110	None:intergenic
AAACAGGGCGCTGTCCCTTT+GGG	0.314602	3_4:+39986294	Msa0500070:CDS
AACAAGTCTAGGTGTGGCAA+AGG	0.574700	3_4:+39987441	Msa0500070:CDS
AACAGGGCGCTGTCCCTTTG+GGG	0.562619	3_4:+39986295	Msa0500070:CDS
AACATTGTACCTATGCTCAC+GGG	0.508915	3_4:+39985943	Msa0500070:CDS
AATGGTGAGGAATGTCCTTA+TGG	0.454214	3_4:+39986095	Msa0500070:CDS
ACATTGTACCTATGCTCACG+GGG	0.692970	3_4:+39985944	Msa0500070:CDS
ACCAAATGTCTTACCAGTTT+CGG	0.309904	3_4:+39987393	Msa0500070:CDS
ACCAGCATCCCAACAAGTCT+AGG	0.572783	3_4:+39987430	Msa0500070:CDS
ACCTAGACTTGTTGGGATGC+TGG	0.423276	3_4:-39987431	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TCAGAAAATCATTCACAAGA+TGG	+	chr3_4:39986052-39986071	Msa0500070:CDS	30.0%
CAGAAAATCATTCACAAGAT+GGG	+	chr3_4:39986053-39986072	Msa0500070:CDS	30.0%
AGAAAATCATTCACAAGATG+GGG	+	chr3_4:39986054-39986073	Msa0500070:CDS	30.0%
CTATGCAAGAAATACTACAA+TGG	+	chr3_4:39986077-39986096	Msa0500070:CDS	30.0%
AAACAACACTTATCACCATA+AGG	-	chr3_4:39986113-39986132	None:intergenic	30.0%
GAAGCAGGTAATGATAATAT+TGG	+	chr3_4:39986341-39986360	Msa0500070:intron	30.0%
TTATAGTGTTTGATTGTGTG+TGG	+	chr3_4:39986484-39986503	Msa0500070:intron	30.0%
AGAATATGATCAACTACCTT+AGG	-	chr3_4:39986566-39986585	None:intergenic	30.0%
TTGTTAAATTGTCGCCATAA+CGG	+	chr3_4:39986685-39986704	Msa0500070:intron	30.0%
TTATACTAGATGGGGTATAA+TGG	+	chr3_4:39986974-39986993	Msa0500070:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	39985762	39987573	39985762	ID=Msa0500070;Name=Msa0500070
chr3_4	mRNA	39985762	39987573	39985762	ID=Msa0500070-mRNA-1;Parent=Msa0500070;Name=Msa0500070-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0\|0\|0\|1\|1\|1\|2\|0\|257
chr3_4	exon	39985762	39986347	39985762	ID=Msa0500070-mRNA-1:exon:8163;Parent=Msa0500070-mRNA-1
chr3_4	exon	39987386	39987573	39987386	ID=Msa0500070-mRNA-1:exon:8164;Parent=Msa0500070-mRNA-1
chr3_4	CDS	39985762	39986347	39985762	ID=Msa0500070-mRNA-1:cds;Parent=Msa0500070-mRNA-1
chr3_4	CDS	39987386	39987573	39987386	ID=Msa0500070-mRNA-1:cds;Parent=Msa0500070-mRNA-1

Gene Sequence

>Msa0500070

ATGACTTTTCCAGACCACCACAGCGATATCATGTTTCCAAAGAACAAGAGGGCAAGAATTTCTGAAAACAATCATTCAAATGCATTCATATGCCCTCTTCCATCAAACAAAGAAACAGGCGACATTTTCTTCAAGACTCGTATTTGTCATAAGTTCAGGTTTGGTAATTGTCCGAAAGGTGAACATTGTACCTATGCTCACGGGGTTGGTGAGATAAGGAAGCCATTGCCGAATTGGAAGGAGCTAGCTGGCTCTCGCAGCAAGGAATGGATGCAGTGTCTGGATGACGATCAGAAAATCATTCACAAGATGGGGCTATGCAAGAAATACTACAATGGTGAGGAATGTCCTTATGGTGATAAGTGTTGTTTTCTTCATAGACTTAGGGATGATTCTTGGAAATCAAGAGAGGCCTGTGCCTTAAGCATTGGAAGTATCGGAGATGGTTCTAATAGTTTGGAAGGCAACAGGTCTGTGAACAAGCCATCAAGGGGCACTTACCGGAAGATTAAGCTGTGTCCCACGTGGCAGCAAACAGGGCGCTGTCCCTTTGGGGACGACTTTCACTATGCTCACGGAGAAGCAGTATTTTTACCAAATGTCTTACCAGTTTCGGCTAATGATGCAACAACCAGCATCCCAACAAGTCTAGGTGTGGCAAAGGAAGTGGAGCAAGCTAAGAAGAAGCCTTTACTTTGGTGGAAATTAAACAAGAAGATCAATACTATATATGCTGATTGGATTGATGATTCACCTCTAATTCTACCCAACTAG

Protein sequence

>Msa0500070

MTFPDHHSDIMFPKNKRARISENNHSNAFICPLPSNKETGDIFFKTRICHKFRFGNCPKGEHCTYAHGVGEIRKPLPNWKELAGSRSKEWMQCLDDDQKIIHKMGLCKKYYNGEECPYGDKCCFLHRLRDDSWKSREACALSIGSIGDGSNSLEGNRSVNKPSRGTYRKIKLCPTWQQTGRCPFGDDFHYAHGEAVFLPNVLPVSANDATTSIPTSLGVAKEVEQAKKKPLLWWKLNKKINTIYADWIDDSPLILPN*