AlfalfaGEDB | Msa0559820

M. sativa cultivar zhongmu-4 / Msa0559820

KEGG: -
GO: GO:0000976 GO:0000977 GO:0000981 GO:0001012 GO:0001067 GO:0001085 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032502 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141
PFAM: PF06200.17

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
Msa0559820	XP_003608402.1	94.311	334	18	1	1	333	1	334	0.0	654

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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
Msa0559820	sp\|Q8H1G0\|GAT28_ARATH	59.043	188	69	3	40	220	80	266	1.42e-60	199

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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
Msa0559820	G7JV51	94.311	334	18	1	1	333	1	334	0.0	654

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TFs/TRs:

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Gene ID	Type	Classification
Msa0559820	TF	C2C2-GATA

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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
Msa0559820	Msa0638910	0.879589	1.101435e-69	-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
Msa0559820	MtrunA17_Chr4g0049741	94.311	334	18	1	1	333	1	334	0.0	654
Msa0559820	MtrunA17_Chr3g0132751	46.512	301	132	8	40	318	66	359	5.82e-76	237
Msa0559820	MtrunA17_Chr3g0132761	44.697	264	132	7	5	268	33	282	9.06e-57	186
Msa0559820	MtrunA17_Chr5g0427661	55.191	183	65	7	43	219	74	245	1.20e-55	182
Msa0559820	MtrunA17_Chr4g0002231	48.387	93	41	2	126	211	43	135	2.72e-20	85.9
Msa0559820	MtrunA17_Chr3g0102511	47.115	104	40	6	140	235	11	107	8.15e-17	81.3
Msa0559820	MtrunA17_Chr3g0091641	63.830	47	17	0	103	149	493	539	1.46e-12	68.6
Msa0559820	MtrunA17_Chr4g0002251	52.727	55	18	1	177	231	9	55	1.60e-12	62.4
Msa0559820	MtrunA17_Chr4g0061021	64.444	45	16	0	104	148	501	545	8.18e-12	66.2
Msa0559820	MtrunA17_Chr4g0002261	72.093	43	11	1	108	149	24	66	8.20e-12	60.1

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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
Msa0559820	AT1G51600.1	59.043	188	69	3	40	220	80	266	1.45e-61	199
Msa0559820	AT1G51600.2	59.043	188	69	3	40	220	80	266	1.45e-61	199
Msa0559820	AT3G21175.2	55.440	193	70	5	38	220	74	260	3.43e-60	195
Msa0559820	AT3G21175.1	54.922	193	73	4	38	220	74	262	3.92e-60	195
Msa0559820	AT4G24470.1	46.977	215	97	6	19	230	63	263	5.87e-50	169
Msa0559820	AT4G24470.2	46.977	215	97	6	19	230	63	263	5.87e-50	169
Msa0559820	AT4G24470.3	46.977	215	97	6	19	230	63	263	6.51e-50	169
Msa0559820	AT3G21175.3	57.018	114	46	2	38	151	74	184	5.71e-33	122

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Find 95 sgRNAs with CRISPR-Local

Find 293 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATTAAATCCGGTTACAT+GGG	0.565035	4_1:+58999942	None:intergenic
AAAGCTTTGAATTACGGAAA+GGG	0.538823	4_1:+59003401	None:intergenic
AACATAAACCTCGCCTTCAA+AGG	0.517160	4_1:+59004014	None:intergenic
AACCTCGCCTTCAAAGGAAA+TGG	0.478631	4_1:+59004020	None:intergenic
AAGACATTGGTGTGCGACCG+AGG	0.606997	4_1:-59000126	Msa0559820:three_prime_UTR
AAGGGAACACTGAGAGATCT+CGG	0.561679	4_1:-59002175	Msa0559820:CDS
AATAGGATGCAACGGAAGAA+TGG	0.473196	4_1:-59002785	Msa0559820:intron
AATTGGTGCAAAGTCTACTC+CGG	0.650622	4_1:-59002537	Msa0559820:CDS
ACACTATACAAAATTAAATC+CGG	0.426016	4_1:+58999933	None:intergenic
ACAGAAGCGGTAATGGGTTG+AGG	0.500608	4_1:+59004069	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAACTTCAATTGAACGATG+GGG	+	chr4_1:59000133-59000152	None:intergenic	30.0%
CTGTATTGTTACTCTTAGAT+GGG	-	chr4_1:59000469-59000488	Msa0559820:intron	30.0%
ATAGGAAAACATTATATGCC+AGG	+	chr4_1:59000827-59000846	None:intergenic	30.0%
AAGTTGAATAAAGCCTATCT+TGG	-	chr4_1:59001094-59001113	Msa0559820:intron	30.0%
ATTCATCTAATAGGATGCAA+CGG	-	chr4_1:59001275-59001294	Msa0559820:intron	30.0%
GCACCAATATTAAGACTAAA+AGG	+	chr4_1:59001446-59001465	None:intergenic	30.0%
TATGTTATTCATTCCGCATT+CGG	-	chr4_1:59002023-59002042	Msa0559820:intron	30.0%
ACCAATGTCACAAGAAAATA+AGG	+	chr4_1:59002518-59002537	None:intergenic	30.0%
GCATTCTCAATAACATGAAT+TGG	+	chr4_1:59002968-59002987	None:intergenic	30.0%
CTATTATCATTATCCACATG+GGG	+	chr4_1:59003037-59003056	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	58999915	59004175	58999915	ID=Msa0559820;Name=Msa0559820
chr4_1	mRNA	58999915	59004175	58999915	ID=Msa0559820-mRNA-1;Parent=Msa0559820;Name=Msa0559820-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0\|0.9\|0.63\|1\|1\|1\|11\|238\|333
chr4_1	exon	58999915	59000194	58999915	ID=Msa0559820-mRNA-1:exon:18180;Parent=Msa0559820-mRNA-1
chr4_1	exon	59000282	59000353	59000282	ID=Msa0559820-mRNA-1:exon:18179;Parent=Msa0559820-mRNA-1
chr4_1	exon	59000509	59000589	59000509	ID=Msa0559820-mRNA-1:exon:18178;Parent=Msa0559820-mRNA-1
chr4_1	exon	59001439	59001507	59001439	ID=Msa0559820-mRNA-1:exon:18177;Parent=Msa0559820-mRNA-1
chr4_1	exon	59001650	59001697	59001650	ID=Msa0559820-mRNA-1:exon:18176;Parent=Msa0559820-mRNA-1
chr4_1	exon	59002138	59002194	59002138	ID=Msa0559820-mRNA-1:exon:18175;Parent=Msa0559820-mRNA-1
chr4_1	exon	59002469	59002583	59002469	ID=Msa0559820-mRNA-1:exon:18174;Parent=Msa0559820-mRNA-1
chr4_1	exon	59002701	59002802	59002701	ID=Msa0559820-mRNA-1:exon:18173;Parent=Msa0559820-mRNA-1
chr4_1	exon	59003301	59003434	59003301	ID=Msa0559820-mRNA-1:exon:18172;Parent=Msa0559820-mRNA-1
chr4_1	exon	59003533	59003628	59003533	ID=Msa0559820-mRNA-1:exon:18171;Parent=Msa0559820-mRNA-1
chr4_1	exon	59003990	59004175	59003990	ID=Msa0559820-mRNA-1:exon:18170;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59003990	59004175	59003990	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59003533	59003628	59003533	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59003301	59003434	59003301	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59002701	59002802	59002701	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59002469	59002583	59002469	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59002138	59002194	59002138	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59001650	59001697	59001650	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59001439	59001507	59001439	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59000509	59000589	59000509	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59000282	59000353	59000282	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	CDS	59000153	59000194	59000153	ID=Msa0559820-mRNA-1:cds;Parent=Msa0559820-mRNA-1
chr4_1	three_prime_UTR	58999915	59000152	58999915	ID=Msa0559820-mRNA-1:three_prime_utr;Parent=Msa0559820-mRNA-1

Gene Sequence

>Msa0559820

ATGGAAATGCTGAATTCGTCTGAGAATGGGTCAATGGCCATGCACTGTACCAATGTAGCTTCCGTTTCTGACGAAGGTGAAAAACCTCAACCCATTACCGCTTCTGTTCCACTCTCTCGTGCTAGTGAACTCACCATTTCCTTTGAAGGCGAGGTTTATGTTTTCCCTTCCGTTACGCCAGAAAAGGTGCAGGCTGTATTGTTACTCTTAGATGGGCAGGAGACACGCAATAGCGTACCCACTTCTGACTTTTCGGTGCAGCAAAACTGTCGGGACATTTGGGGGAAAAATGACCCTTTCCGTAATTCAAAGCTTTCACGGAGATCTGCATCACTTGTTAGGTTTCGTGAAAAACGAAAAGAGAGATGTTTTGAGAAGAAAATCCGGTACACTTGCCGTAAAGAGCTTGCTGAGAGGATGCAACGGAAGAATGGACAGTTTGCATCATTGAAGGAAGAATGCAGTTCTCCTGCTGAAAACCAGGATTCTAGCAACAGTACTCCTTTCCCAGAATCCATTGAACGTAGATGCCAGCATTGTGGAATTGGTGCAAAGTCTACTCCGGTAATGCGTCGAGGACCGGCTGGTCCAAGAACTCTATGCAATGCTTGCGGGCTCATGTGGGCAAATAAGGGAACACTGAGAGATCTCGGCAAAGCAGGAAGGATTGCTTTTGAACAGAATGAACTGGATTTTTCAACAGATCCAGAAAATTCATGTGCTGCACAGGACAAGAAGGAAAGCCCCCATGAAACAAAGCCTTTGCCAATGGATGCCAGACAGTCACCTGAGATGATAATTGAGCAGTATATGCTCGAAGCTGCTGAAGCAGTTACTGATAACTTGTCCATCCAAGTGGAGAATAATGCTCTTGATCTGCACGAGCAGGATAATATTATGGAGGATTTTGCTGATGCATCTGGGACTGAATTTGAGATTCCTTTAGGTTTTGATGATCAGGTCGATATTGATGATTCCAATATGAGGACTTACTGGCTGTGA

Protein sequence

>Msa0559820

MEMLNSSENGSMAMHCTNVASVSDEGEKPQPITASVPLSRASELTISFEGEVYVFPSVTPEKVQAVLLLLDGQETRNSVPTSDFSVQQNCRDIWGKNDPFRNSKLSRRSASLVRFREKRKERCFEKKIRYTCRKELAERMQRKNGQFASLKEECSSPAENQDSSNSTPFPESIERRCQHCGIGAKSTPVMRRGPAGPRTLCNACGLMWANKGTLRDLGKAGRIAFEQNELDFSTDPENSCAAQDKKESPHETKPLPMDARQSPEMIIEQYMLEAAEAVTDNLSIQVENNALDLHEQDNIMEDFADASGTEFEIPLGFDDQVDIDDSNMRTYWL*