AlfalfaGEDB | Msa0006220

M. sativa cultivar zhongmu-4 / Msa0006220

KEGG: K14491
GO: GO:0000156 GO:0000160 GO:0001101 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009653 GO:0009719 GO:0009725 GO:0009735 GO:0009736 GO:0009755 GO:0009888 GO:0009889 GO:0009966 GO:0009987 GO:0010015 GO:0010033 GO:0010035 GO:0010073 GO:0010074 GO:0010075 GO:0010082 GO:0010380 GO:0010468 GO:0010492 GO:0010556 GO:0010646 GO:0019219 GO:0019222 GO:0019827 GO:0022622 GO:0023051 GO:0023052 GO:0031323 GO:0031326 GO:0031537 GO:0032501 GO:0032502 GO:0032870 GO:0035556 GO:0040008 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048364 GO:0048367 GO:0048507 GO:0048509 GO:0048580 GO:0048583 GO:0048638 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051193 GO:0051239 GO:0051252 GO:0051716 GO:0060089 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0080022 GO:0080036 GO:0080050 GO:0080090 GO:0080113 GO:0090056 GO:0098727 GO:0099402 GO:0140110 GO:1901401 GO:1901463 GO:1901700 GO:1903506 GO:1905392 GO:2000026 GO:2000112 GO:2000241 GO:2000280 GO:2001141
PFAM: PF00072.27

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
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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
Msa0006220	sp\|A2X1N2\|ORR24_ORYSI	48.677	378	114	9	3	364	23	336	2.00e-101	323

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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
Msa0006220	TR	Others

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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
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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
Msa0006220	MtrunA17_Chr1g0149851	88.057	561	32	3	1	559	1	528	0.0	963
Msa0006220	MtrunA17_Chr1g0149841	59.051	569	105	14	1	514	1	496	0.0	549
Msa0006220	MtrunA17_Chr7g0275891	65.526	380	80	5	1	379	1	330	9.16e-156	449
Msa0006220	MtrunA17_Chr3g0137101	48.233	481	156	14	3	460	6	416	1.65e-122	375
Msa0006220	MtrunA17_Chr7g0275401	60.366	328	78	3	1	323	1	281	1.57e-113	340
Msa0006220	MtrunA17_Chr1g0149831	66.946	239	28	2	64	302	1	188	1.53e-89	276
Msa0006220	MtrunA17_Chr2g0304841	45.013	391	143	7	3	372	16	355	3.98e-87	284
Msa0006220	MtrunA17_Chr4g0067981	47.333	300	109	3	2	301	28	278	3.77e-78	260
Msa0006220	MtrunA17_Chr2g0294911	45.246	305	116	2	1	305	25	278	5.99e-75	249
Msa0006220	MtrunA17_Chr3g0123131	47.119	295	101	4	5	295	13	256	6.30e-73	243

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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
Msa0006220	AT2G25180.1	51.117	358	119	6	3	357	11	315	1.63e-97	309
Msa0006220	AT4G31920.1	45.783	415	140	10	3	403	11	354	9.13e-93	295
Msa0006220	AT5G58080.1	42.511	454	148	15	3	434	12	374	2.99e-78	259
Msa0006220	AT3G16857.1	42.727	330	106	5	3	305	31	304	2.70e-74	250
Msa0006220	AT3G16857.2	42.727	330	106	5	3	305	31	304	6.49e-74	249
Msa0006220	AT1G67710.1	45.455	297	102	6	6	295	8	251	2.05e-65	223
Msa0006220	AT2G01760.1	40.379	317	134	4	1	310	3	271	1.03e-60	206
Msa0006220	AT3G16857.3	40.830	289	88	5	44	305	2	234	3.42e-57	202
Msa0006220	AT2G01760.2	37.101	345	134	5	1	310	3	299	6.79e-55	191
Msa0006220	AT5G49240.1	34.948	289	128	6	5	287	38	272	1.56e-41	152

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Find 120 sgRNAs with CRISPR-Local

Find 176 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACCTTACAAGGGAGAATG+TGG	0.595886	1_1:-9095747	Msa0006220:CDS
AAAGAAGGTGCAATGACATT+TGG	0.412055	1_1:-9094908	Msa0006220:CDS
AAATTACCATCCTTCTCATG+TGG	0.631597	1_1:-9094709	Msa0006220:CDS
AACTCTTACCTTCCAAAAGA+AGG	0.429300	1_1:-9094855	Msa0006220:CDS
AACTGTCTAGGGTCATTCAG+TGG	0.690957	1_1:+9095170	None:intergenic
AAGGATGGTAATTTCCATCA+TGG	0.529123	1_1:+9094718	None:intergenic
AATAACCATAACAACCATGA+TGG	0.531658	1_1:-9094732	Msa0006220:CDS
AATCAAGCTCATTAGACATG+TGG	0.650925	1_1:+9094526	None:intergenic
AATTTCCATCATGGTTGTTA+TGG	0.300876	1_1:+9094727	None:intergenic
ACATATAACATGAACTCACA+AGG	0.670292	1_1:-9094804	Msa0006220:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTTAGAGATTGCACATGATT+TGG	-	chr1_1:9094757-9094776	Msa0006220:CDS	30.0%
ATCTAGTGAATCCAACAATT+TGG	+	chr1_1:9094872-9094891	None:intergenic	30.0%
TTTAAGCTTCTTGAGCTTAT+TGG	-	chr1_1:9095120-9095139	Msa0006220:CDS	30.0%
TTGCATAACTTACTTATGAC+AGG	+	chr1_1:9095162-9095181	None:intergenic	30.0%
AAAGCCATCTAGAAAAAGAA+AGG	-	chr1_1:9095482-9095501	Msa0006220:intron	30.0%
ATAAGAAAAATACCTGGAGA+TGG	+	chr1_1:9096001-9096020	None:intergenic	30.0%
TTAGATGATCACAACCATTT+CGG	-	chr1_1:9096138-9096157	Msa0006220:CDS	30.0%
ACGCTCACATATTTCAAAAA+AGG	-	chr1_1:9096175-9096194	Msa0006220:CDS	30.0%
AGAATCATTACCCAAATCTT+CGG	+	chr1_1:9096474-9096493	None:intergenic	30.0%
TGATAGATCCTATTCAAGAA+TGG	-	chr1_1:9096493-9096512	Msa0006220:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	9094295	9097445	9094295	ID=Msa0006220;Name=Msa0006220
chr1_1	mRNA	9094295	9097445	9094295	ID=Msa0006220-mRNA-1;Parent=Msa0006220;Name=Msa0006220-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0\|0\|0\|1\|1\|1\|6\|0\|576
chr1_1	exon	9097343	9097445	9097343	ID=Msa0006220-mRNA-1:exon:3255;Parent=Msa0006220-mRNA-1
chr1_1	exon	9096572	9096724	9096572	ID=Msa0006220-mRNA-1:exon:3254;Parent=Msa0006220-mRNA-1
chr1_1	exon	9095951	9096478	9095951	ID=Msa0006220-mRNA-1:exon:3253;Parent=Msa0006220-mRNA-1
chr1_1	exon	9095733	9095809	9095733	ID=Msa0006220-mRNA-1:exon:3252;Parent=Msa0006220-mRNA-1
chr1_1	exon	9094491	9095306	9094491	ID=Msa0006220-mRNA-1:exon:3251;Parent=Msa0006220-mRNA-1
chr1_1	exon	9094295	9094348	9094295	ID=Msa0006220-mRNA-1:exon:3250;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9097343	9097445	9097343	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9096572	9096724	9096572	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9095951	9096478	9095951	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9095733	9095809	9095733	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9094491	9095306	9094491	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1
chr1_1	CDS	9094295	9094348	9094295	ID=Msa0006220-mRNA-1:cds;Parent=Msa0006220-mRNA-1

Gene Sequence

>Msa0006220

ATGAATGATCAATTTCCTATTGGAATGCGTGTTCTTGCCGTCGATGATGATAGAACATGTCTCAAGATTTTGGAGAGACTTCTCCAAAGGTGTCAATACCATGTAACCACCGCTCAAAGTGCACTAACAGCACTGAACTTGTTGAGAGAAAATAAAAGCAATTTTGACCTAGTAATCAGCAATGTTCATATGCCAGACATGGATGGGTTTAAGCTTCTTGAGCTTATTGGACTTGAGATGGATTTACCTGTCATAATGTTTTCTGCGAATGATGATCCAAAGATGGTGATGAAAGGAATTGATCATGGTGCTTGTGATTATCTGCTGAAACCTGTTACATTGAAGGAGGTACAAATGATTTGGCAACATGTAGTCAGGAAGAAGAAAACTAGCAAACGGAGCAATCTTGATGCGCCTAATTCTGATAGTGGAAATGGGAAACATTCGGCTGGGACAGGCAATTCTGATCAAATTGAAAAGCCATCTAGAAAAAGAAAGGAGAAGAACGAAGATGATGATGAGGATGAGAATGAGGATGATCGTGAGAATGATGATTCGACGGCACAGAAGAAGCCTCGAGTTGTTTGGTCGGCTGACTTACACCGCAAGTTTCTTGCTGCTGTTAAACAATTAGGCTTTGAAAGTATGTTGTTCCCTCGATCTTCAATGCGCAAAAACAGTTGTCATCATAACTTTATCAATTGCTATATTCCTCTTTATTTGTTCCCATTTAATCAAGATATTCGAGTAGGTTTGTTCCCATTTAATCAAGATATTCGAGTAGAGGCTGTGCCAAAAAAGATTCTTGACTTGATGGATGATGAAAACCTTACAAGGGAGAATGTGGCTAGCCATCTCCAGAAATACAGACTCTATCTGAAAAAACAAGCTAATATGGCCGAAGATTTGGGTAATGATTCTGATAGATCCTATTCAAGAATGGGTTATATCAGTGGAGTTGGTGGACATGTGCAGCCACTGAATGACCCTAGACAGTTTCATAATAATAACAGTGCTTTCAGATCCTTTCCATCTAGTGGTATGAGTAGTAGATTGTACACTCCTGCCAGTAGTGTTAATCTGCATGGATTTCCTGCACATAATTTGAACAACTCGACAGGTGATCATCTTAGGTTTCAATCGGCCATAGCTCGCGCCAATCTGAATGATGTTCAAAGAATGCCATTTCCTTCTGTAGACTCTCAACATTCACAGTTTTCTCATCCTTTACTTGAAAAAAGAAGGTGCAATGACATTTGGTCAAGCCCTATGCTGCAATTACCAGAAACAAACTCTTACCTTCCAAAAGAAGGTTTTGTCCATGCTGCTGCTATGCCTCCTACATATAACATGAACTCACAAGGTATTATTTTTAACAGCAGTTCTAATAATGTGCCATTTCAAGGATGGGAAAATAACCATAACAACCATGATGGAAATTACCATCCTTCTCATGTGGTTGGTAGTTCAATAGGCCCTTCTATGATTCATGTTGTGAATGCTATTGAAGGAAACTTGGACAGCAATTATTGTGATCGTATCGCGGAGTTACATGACGTTCCGTCATTGAAACCACATGAGGTATATATGATGAATAATCAGATGAAGGCTGGAAATAGCCACATGTCTAATGAGCTTGATTCGCTCGAGGACGTCATGAGAGTCATGATCAAACCGAAACAATTATATGCCAATTTCTCTGGTGGGACATCAATGCCGCGGCAAGATTAG

Protein sequence

>Msa0006220

MNDQFPIGMRVLAVDDDRTCLKILERLLQRCQYHVTTAQSALTALNLLRENKSNFDLVISNVHMPDMDGFKLLELIGLEMDLPVIMFSANDDPKMVMKGIDHGACDYLLKPVTLKEVQMIWQHVVRKKKTSKRSNLDAPNSDSGNGKHSAGTGNSDQIEKPSRKRKEKNEDDDEDENEDDRENDDSTAQKKPRVVWSADLHRKFLAAVKQLGFESMLFPRSSMRKNSCHHNFINCYIPLYLFPFNQDIRVGLFPFNQDIRVEAVPKKILDLMDDENLTRENVASHLQKYRLYLKKQANMAEDLGNDSDRSYSRMGYISGVGGHVQPLNDPRQFHNNNSAFRSFPSSGMSSRLYTPASSVNLHGFPAHNLNNSTGDHLRFQSAIARANLNDVQRMPFPSVDSQHSQFSHPLLEKRRCNDIWSSPMLQLPETNSYLPKEGFVHAAAMPPTYNMNSQGIIFNSSSNNVPFQGWENNHNNHDGNYHPSHVVGSSIGPSMIHVVNAIEGNLDSNYCDRIAELHDVPSLKPHEVYMMNNQMKAGNSHMSNELDSLEDVMRVMIKPKQLYANFSGGTSMPRQD*