AlfalfaGEDB | Msa0196570

M. sativa cultivar zhongmu-4 / Msa0196570

KEGG: -
GO: GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001101 GO:0001134 GO:0001135 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0007275 GO:0008150 GO:0008544 GO:0009653 GO:0009719 GO:0009725 GO:0009751 GO:0009753 GO:0009791 GO:0009888 GO:0009889 GO:0009913 GO:0009987 GO:0010016 GO:0010033 GO:0010061 GO:0010063 GO:0010103 GO:0010374 GO:0010376 GO:0010453 GO:0010455 GO:0010468 GO:0010556 GO:0014070 GO:0019219 GO:0019222 GO:0022603 GO:0030154 GO:0030855 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0042221 GO:0042493 GO:0042659 GO:0042660 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045595 GO:0045597 GO:0046677 GO:0048367 GO:0048518 GO:0048522 GO:0048646 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0060255 GO:0060429 GO:0065007 GO:0080090 GO:0090558 GO:0090626 GO:0090698 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1903506 GO:1903888 GO:1903890 GO:1905421 GO:1905423 GO:2000026 GO:2000067 GO:2000112 GO:2000280 GO:2001141
PFAM: PF00249.34

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0196570	QSD99622.1	90.909	77	7	0	1	77	1	77	2.67e-45	149

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0196570	sp\|O22059\|CPC_ARATH	63.636	44	16	0	27	70	36	79	1.33e-16	70.5

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0196570	A0A896WCI8	90.909	77	7	0	1	77	1	77	1.28e-45	149

TFs/TRs:

Gene ID	Type	Classification
Msa0196570	TF	MYB-related

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

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
Msa0196570	MtrunA17_Chr2g0288361	90.909	77	7	0	1	77	1	77	3.98e-49	149
Msa0196570	MtrunA17_Chr4g0024181	50.667	75	34	2	1	74	1	73	3.99e-21	78.6
Msa0196570	MtrunA17_Chr2g0322831	56.863	51	22	0	25	75	30	80	6.36e-18	70.9
Msa0196570	MtrunA17_Chr5g0396771	58.537	41	17	0	27	67	37	77	1.64e-14	62.4
Msa0196570	MtrunA17_Chr3g0121241	51.111	45	22	0	28	72	99	143	3.62e-12	59.7
Msa0196570	MtrunA17_Chr4g0055981	51.163	43	21	0	29	71	113	155	8.08e-12	58.2
Msa0196570	MtrunA17_Chr7g0240821	47.727	44	23	0	29	72	59	102	1.32e-11	57.4
Msa0196570	MtrunA17_Chr4g0070641	44.444	45	25	0	28	72	69	113	1.76e-11	56.2
Msa0196570	MtrunA17_Chr7g0275911	51.163	43	21	0	30	72	71	113	1.94e-11	57.4
Msa0196570	MtrunA17_Chr8g0360111	47.727	44	23	0	29	72	83	126	2.34e-11	57.0
Msa0196570	MtrunA17_Chr7g0229101	45.455	44	24	0	28	71	29	72	2.71e-11	56.2
Msa0196570	MtrunA17_Chr5g0435101	51.220	41	20	0	29	69	69	109	3.63e-11	56.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0196570	AT2G46410.1	63.636	44	16	0	27	70	36	79	1.36e-17	70.5
Msa0196570	AT5G53200.1	44.000	75	33	2	5	76	12	80	1.03e-15	66.2
Msa0196570	AT1G01380.1	56.818	44	19	0	27	70	32	75	1.65e-15	65.1
Msa0196570	AT4G01060.2	59.091	44	18	0	27	70	30	73	1.02e-14	62.8
Msa0196570	AT4G01060.1	59.091	44	18	0	27	70	33	76	1.06e-14	62.8
Msa0196570	AT4G01060.3	59.091	44	18	0	27	70	31	74	1.38e-14	62.4
Msa0196570	AT2G30420.1	47.826	46	24	0	27	72	38	83	1.51e-12	58.2
Msa0196570	AT2G30424.1	50.000	44	22	0	27	70	34	77	5.55e-12	56.6
Msa0196570	AT5G52600.1	45.455	44	24	0	29	72	70	113	1.16e-11	57.8
Msa0196570	AT5G14750.4	43.182	44	25	0	29	72	13	56	2.41e-11	55.8
Msa0196570	AT5G14750.2	43.182	44	25	0	29	72	13	56	2.41e-11	55.8
Msa0196570	AT2G30432.1	45.455	44	24	0	27	70	33	76	5.57e-11	53.5
Msa0196570	AT2G47460.1	50.000	44	22	0	29	72	70	113	7.12e-11	56.6
Msa0196570	AT3G13540.1	52.500	40	19	0	30	69	82	121	8.42e-11	55.8

Find 13 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TGTTTAGATTGGTTGGAAAA+AGG	0.291636	2_1:-13799887	Msa0196570:intron
ATATCTTCTGGGGTTCTTCC+AGG	0.295139	2_1:+13799689	None:intergenic
GCAACGATATCTTCCTCTTC+TGG	0.298430	2_1:+13799915	None:intergenic
CTCATTGCTGGAAGAATTCC+TGG	0.299830	2_1:-13799707	Msa0196570:CDS
GATGAAACGTGAGGCTGAAT+TGG	0.367460	2_1:-13799946	Msa0196570:CDS
TGTAGATGGCATCTCATTGC+TGG	0.394303	2_1:-13799719	Msa0196570:intron
CGTTGCGAAAATGTTTAGAT+TGG	0.408347	2_1:-13799898	Msa0196570:CDS
GCGAAAATGTTTAGATTGGT+TGG	0.408611	2_1:-13799894	Msa0196570:CDS
CAGAAGATATTGAAAAGTAT+TGG	0.446559	2_1:-13799676	Msa0196570:CDS
AACGACCAGTATGTATCTGC+AGG	0.572822	2_1:-13800096	Msa0196570:intron
TGGTACCTGCAGATACATAC+TGG	0.575793	2_1:+13800091	None:intergenic
ATACTGGTCGTTGTTTGCAG+CGG	0.626506	2_1:+13800107	None:intergenic
TTCAGATCAGATGAAACGTG+AGG	0.676121	2_1:-13799955	Msa0196570:intron

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTCTTTTTAAATGATAATTA+AGG	-	chr2_1:13799784-13799803	Msa0196570:intron	10.0%
!!!	AATACTTTTCAATATCTTCT+GGG	+	chr2_1:13800097-13800116	None:intergenic	20.0%
!!	ATACTTTTCAATATCTTCTG+GGG	+	chr2_1:13800096-13800115	None:intergenic	25.0%
!!	CAATACTTTTCAATATCTTC+TGG	+	chr2_1:13800098-13800117	None:intergenic	25.0%
!!	CAGAAGATATTGAAAAGTAT+TGG	-	chr2_1:13800096-13800115	Msa0196570:intron	25.0%
!	TGTTTAGATTGGTTGGAAAA+AGG	-	chr2_1:13799885-13799904	Msa0196570:intron	30.0%
	CGTACATTGTTAATTGTAGA+TGG	-	chr2_1:13800039-13800058	Msa0196570:intron	30.0%
!	ATTGGAATTTTCACCAGAAG+AGG	-	chr2_1:13799844-13799863	Msa0196570:intron	35.0%
	CGTTGCGAAAATGTTTAGAT+TGG	-	chr2_1:13799874-13799893	Msa0196570:intron	35.0%
	GCGAAAATGTTTAGATTGGT+TGG	-	chr2_1:13799878-13799897	Msa0196570:intron	35.0%
	AAGATCAACTTGAAGTGCAG+TGG	+	chr2_1:13799704-13799723	None:intergenic	40.0%
	TTCAGATCAGATGAAACGTG+AGG	-	chr2_1:13799817-13799836	Msa0196570:intron	40.0%
	ATCAAGTGTGTGCATATGCA+AGG	+	chr2_1:13799971-13799990	None:intergenic	40.0%
	ATACTGGTCGTTGTTTGCAG+CGG	+	chr2_1:13799668-13799687	None:intergenic	45.0%
	AACGACCAGTATGTATCTGC+AGG	-	chr2_1:13799676-13799695	Msa0196570:CDS	45.0%
	TGGTACCTGCAGATACATAC+TGG	+	chr2_1:13799684-13799703	None:intergenic	45.0%
	GATGAAACGTGAGGCTGAAT+TGG	-	chr2_1:13799826-13799845	Msa0196570:intron	45.0%
	GCAACGATATCTTCCTCTTC+TGG	+	chr2_1:13799860-13799879	None:intergenic	45.0%
	GCATATGCACACACTTGATG+AGG	-	chr2_1:13799972-13799991	Msa0196570:intron	45.0%
	AGGCAATTAGCATCATGTGC+TGG	-	chr2_1:13799992-13800011	Msa0196570:intron	45.0%
	TGTAGATGGCATCTCATTGC+TGG	-	chr2_1:13800053-13800072	Msa0196570:intron	45.0%
	CTCATTGCTGGAAGAATTCC+TGG	-	chr2_1:13800065-13800084	Msa0196570:intron	45.0%
!!	ATATCTTCTGGGGTTCTTCC+AGG	+	chr2_1:13800086-13800105	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	13799643	13800151	13799643	ID=Msa0196570;Name=Msa0196570
chr2_1	mRNA	13799643	13800151	13799643	ID=Msa0196570-mRNA-1;Parent=Msa0196570;Name=Msa0196570-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0\|0\|0\|0.66\|1\|1\|3\|0\|77
chr2_1	exon	13800097	13800151	13800097	ID=Msa0196570-mRNA-1:exon:5995;Parent=Msa0196570-mRNA-1
chr2_1	exon	13799888	13799972	13799888	ID=Msa0196570-mRNA-1:exon:5994;Parent=Msa0196570-mRNA-1
chr2_1	exon	13799643	13799736	13799643	ID=Msa0196570-mRNA-1:exon:5993;Parent=Msa0196570-mRNA-1
chr2_1	CDS	13800097	13800151	13800097	ID=Msa0196570-mRNA-1:cds;Parent=Msa0196570-mRNA-1
chr2_1	CDS	13799888	13799972	13799888	ID=Msa0196570-mRNA-1:cds;Parent=Msa0196570-mRNA-1
chr2_1	CDS	13799643	13799736	13799643	ID=Msa0196570-mRNA-1:cds;Parent=Msa0196570-mRNA-1

Gene Sequence	>Msa0196570 ATGAGTGATTCAAAGCATGCAACCGCTGCAAACAACGACCAGTATGTATCTGCAGATCAGATGAAACGTGAGGCTGAATTGGAATTTTCACCAGAAGAGGAAGATATCGTTGCGAAAATGTTTAGATTGGTTGGAAAAAGATGGCATCTCATTGCTGGAAGAATTCCTGGAAGAACCCCAGAAGATATTGAAAAGTATTGGACATCAAAATTCTCTTCATCAACTGCATGTTAA
Protein sequence	>Msa0196570 MSDSKHATAANNDQYVSADQMKREAELEFSPEEEDIVAKMFRLVGKRWHLIAGRIPGRTPEDIEKYWTSKFSSSTAC*