AlfalfaGEDB | Msa0087980

M. sativa cultivar zhongmu-4 / Msa0087980

KEGG: K21776
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: PF03638.18

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
Msa0087980	XP_024630895.1	87.097	558	61	3	1	557	1	548	0.0	987

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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
Msa0087980	sp\|Q9LUI3\|TSO1_ARATH	26.714	569	338	14	16	553	22	542	2.60e-42	164

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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
Msa0087980	A0A396K8E7	87.097	558	61	3	1	557	1	548	0.0	985

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TFs/TRs:

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Gene ID	Type	Classification
Msa0087980	TF	CPP

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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
Msa0087980	MtrunA17_Chr1g0205031	87.097	558	61	3	1	557	1	548	0.0	985
Msa0087980	MtrunA17_Chr5g0394661	34.494	632	273	17	16	543	23	617	1.05e-79	266
Msa0087980	MtrunA17_Chr1g0205021	40.523	306	78	8	16	294	2	230	7.41e-49	169
Msa0087980	MtrunA17_Chr1g0205011	51.852	216	68	6	235	429	4	204	9.77e-46	160
Msa0087980	MtrunA17_Chr1g0149101	37.415	147	88	4	415	558	500	645	1.28e-23	105
Msa0087980	MtrunA17_Chr8g0390351	37.594	133	73	4	415	543	85	211	1.07e-17	86.7
Msa0087980	MtrunA17_Chr6g0485811	39.516	124	65	4	424	543	139	256	1.81e-17	85.9
Msa0087980	MtrunA17_Chr1g0205001	28.676	272	125	5	189	460	18	220	4.77e-17	80.5
Msa0087980	MtrunA17_Chr1g0205001	73.810	42	11	0	15	56	61	102	8.55e-14	70.9
Msa0087980	MtrunA17_Chr3g0139951	36.923	130	70	4	417	537	143	269	6.99e-15	77.0

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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
Msa0087980	AT3G22780.1	26.714	569	338	14	16	553	22	542	2.64e-43	164
Msa0087980	AT3G22760.1	27.306	553	285	16	16	555	21	469	1.04e-40	156
Msa0087980	AT4G14770.1	28.671	572	291	24	9	543	13	504	1.64e-40	156
Msa0087980	AT4G14770.3	28.369	564	288	23	16	543	2	485	4.38e-40	155
Msa0087980	AT4G14770.2	28.419	563	287	23	17	543	2	484	6.31e-40	154
Msa0087980	AT3G22760.2	31.579	323	171	6	233	555	74	346	8.56e-39	149
Msa0087980	AT3G04850.1	33.725	255	117	7	294	537	363	576	1.76e-30	126
Msa0087980	AT5G25790.3	36.496	137	77	4	424	560	106	232	1.59e-17	85.9
Msa0087980	AT5G25790.2	34.307	137	84	3	424	560	106	236	9.29e-17	83.6
Msa0087980	AT5G25790.1	34.307	137	84	3	424	560	106	236	1.57e-16	82.8

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Find 94 sgRNAs with CRISPR-Local

Find 180 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACATGAAAAGGACGATGA+AGG	0.570624	1_2:-69005025	Msa0087980:CDS
AAAGGACGATGAAGGTGCAT+AGG	0.604624	1_2:-69005017	Msa0087980:CDS
AAAGGAGCAACTCTGATGAG+AGG	0.655315	1_2:-69005401	Msa0087980:CDS
AAATCCTGAACTTTCATCTG+AGG	0.591883	1_2:-69006439	Msa0087980:CDS
AAGCAGTCTTGACATGAGCA+AGG	0.654291	1_2:+69004342	None:intergenic
AAGTATCTTCTTGAATTACT+TGG	0.428004	1_2:-69006312	Msa0087980:CDS
AAGTCATCAGTTCACATTCC+TGG	0.424450	1_2:-69005126	Msa0087980:CDS
AAGTTATTGTAATCACAATC+TGG	0.434332	1_2:+69006207	None:intergenic
AATTAAGAGAGGGGATGATG+AGG	0.639810	1_2:-69005989	Msa0087980:intron
AATTGTGGCTGCTTTGCTGC+TGG	0.427566	1_2:-69004381	Msa0087980:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTGAAGGTGGAACATTTATT+CGG	-	chr1_2:69004550-69004569	Msa0087980:intron	30.0%
TGAAATTGAAGACAATCCTT+TGG	-	chr1_2:69004701-69004720	Msa0087980:intron	30.0%
GATAGCAATCAAATTAAGAG+AGG	-	chr1_2:69004786-69004805	Msa0087980:intron	30.0%
TAGCAATCAAATTAAGAGAG+GGG	-	chr1_2:69004788-69004807	Msa0087980:intron	30.0%
GGTCAGAAAATCAAATCTAT+TGG	-	chr1_2:69004818-69004837	Msa0087980:intron	30.0%
CGAATGGACATAAAAAATAC+AGG	+	chr1_2:69004947-69004966	None:intergenic	30.0%
CTGTACTTTCAAAGTAACAA+TGG	+	chr1_2:69005010-69005029	None:intergenic	30.0%
AAGTACAGTCTATACAAAGT+AGG	-	chr1_2:69005022-69005041	Msa0087980:CDS	30.0%
AGTACAGTCTATACAAAGTA+GGG	-	chr1_2:69005023-69005042	Msa0087980:CDS	30.0%
AACAGGTTAAACTGATATGT+TGG	+	chr1_2:69005067-69005086	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	69003819	69006989	69003819	ID=Msa0087980;Name=Msa0087980
chr1_2	mRNA	69003819	69006989	69003819	ID=Msa0087980-mRNA-1;Parent=Msa0087980;Name=Msa0087980-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0\|0\|0\|1\|1\|1\|7\|0\|563
chr1_2	exon	69006942	69006989	69006942	ID=Msa0087980-mRNA-1:exon:23708;Parent=Msa0087980-mRNA-1
chr1_2	exon	69006563	69006723	69006563	ID=Msa0087980-mRNA-1:exon:23707;Parent=Msa0087980-mRNA-1
chr1_2	exon	69005990	69006482	69005990	ID=Msa0087980-mRNA-1:exon:23706;Parent=Msa0087980-mRNA-1
chr1_2	exon	69004919	69005490	69004919	ID=Msa0087980-mRNA-1:exon:23705;Parent=Msa0087980-mRNA-1
chr1_2	exon	69004224	69004404	69004224	ID=Msa0087980-mRNA-1:exon:23704;Parent=Msa0087980-mRNA-1
chr1_2	exon	69004041	69004139	69004041	ID=Msa0087980-mRNA-1:exon:23703;Parent=Msa0087980-mRNA-1
chr1_2	exon	69003819	69003956	69003819	ID=Msa0087980-mRNA-1:exon:23702;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69006942	69006989	69006942	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69006563	69006723	69006563	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69005990	69006482	69005990	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69004919	69005490	69004919	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69004224	69004404	69004224	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69004041	69004139	69004041	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1
chr1_2	CDS	69003819	69003956	69003819	ID=Msa0087980-mRNA-1:cds;Parent=Msa0087980-mRNA-1

Gene Sequence

>Msa0087980

ATGGCGGTACTAGATCACAAGAACACCCTTGTTTCCAACTCACAAGAGGATGATTCTTTCTTTGACTACCTCAATACTCTATCTCCTTTAAACACCAAAAAGTATGTTGGAGTTGGAGCTACTATGACGCTGAACTCACTTGGCATGGCTTATCCTCTTTTCACATCACTCGATGTGACCTTTAACGACGAGTCCATATTCCTCACGAGGAATAATCTTTTGTACACATCAAATCCTGAACTTTCATCTGAGGCTGTAAATAACACATATTCACATGAAGAAGCTCCTACAGATTCAACTCATGCATGGATTGACACAAGTCAGCTACATGATCCTCAAATCTCAAGTGATGATGCTAAGTATCTTCTTGAATTACTTGGCAAGCAAGAACCAGATGGTACGGATGTACAAGATGACTCTGTCACAGATGTAGTTGAAGGTGGAACATTTATTCGGGAAGGACCAGATTGTGATTACAATAACTTAATTAGTGCAACACAATCTGTGACCCTGTTACCACAATCTACCAGTAATAGCAATTATAAAATGAAAACTGTTGACCCACTTGCTTTTGGCTCAAAACATGAAATTGAAGACAATCCTTTGGAACCAATAGCCGCAACAGACAGAAATCAAGCACGGAACAATCTTGCCAATGTTGCTTTAATGGATAGCAATCAAATTAAGAGAGGGGATGATGAGCTTGCACGTATTAGACGCAGTATACAGATGAGCTGTCAAGGCTATGAGTCTGAGATGACCAGTATGCAAAGGAGCAACTCTGATGAGAGGAATGCTATTAACAAAAACACTAGTGATTCACAGAAGTGTGTTTTGCAAGGAAATGGTTTTTACTGGAATGCACTTCCAGCCTTAAATCATTACGAAGGCATAGAAAATGAAAAGATGTCTTCTCAAAGGAAACCTGAATCACCGAGCTGCACTTATTCTTTAAATATTTCTGTAAGTCAAGGGTATCAACTATCTCAAGTCTCTGCACCAATGGAGACACATTTACGGCTATCTGAGAATGAAGATGTCACCAAGTCATCAGTTCACATTCCTGGTGAAGATTTCCGTCAGAGTACTCCCAAAAGGACGAGTGAAGTGCAATTTAAGGACATAAAGAACAAAAAGTTAGATCAAAACATGAAAAGGACGATGAAGGTGCATAGGAAAGGCTCGATTGATCTAGTTTCTTCTGGTTCAGAACATGTAAAGGAAGAGGAAAGAGCTGATTTCTGTCAGAGTATCCGCAAAAGGAAGAGGAAAGTTAATTGTGGCTGCTTTGCTGCTGGAGTCTACTGCACAGGACCTTGCTCATGTCAAGACTGCTTGAATAAACATATTAATGAAGATACAGTTCTGCAAGCTCGCAGGATGATTGAGTATCGTAATCCACCTGCATTTGTTCCTAAAGTTCGAAAGAATTCTGGTTCCTCACCTCAAATTGTGGATGACCCCAACAAAGCTCCAGCTTCAAAGCGACGACGCAGAATACGATGCAAGTGCAGGAAATCAAGCTGCATGAATAAACGTTGTGAATGTTTTAAGGGTGGTGTCGCTTGTTCCCCAAGTTGTAAATGTGAAGGGTGCGAAAATATACATGGTAGGAAGGATAGTGCAGCTGAAACTAAATCTGAGCTTGAAGAAACAGAAGCATCACAGATAAAGCTACAAATTTGTATGTAA

Protein sequence

>Msa0087980

MAVLDHKNTLVSNSQEDDSFFDYLNTLSPLNTKKYVGVGATMTLNSLGMAYPLFTSLDVTFNDESIFLTRNNLLYTSNPELSSEAVNNTYSHEEAPTDSTHAWIDTSQLHDPQISSDDAKYLLELLGKQEPDGTDVQDDSVTDVVEGGTFIREGPDCDYNNLISATQSVTLLPQSTSNSNYKMKTVDPLAFGSKHEIEDNPLEPIAATDRNQARNNLANVALMDSNQIKRGDDELARIRRSIQMSCQGYESEMTSMQRSNSDERNAINKNTSDSQKCVLQGNGFYWNALPALNHYEGIENEKMSSQRKPESPSCTYSLNISVSQGYQLSQVSAPMETHLRLSENEDVTKSSVHIPGEDFRQSTPKRTSEVQFKDIKNKKLDQNMKRTMKVHRKGSIDLVSSGSEHVKEEERADFCQSIRKRKRKVNCGCFAAGVYCTGPCSCQDCLNKHINEDTVLQARRMIEYRNPPAFVPKVRKNSGSSPQIVDDPNKAPASKRRRRIRCKCRKSSCMNKRCECFKGGVACSPSCKCEGCENIHGRKDSAAETKSELEETEASQIKLQICM*