AlfalfaGEDB | Msa1160880

M. sativa cultivar zhongmu-4 / Msa1160880

KEGG: -
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009605 GO:0009606 GO:0009628 GO:0009629 GO:0009630 GO:0009639 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010114 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 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
Msa1160880	XP_003624937.2	100.000	92	0	0	1	92	1	92	7.75e-61	190

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1160880	sp\|Q58FS3\|RAD_ANTMA	69.149	94	26	2	1	92	1	93	1.24e-40	132

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1160880	A2Q4K0	100.000	92	0	0	1	92	1	92	3.70e-61	190

TFs/TRs:

Gene ID	Type	Classification
Msa1160880	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
Msa1160880	MtrunA17_Chr7g0255841	100.000	92	0	0	1	92	1	92	7.13e-65	190
Msa1160880	MtrunA17_Chr3g0081631	72.222	90	24	1	4	92	2	91	1.26e-44	139
Msa1160880	MtrunA17_Chr6g0449111	72.059	68	19	0	7	74	5	72	6.26e-35	114
Msa1160880	MtrunA17_Chr3g0144631	68.354	79	21	1	1	75	1	79	5.32e-34	112
Msa1160880	MtrunA17_Chr1g0155181	59.302	86	29	1	6	85	1	86	6.14e-33	109
Msa1160880	MtrunA17_Chr3g0141601	57.143	91	35	2	6	92	1	91	3.14e-32	107
Msa1160880	MtrunA17_Chr5g0404101	63.014	73	27	0	4	76	11	83	1.24e-30	103
Msa1160880	MtrunA17_Chr8g0373131	56.716	67	28	1	9	75	2	67	7.81e-25	88.6
Msa1160880	MtrunA17_Chr8g0373111	56.716	67	28	1	9	75	2	67	8.21e-25	88.6
Msa1160880	MtrunA17_Chr8g0373121	56.716	67	28	1	9	75	2	67	8.21e-25	88.6
Msa1160880	MtrunA17_Chr3g0141641	45.055	91	41	2	11	92	2	92	3.32e-24	87.4
Msa1160880	MtrunA17_Chr5g0404301	60.317	63	24	1	10	72	2	63	9.33e-24	85.5
Msa1160880	MtrunA17_Chr8g0373101	56.452	62	26	1	11	72	4	64	6.78e-23	83.6
Msa1160880	MtrunA17_Chr5g0436501	54.930	71	32	0	12	82	27	97	1.30e-20	82.8
Msa1160880	MtrunA17_Chr8g0364741	50.667	75	37	0	6	80	4	78	2.62e-20	78.6
Msa1160880	MtrunA17_Chr1g0162081	50.000	78	39	0	1	78	1	78	1.38e-19	80.5
Msa1160880	MtrunA17_Chr8g0365011	54.167	72	33	0	9	80	5	76	2.84e-19	79.3
Msa1160880	MtrunA17_Chr3g0104071	50.685	73	36	0	2	74	33	105	9.65e-19	78.2
Msa1160880	MtrunA17_Chr5g0429521	47.826	69	36	0	11	79	28	96	5.02e-18	76.3
Msa1160880	MtrunA17_Chr7g0241761	52.174	69	33	0	12	80	35	103	5.19e-18	76.3
Msa1160880	MtrunA17_Chr1g0194071	57.627	59	24	1	11	68	10	68	6.75e-16	66.6
Msa1160880	MtrunA17_Chr1g0210471	47.619	63	33	0	12	74	24	86	7.82e-15	67.0
Msa1160880	MtrunA17_Chr7g0270711	55.000	60	26	1	11	69	10	69	3.19e-14	62.0
Msa1160880	MtrunA17_Chr4g0062741	45.205	73	36	2	6	74	1	73	4.56e-14	65.5

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1160880	AT2G21650.1	64.773	88	24	1	12	92	14	101	4.16e-38	123
Msa1160880	AT4G39250.1	64.368	87	25	1	12	92	14	100	1.32e-37	122
Msa1160880	AT1G75250.2	55.670	97	37	1	1	91	1	97	5.60e-36	117
Msa1160880	AT1G75250.1	69.333	75	23	0	1	75	1	75	1.47e-35	117
Msa1160880	AT1G19510.1	59.783	92	37	0	1	92	1	92	2.64e-29	100
Msa1160880	AT2G18328.1	62.295	61	23	0	15	75	14	74	1.84e-24	88.2
Msa1160880	AT5G05790.2	52.857	70	33	0	9	78	28	97	3.54e-20	82.0
Msa1160880	AT5G05790.1	52.857	70	33	0	9	78	28	97	3.54e-20	82.0
Msa1160880	AT4G36570.1	75.000	44	11	0	12	55	12	55	4.92e-20	76.3
Msa1160880	AT3G11280.2	52.239	67	32	0	12	78	33	99	1.03e-18	77.8
Msa1160880	AT3G11280.1	52.239	67	32	0	12	78	33	99	1.03e-18	77.8
Msa1160880	AT2G38090.1	52.174	69	33	0	12	80	29	97	2.27e-18	77.4
Msa1160880	AT5G58900.1	50.000	74	34	1	4	74	23	96	3.03e-17	74.3
Msa1160880	AT5G08520.1	52.381	63	30	0	12	74	12	74	5.44e-16	70.9
Msa1160880	AT1G49010.1	46.479	71	35	1	7	74	3	73	1.43e-14	67.4
Msa1160880	AT5G23650.1	46.377	69	37	0	6	74	7	75	2.01e-14	67.0
Msa1160880	AT5G04760.1	41.791	67	38	1	8	74	2	67	4.55e-13	62.4
Msa1160880	AT5G01200.1	42.424	66	37	1	10	74	28	93	2.05e-11	58.2

Find 18 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTGCTGTTGATTGCACTTGT+TGG	0.365127	7_4:-50983832	None:intergenic
TCTAGCTCAATGTCAGCTTC+TGG	0.383535	7_4:+50983373	Msa1160880:CDS
GATATTAAACATATTGAGTC+AGG	0.394581	7_4:+50983544	Msa1160880:CDS
TAATGTTTCTTAACTTCCTC+AGG	0.405406	7_4:-50983505	None:intergenic
ACCTTAAATTAATTAAGAAA+TGG	0.407735	7_4:+50983348	None:intergenic
CAATGTCAGCTTCTGGCTCA+TGG	0.458214	7_4:+50983380	Msa1160880:CDS
CAGTGTCTCATGAGGAGAAA+AGG	0.467404	7_4:+50983599	Msa1160880:CDS
TTCTGGCTCATGGAGTGTTA+AGG	0.488975	7_4:+50983390	Msa1160880:CDS
TTGCACTTGTTGGTCAATGA+AGG	0.513934	7_4:-50983822	None:intergenic
GCTACATTGTACCAACGATC+TGG	0.520197	7_4:-50983460	None:intergenic
AACAGCTAAAGCTCTTTCAA+AGG	0.549456	7_4:-50983422	None:intergenic
ACATTATGAACTTCTTGTTG+AGG	0.570098	7_4:+50983522	Msa1160880:CDS
GAAAATTTCAGTGTCTCATG+AGG	0.590467	7_4:+50983591	Msa1160880:CDS
TACAATGTAGCTCATGCTGT+TGG	0.593737	7_4:+50983472	Msa1160880:CDS
AATGTAGCTCATGCTGTTGG+TGG	0.602491	7_4:+50983475	Msa1160880:CDS
ACAAAGACACTCCAGATCGT+TGG	0.612332	7_4:+50983449	Msa1160880:CDS
ATATTAAACATATTGAGTCA+GGG	0.667795	7_4:+50983545	Msa1160880:CDS
TGTTGGTGGCAAAACTCCTG+AGG	0.702099	7_4:+50983489	Msa1160880:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATATTAAACATATTGAGTCA+GGG	+	chr7_4:50983545-50983564	Msa1160880:CDS	20.0%
!!!	ATTTTCTTGTAATTTGGAAA+TGG	-	chr7_4:50983577-50983596	None:intergenic	20.0%
!!!	ACTGAAATTTTCTTGTAATT+TGG	-	chr7_4:50983583-50983602	None:intergenic	20.0%
!!!	TACTCTTTACTTTCTTTTAT+AGG	+	chr7_4:50983785-50983804	Msa1160880:intron	20.0%
!	GATATTAAACATATTGAGTC+AGG	+	chr7_4:50983544-50983563	Msa1160880:CDS	25.0%
!	TTATTTAACAAGCAACATGT+AGG	-	chr7_4:50983670-50983689	None:intergenic	25.0%
!!	TTACTTTCTTTTATAGGATG+AGG	+	chr7_4:50983791-50983810	Msa1160880:intron	25.0%
	TAATGTTTCTTAACTTCCTC+AGG	-	chr7_4:50983508-50983527	None:intergenic	30.0%
	ACATTATGAACTTCTTGTTG+AGG	+	chr7_4:50983522-50983541	Msa1160880:CDS	30.0%
	AACAGCTAAAGCTCTTTCAA+AGG	-	chr7_4:50983425-50983444	None:intergenic	35.0%
	GAAAATTTCAGTGTCTCATG+AGG	+	chr7_4:50983591-50983610	Msa1160880:CDS	35.0%
	TACAATGTAGCTCATGCTGT+TGG	+	chr7_4:50983472-50983491	Msa1160880:CDS	40.0%
!	TTGCACTTGTTGGTCAATGA+AGG	-	chr7_4:50983825-50983844	None:intergenic	40.0%
!	TCTAGCTCAATGTCAGCTTC+TGG	+	chr7_4:50983373-50983392	Msa1160880:CDS	45.0%
!!	TTCTGGCTCATGGAGTGTTA+AGG	+	chr7_4:50983390-50983409	Msa1160880:CDS	45.0%
	ACAAAGACACTCCAGATCGT+TGG	+	chr7_4:50983449-50983468	Msa1160880:CDS	45.0%
	GCTACATTGTACCAACGATC+TGG	-	chr7_4:50983463-50983482	None:intergenic	45.0%
	AATGTAGCTCATGCTGTTGG+TGG	+	chr7_4:50983475-50983494	Msa1160880:CDS	45.0%
	CAGTGTCTCATGAGGAGAAA+AGG	+	chr7_4:50983599-50983618	Msa1160880:CDS	45.0%
!!	CAATGTCAGCTTCTGGCTCA+TGG	+	chr7_4:50983380-50983399	Msa1160880:CDS	50.0%
!!	TGTTGGTGGCAAAACTCCTG+AGG	+	chr7_4:50983489-50983508	Msa1160880:CDS	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_4	gene	50983359	50983846	50983359	ID=Msa1160880;Name=Msa1160880
chr7_4	mRNA	50983359	50983846	50983359	ID=Msa1160880-mRNA-1;Parent=Msa1160880;Name=Msa1160880-mRNA-1;_AED=0.02;_eAED=0.02;_QI=8\|1\|1\|1\|0\|0.5\|2\|15\|92
chr7_4	exon	50983359	50983620	50983359	ID=Msa1160880-mRNA-1:exon:14317;Parent=Msa1160880-mRNA-1
chr7_4	exon	50983807	50983846	50983807	ID=Msa1160880-mRNA-1:exon:14318;Parent=Msa1160880-mRNA-1
chr7_4	five_prime_UTR	50983359	50983366	50983359	ID=Msa1160880-mRNA-1:five_prime_utr;Parent=Msa1160880-mRNA-1
chr7_4	CDS	50983367	50983620	50983367	ID=Msa1160880-mRNA-1:cds;Parent=Msa1160880-mRNA-1
chr7_4	CDS	50983807	50983831	50983807	ID=Msa1160880-mRNA-1:cds;Parent=Msa1160880-mRNA-1
chr7_4	three_prime_UTR	50983832	50983846	50983832	ID=Msa1160880-mRNA-1:three_prime_utr;Parent=Msa1160880-mRNA-1

Gene Sequence	>Msa1160880 ATGGCATCTAGCTCAATGTCAGCTTCTGGCTCATGGAGTGTTAAGGAGAATAAAGCCTTTGAAAGAGCTTTAGCTGTTTATGACAAAGACACTCCAGATCGTTGGTACAATGTAGCTCATGCTGTTGGTGGCAAAACTCCTGAGGAAGTTAAGAAACATTATGAACTTCTTGTTGAGGATATTAAACATATTGAGTCAGGGAAAGTTCCATTTCCAAATTACAAGAAAATTTCAGTGTCTCATGAGGAGAAAAGGATGAGGAATATGAGCCTTCATTGA
Protein sequence	>Msa1160880 MASSSMSASGSWSVKENKAFERALAVYDKDTPDRWYNVAHAVGGKTPEEVKKHYELLVEDIKHIESGKVPFPNYKKISVSHEEKRMRNMSLH*