AlfalfaGEDB | Msa0643340

M. sativa cultivar zhongmu-4 / Msa0643340

KEGG: -
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
PFAM: PF03195.17

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
Msa0643340	XP_003606493.1	92.147	191	8	2	19	203	1	190	2.55e-125	361

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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
Msa0643340	sp\|Q9SK08\|LBD11_ARATH	66.129	186	45	6	32	203	51	232	1.21e-74	227

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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
Msa0643340	G7JRG8	92.147	191	8	2	19	203	1	190	1.22e-125	361

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TFs/TRs:

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Gene ID	Type	Classification
Msa0643340	TF	LOB

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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
Msa0377530	Msa0643340	0.814876	1.231986e-51	-8.615850e-47
Msa0426810	Msa0643340	0.805968	1.033184e-49	-8.615850e-47
Msa0464900	Msa0643340	0.806751	7.063353e-50	-8.615850e-47
Msa0517490	Msa0643340	0.809880	1.520565e-50	-8.615850e-47
Msa0539240	Msa0643340	0.931280	4.771651e-94	-8.615850e-47
Msa0602350	Msa0643340	0.883769	3.390116e-71	-8.615850e-47
Msa0643340	Msa0683160	0.933334	2.199832e-95	-8.615850e-47
Msa0643340	Msa1452470	0.803960	2.715927e-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
Msa0643340	MtrunA17_Chr4g0030001	92.147	191	8	2	19	203	1	190	2.35e-129	361
Msa0643340	MtrunA17_Chr1g0200201	72.024	168	35	6	37	203	73	229	1.63e-77	231
Msa0643340	MtrunA17_Chr2g0326051	69.841	126	37	1	78	203	1	125	4.15e-61	186
Msa0643340	MtrunA17_Chr2g0311601	72.321	112	30	1	33	144	10	120	2.84e-55	172
Msa0643340	MtrunA17_Chr3g0114061	56.000	150	57	3	35	182	7	149	6.84e-50	159
Msa0643340	MtrunA17_Chr4g0043421	66.364	110	36	1	35	144	14	122	2.65e-49	158
Msa0643340	MtrunA17_Chr5g0437571	64.035	114	40	1	35	148	5	117	4.53e-49	157
Msa0643340	MtrunA17_Chr3g0106101	63.636	110	39	1	35	144	6	114	3.67e-47	152
Msa0643340	MtrunA17_Chr5g0438091	56.140	114	49	1	35	148	38	150	1.41e-41	139
Msa0643340	MtrunA17_Chr3g0129071	55.752	113	49	1	33	145	44	155	4.51e-40	136

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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
Msa0643340	AT2G28500.1	66.129	186	45	6	32	203	51	232	1.23e-75	227
Msa0643340	AT1G07900.1	62.500	176	47	4	32	203	29	189	5.14e-72	217
Msa0643340	AT2G30130.1	67.890	109	34	1	35	143	7	114	1.38e-49	160
Msa0643340	AT1G16530.1	58.716	109	45	0	33	141	11	119	1.45e-45	149
Msa0643340	AT1G31320.1	68.468	111	34	1	35	145	12	121	1.05e-43	144
Msa0643340	AT3G27650.1	58.654	104	42	1	35	138	38	140	6.72e-40	134
Msa0643340	AT5G63090.4	57.407	108	45	1	35	142	10	116	7.37e-40	135
Msa0643340	AT5G63090.3	57.407	108	45	1	35	142	10	116	7.37e-40	135
Msa0643340	AT5G63090.2	57.407	108	45	1	35	142	10	116	7.37e-40	135
Msa0643340	AT5G63090.1	57.407	108	45	1	35	142	10	116	7.37e-40	135

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Find 56 sgRNAs with CRISPR-Local

Find 232 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGTAAGGTAGCAGAGCT+AGG	0.502421	4_3:+46216175	Msa0643340:three_prime_UTR
AAAATCTTGCAAGCAGCACA+AGG	0.584368	4_3:-46214029	None:intergenic
AACTGTTGTGGTGATTCCTG+TGG	0.589765	4_3:-46215714	None:intergenic
AACTTGGCAGGATCAGTAGG+AGG	0.640755	4_3:-46214098	None:intergenic
AAGTGTTTCCTTCACCGATT+TGG	0.365501	4_3:+46215908	Msa0643340:three_prime_UTR
AATATGATAGCATTACAAAT+AGG	0.395944	4_3:+46215876	Msa0643340:three_prime_UTR
AATTTGATGACCATCTCCGA+AGG	0.635642	4_3:+46216116	Msa0643340:three_prime_UTR
ACAACACTAGCCTATGCTCA+GGG	0.673423	4_3:+46215808	Msa0643340:CDS
ACACTAGCCTATGCTCAGGG+TGG	0.697314	4_3:+46215811	Msa0643340:CDS
ACTAGCCAAATCACAAGCTG+AGG	0.662044	4_3:+46215626	Msa0643340:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CAACATCATCAAATTCTTAC+AGG	+	chr4_3:46214151-46214170	Msa0643340:CDS	30.0%
ATTGTTGTGATCTAAGTAAG+TGG	+	chr4_3:46214704-46214723	Msa0643340:intron	30.0%
TTTAGGAGTGAAACATGATA+AGG	+	chr4_3:46214914-46214933	Msa0643340:intron	30.0%
CCATGGACCATAATAAAAAA+GGG	-	chr4_3:46214992-46215011	None:intergenic	30.0%
TCCATGGACCATAATAAAAA+AGG	-	chr4_3:46214993-46215012	None:intergenic	30.0%
TTTATTATGGTCCATGGATA+TGG	+	chr4_3:46214995-46215014	Msa0643340:intron	30.0%
GTTGACAATGCATTTATTTG+AGG	-	chr4_3:46215046-46215065	None:intergenic	30.0%
TAACAAATAGTACCTAATGG+TGG	+	chr4_3:46215079-46215098	Msa0643340:intron	30.0%
AACAAATAGTACCTAATGGT+GGG	+	chr4_3:46215080-46215099	Msa0643340:intron	30.0%
AAGTGTTATGTATGACTACA+AGG	-	chr4_3:46215113-46215132	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_3	gene	46213908	46216304	46213908	ID=Msa0643340;Name=Msa0643340
chr4_3	mRNA	46213908	46216304	46213908	ID=Msa0643340-mRNA-1;Parent=Msa0643340;Name=Msa0643340-mRNA-1;_AED=0.01;_eAED=0.01;_QI=16\|1\|1\|1\|1\|1\|2\|453\|203
chr4_3	exon	46213908	46214172	46213908	ID=Msa0643340-mRNA-1:exon:10704;Parent=Msa0643340-mRNA-1
chr4_3	exon	46215489	46216304	46215489	ID=Msa0643340-mRNA-1:exon:10705;Parent=Msa0643340-mRNA-1
chr4_3	five_prime_UTR	46213908	46213923	46213908	ID=Msa0643340-mRNA-1:five_prime_utr;Parent=Msa0643340-mRNA-1
chr4_3	CDS	46213924	46214172	46213924	ID=Msa0643340-mRNA-1:cds;Parent=Msa0643340-mRNA-1
chr4_3	CDS	46215489	46215851	46215489	ID=Msa0643340-mRNA-1:cds;Parent=Msa0643340-mRNA-1
chr4_3	three_prime_UTR	46215852	46216304	46215852	ID=Msa0643340-mRNA-1:three_prime_utr;Parent=Msa0643340-mRNA-1

Gene Sequence

>Msa0643340

ATGCACATACAAACATATAGAAAAAAACAAAGGGAAGTGTTATTTATTAGTAACATGGAGAGTGCTACTAGTGACACTTTCTCTGCTCAAGCTGTTGTTATGAGTCCTTGTGCTGCTTGCAAGATTTTGAGGAGAAGATGTGCTGCTGATAAATGTGTTTTGGCACCTTATTTTCCTCCTACTGATCCTGCCAAGTTTACCATTGCTCATAGAGTTTTTGGTGCTAGCAACATCATCAAATTCTTACAGGAACTTCCAGAAGCTCAAAGAGCTGATGCAGTGACAAGCATGGTTTATGAGGCTAGTGCAAGAGTTAGAGACCCAGTTTATGGTTGTGCAGGAGCAATTTGTCAACTCCAAAAGCAAGTCAATGAGCTTCAAGCACAACTAGCCAAATCACAAGCTGAGGTTGTAAACATGAAACTCCAGCAAGCCAATCTTGTTGCTCTATTTTGCATGGAAATGTCACAAAGTCCACAGGAATCACCACAACAGTTATCAGTGGATGATTTCATTCAAAGTCCTTCCCATAGCAATGGACATCATATCGGTTTGAACTTTCTTGATGACAACACTAGCCTATGCTCAGGGTGGGATACACTTTGGACATGA

Protein sequence

>Msa0643340

MHIQTYRKKQREVLFISNMESATSDTFSAQAVVMSPCAACKILRRRCAADKCVLAPYFPPTDPAKFTIAHRVFGASNIIKFLQELPEAQRADAVTSMVYEASARVRDPVYGCAGAICQLQKQVNELQAQLAKSQAEVVNMKLQQANLVALFCMEMSQSPQESPQQLSVDDFIQSPSHSNGHHIGLNFLDDNTSLCSGWDTLWT*