AlfalfaGEDB | Msa1385280

M. sativa cultivar zhongmu-4 / Msa1385280

KEGG: -
GO: GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0003712 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009739 GO:0009740 GO:0009755 GO:0009791 GO:0009889 GO:0009987 GO:0010029 GO:0010033 GO:0010099 GO:0010228 GO:0010468 GO:0010476 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0048518 GO:0048571 GO:0048573 GO:0048574 GO:0048580 GO:0048582 GO:0048583 GO:0048584 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071370 GO:0071396 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0140110 GO:1900140 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000030 GO:2000112 GO:2000306 GO:2001141
PFAM: PF00808.26

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1385280	XP_003596534.1	95.798	119	5	0	1	119	1	119	6.03e-78	235

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1385280	sp\|Q9SMP0\|NFYC1_ARATH	60.440	91	35	1	21	111	64	153	1.04e-31	114

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1385280	G7ITK9	95.798	119	5	0	1	119	1	119	2.88e-78	235

TFs/TRs:

Gene ID	Type	Classification
Msa1385280	TF	NF-YC

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa1385280	Msa1385320	0.985175	9.342732e-163	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1385280	MtrunA17_Chr2g0318881	95.798	119	5	0	1	119	1	119	5.54e-82	235
Msa1385280	MtrunA17_Chr2g0318921	91.453	117	9	1	1	116	1	117	1.03e-75	219
Msa1385280	MtrunA17_Chr1g0191681	63.855	83	29	1	21	103	100	181	4.37e-32	113
Msa1385280	MtrunA17_Chr3g0132191	63.855	83	29	1	21	103	54	135	6.32e-32	112
Msa1385280	MtrunA17_Chr7g0272991	61.446	83	31	1	21	103	100	181	3.74e-31	111
Msa1385280	MtrunA17_Chr2g0310741	58.621	87	35	1	21	107	102	187	9.38e-31	110
Msa1385280	MtrunA17_Chr2g0288481	57.317	82	34	1	23	104	86	166	3.32e-25	95.5
Msa1385280	MtrunA17_Chr8g0376351	57.627	59	25	0	41	99	1	59	6.16e-17	70.1

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1385280	AT3G48590.1	60.440	91	35	1	21	111	64	153	1.05e-32	114
Msa1385280	AT1G54830.2	63.855	83	29	1	21	103	69	150	1.15e-31	111
Msa1385280	AT1G54830.3	63.855	83	29	1	21	103	69	150	1.15e-31	111
Msa1385280	AT1G54830.1	63.855	83	29	1	21	103	69	150	1.15e-31	111
Msa1385280	AT1G08970.3	63.855	83	29	1	21	103	79	160	2.77e-31	111
Msa1385280	AT1G08970.4	63.855	83	29	1	21	103	79	160	2.77e-31	111
Msa1385280	AT1G08970.2	63.855	83	29	1	21	103	79	160	2.77e-31	111
Msa1385280	AT1G08970.1	63.855	83	29	1	21	103	79	160	2.77e-31	111
Msa1385280	AT5G63470.2	63.855	83	29	1	21	103	77	158	2.79e-31	111
Msa1385280	AT5G63470.1	63.855	83	29	1	21	103	77	158	2.79e-31	111
Msa1385280	AT1G56170.1	57.831	83	34	1	21	103	75	156	2.35e-30	107
Msa1385280	AT1G56170.2	57.831	83	34	1	21	103	75	156	2.35e-30	107
Msa1385280	AT5G50480.1	53.659	82	37	1	23	104	55	135	6.12e-25	94.0
Msa1385280	AT5G27910.1	57.895	76	31	1	21	96	35	109	3.30e-22	86.7
Msa1385280	AT5G50490.1	50.667	75	36	1	21	95	35	108	2.52e-18	76.6
Msa1385280	AT5G50470.1	41.111	90	46	2	21	104	62	150	9.01e-17	73.2
Msa1385280	AT5G38140.1	44.444	81	44	1	19	99	64	143	4.19e-15	68.2

Find 17 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TACAAGAAGGTCTTGGATTA+TGG	0.238491	tig0020728:-20094	Msa1385280:CDS
AGACAAGCAGGTGCATATTC+AGG	0.363661	tig0020728:-20273	Msa1385280:CDS
GCATATTCAGGTATACTAAA+TGG	0.364277	tig0020728:-20261	Msa1385280:CDS
AATGACAGTGGCATCATTAG+TGG	0.385275	tig0020728:+19966	None:intergenic
GAAGACGTGAAAATGATATC+AGG	0.404379	tig0020728:-20168	Msa1385280:CDS
TCTTGGATTATGGCTATTGA+TGG	0.412219	tig0020728:-20084	Msa1385280:CDS
AAGAACTTACAAGAAGGTCT+TGG	0.420089	tig0020728:-20101	Msa1385280:CDS
AATGGTGGCATAGGAAGAAC+AGG	0.483000	tig0020728:-20243	Msa1385280:CDS
ATCTTCTTTATTCTTGCCAA+GGG	0.488616	tig0020728:+20207	None:intergenic
TATCTTCTTTATTCTTGCCA+AGG	0.491757	tig0020728:+20206	None:intergenic
GGTATACTAAATGGTGGCAT+AGG	0.554867	tig0020728:-20252	Msa1385280:CDS
AGGAACAATATGAGACAAGC+AGG	0.582630	tig0020728:-20285	None:intergenic
TCATTGAAGAACTTACAAGA+AGG	0.590491	tig0020728:-20107	Msa1385280:CDS
AGTTTCTATTTGAATGACAG+TGG	0.607540	tig0020728:+19954	None:intergenic
AGGTCCACACTCATTACCCT+TGG	0.623478	tig0020728:-20223	Msa1385280:CDS
CTTGCCAAGGGTAATGAGTG+TGG	0.624889	tig0020728:+20219	None:intergenic
TATTCAGGTATACTAAATGG+TGG	0.644615	tig0020728:-20258	Msa1385280:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTGATTTTTTGATCACTT+TGG	-	tig0020728:20211-20230	Msa1385280:CDS	20.0%
	GCATATTCAGGTATACTAAA+TGG	-	tig0020728:19954-19973	Msa1385280:CDS	30.0%
	TATTCAGGTATACTAAATGG+TGG	-	tig0020728:19957-19976	Msa1385280:CDS	30.0%
	ATCTTCTTTATTCTTGCCAA+GGG	+	tig0020728:20011-20030	None:intergenic	30.0%
	TATCTTCTTTATTCTTGCCA+AGG	+	tig0020728:20012-20031	None:intergenic	30.0%
!!	CAAGCTTTTGAGAAAACAAT+TGG	+	tig0020728:20080-20099	None:intergenic	30.0%
	TCATTGAAGAACTTACAAGA+AGG	-	tig0020728:20108-20127	Msa1385280:CDS	30.0%
	AGTTTCTATTTGAATGACAG+TGG	+	tig0020728:20264-20283	None:intergenic	30.0%
	GAAGACGTGAAAATGATATC+AGG	-	tig0020728:20047-20066	Msa1385280:CDS	35.0%
	AAGAACTTACAAGAAGGTCT+TGG	-	tig0020728:20114-20133	Msa1385280:CDS	35.0%
	TACAAGAAGGTCTTGGATTA+TGG	-	tig0020728:20121-20140	Msa1385280:CDS	35.0%
	TCTTGGATTATGGCTATTGA+TGG	-	tig0020728:20131-20150	Msa1385280:CDS	35.0%
	GGTATACTAAATGGTGGCAT+AGG	-	tig0020728:19963-19982	Msa1385280:CDS	40.0%
	AATGACAGTGGCATCATTAG+TGG	+	tig0020728:20252-20271	None:intergenic	40.0%
	AGACAAGCAGGTGCATATTC+AGG	-	tig0020728:19942-19961	Msa1385280:CDS	45.0%
	AATGGTGGCATAGGAAGAAC+AGG	-	tig0020728:19972-19991	Msa1385280:CDS	45.0%
	AGGTCCACACTCATTACCCT+TGG	-	tig0020728:19992-20011	Msa1385280:CDS	50.0%
	CTTGCCAAGGGTAATGAGTG+TGG	+	tig0020728:19999-20018	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
tig0020728	gene	19939	20298	19939	ID=Msa1385280;Name=Msa1385280
tig0020728	mRNA	19939	20298	19939	ID=Msa1385280-mRNA-1;Parent=Msa1385280;Name=Msa1385280-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|119
tig0020728	exon	19939	20298	19939	ID=Msa1385280-mRNA-1:exon:9546;Parent=Msa1385280-mRNA-1
tig0020728	CDS	19939	20298	19939	ID=Msa1385280-mRNA-1:cds;Parent=Msa1385280-mRNA-1

Gene Sequence	>Msa1385280 ATGAGACAAGCAGGTGCATATTCAGGTATACTAAATGGTGGCATAGGAAGAACAGGTCCACACTCATTACCCTTGGCAAGAATAAAGAAGATAATGAAGAATTCAAGTGAAGACGTGAAAATGATATCAGGTGTTGCTCCAATTGTTTTCTCAAAAGCTTGTGAACTTTTCATTGAAGAACTTACAAGAAGGTCTTGGATTATGGCTATTGATGGTAAAAGAAGAACTTTGAATAAAGAAGATGTTGCTTCTGCTGTTATAGCTACTGATATTTTTGATTTTTTGATCACTTTGGTTTCTAATTCTGATTCCACTAATGATGCCACTGTCATTCAAATAGAAACTATGAATTCTTCTTAA
Protein sequence	>Msa1385280 MRQAGAYSGILNGGIGRTGPHSLPLARIKKIMKNSSEDVKMISGVAPIVFSKACELFIEELTRRSWIMAIDGKRRTLNKEDVASAVIATDIFDFLITLVSNSDSTNDATVIQIETMNSS*