AlfalfaGEDB | Msa0409540

M. sativa cultivar zhongmu-4 / Msa0409540

KEGG: K13457
GO: GO:0000166 GO:0002376 GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0005911 GO:0006950 GO:0006952 GO:0006955 GO:0007154 GO:0007165 GO:0008150 GO:0008219 GO:0009506 GO:0009605 GO:0009607 GO:0009626 GO:0009814 GO:0009987 GO:0012501 GO:0016020 GO:0019897 GO:0019898 GO:0023052 GO:0030054 GO:0033554 GO:0034050 GO:0036094 GO:0043207 GO:0044424 GO:0044425 GO:0044459 GO:0044464 GO:0045087 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0055044 GO:0065007 GO:0071944 GO:0097159 GO:0098542 GO:1901265 GO:1901363
PFAM: PF18052.4

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0409540	MCH80118.1	57.718	149	50	3	1	138	1	147	1.78e-47	160

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0409540	A0A392LZF6	57.718	149	50	3	1	138	1	147	8.52e-48	160

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0396730	Msa0409540	0.813871	2.055290e-51	-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
Msa0409540	MtrunA17_Chr3g0101421	60.403	149	48	2	1	138	1	149	5.83e-50	160
Msa0409540	MtrunA17_Chr3g0100961	60.403	149	46	3	1	138	1	147	1.92e-49	169
Msa0409540	MtrunA17_Chr3g0100831	58.389	149	49	3	1	138	1	147	5.00e-48	164
Msa0409540	MtrunA17_Chr1g0189351	62.238	143	43	2	1	132	1	143	6.76e-48	164
Msa0409540	MtrunA17_Chr3g0101331	59.060	149	50	2	1	138	1	149	5.93e-47	161
Msa0409540	MtrunA17_Chr3g0100701	58.389	149	49	3	1	138	1	147	3.27e-46	159
Msa0409540	MtrunA17_Chr3g0100781	57.333	150	46	5	1	138	1	144	5.94e-46	152
Msa0409540	MtrunA17_Chr3g0100721	53.521	142	50	4	1	130	1	138	5.92e-39	130
Msa0409540	MtrunA17_Chr3g0100971	52.667	150	53	5	1	138	1	144	2.03e-37	134
Msa0409540	MtrunA17_Chr3g0101321	51.389	144	59	2	1	133	1	144	1.43e-35	129
Msa0409540	MtrunA17_Chr3g0112511	54.483	145	52	5	1	138	1	138	3.21e-32	119
Msa0409540	MtrunA17_Chr3g0080751	47.651	149	63	5	1	138	1	145	1.42e-31	117
Msa0409540	MtrunA17_Chr1g0189301	70.667	75	22	0	58	132	5	79	2.51e-31	108
Msa0409540	MtrunA17_Chr3g0080601	46.980	149	64	5	1	138	1	145	3.83e-30	114
Msa0409540	MtrunA17_Chr3g0094301	46.809	141	62	4	1	130	1	139	2.64e-29	111
Msa0409540	MtrunA17_Chr7g0229761	46.809	141	62	4	1	130	1	139	2.64e-29	111
Msa0409540	MtrunA17_Chr3g0100841	53.398	103	36	3	1	91	1	103	3.34e-29	102
Msa0409540	MtrunA17_Chr1g0189261	62.222	90	23	2	1	79	1	90	1.34e-28	100
Msa0409540	MtrunA17_Chr3g0080651	46.809	141	62	4	1	130	4	142	6.58e-28	107
Msa0409540	MtrunA17_Chr3g0080771	45.638	149	65	6	1	138	1	144	6.66e-27	104
Msa0409540	MtrunA17_Chr3g0080701	44.056	143	66	5	1	130	1	142	7.10e-27	100
Msa0409540	MtrunA17_Chr3g0080791	44.295	149	68	5	1	138	1	145	8.60e-26	101
Msa0409540	MtrunA17_Chr3g0081211	43.262	141	68	3	1	129	1	141	1.45e-25	100
Msa0409540	MtrunA17_Chr3g0080741	44.737	152	66	7	1	138	1	148	1.60e-25	100
Msa0409540	MtrunA17_Chr3g0080731	42.553	141	68	4	1	130	1	139	8.97e-25	98.6
Msa0409540	MtrunA17_Chr3g0080631	42.953	149	70	5	1	138	1	145	2.14e-24	97.4
Msa0409540	MtrunA17_Chr3g0081181	39.161	143	76	2	1	132	1	143	5.19e-23	93.6
Msa0409540	MtrunA17_Chr3g0081191	38.667	150	78	4	1	136	1	150	2.84e-21	88.6
Msa0409540	MtrunA17_Chr3g0100801	41.497	147	39	5	4	138	1	112	9.06e-21	87.0
Msa0409540	MtrunA17_Chr3g0101011	38.971	136	64	4	1	117	1	136	1.34e-20	86.7
Msa0409540	MtrunA17_Chr1g0151481	39.437	142	74	4	1	130	1	142	3.85e-19	82.4
Msa0409540	MtrunA17_Chr3g0081341	38.621	145	73	4	1	131	66	208	4.27e-19	82.4
Msa0409540	MtrunA17_Chr3g0100761	51.136	88	31	3	1	76	1	88	8.65e-18	78.6
Msa0409540	MtrunA17_Chr3g0084351	52.778	72	33	1	59	130	1	71	4.05e-17	76.6
Msa0409540	MtrunA17_Chr3g0101401	54.688	64	29	0	74	137	1	64	2.59e-16	71.6
Msa0409540	MtrunA17_Chr3g0101411	52.564	78	26	2	1	67	1	78	1.59e-15	67.0
Msa0409540	MtrunA17_Chr3g0081391	35.570	149	74	5	1	131	1	145	7.75e-15	70.1
Msa0409540	MtrunA17_Chr3g0101221	35.075	134	72	4	5	126	7	137	1.18e-12	63.9
Msa0409540	MtrunA17_Chr3g0101351	36.220	127	70	4	8	126	20	143	2.74e-12	62.0

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Find 24 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCTTCTATCAGCATCCTTTA+AGG	0.137714	3_2:+50114294	None:intergenic
TTTGAGTAGTTTGATTTCTT+TGG	0.243214	3_2:+50114373	None:intergenic
CTTCATCCTTGTTCAATAAC+AGG	0.287560	3_2:+50113995	None:intergenic
AGCATCCAAGCCTTCCTTAA+AGG	0.318600	3_2:-50114308	Msa0409540:CDS
GGACAGAAGCCTCGTGATCC+TGG	0.452710	3_2:-50114160	Msa0409540:CDS
AGCATCCTTTAAGGAAGGCT+TGG	0.455192	3_2:+50114303	None:intergenic
TGCAGACATTAAAGATGAGT+TGG	0.485276	3_2:-50114333	Msa0409540:intron
CTATCAGCATCCTTTAAGGA+AGG	0.514487	3_2:+50114298	None:intergenic
TTGAGTAAAGGTACACATCC+AGG	0.516779	3_2:+50114142	None:intergenic
CGAGAAATCATATTGAGTAA+AGG	0.519289	3_2:+50114130	None:intergenic
TTGATTTCTTTGGTTAACAA+TGG	0.546362	3_2:+50114383	None:intergenic
CTGACGCTATTTGATGTCGA+GGG	0.557034	3_2:+50114089	None:intergenic
ATCCTTGTTCAATAACAGGT+TGG	0.558433	3_2:+50113999	None:intergenic
TCTGACGCTATTTGATGTCG+AGG	0.573682	3_2:+50114088	None:intergenic
GAAGGAGACAACACTGGTGA+CGG	0.581745	3_2:-50114262	Msa0409540:CDS
GATAGAAGAGCTGCAATCGA+AGG	0.588100	3_2:-50114280	Msa0409540:CDS
AAAGAAATCAAACTACTCAA+AGG	0.608782	3_2:-50114371	Msa0409540:CDS
AACCAACCTGTTATTGAACA+AGG	0.618000	3_2:-50114001	Msa0409540:CDS
CACGAGGCTTCTGTCCCACA+CGG	0.627239	3_2:+50114167	None:intergenic
TGACGCTATTTGATGTCGAG+GGG	0.646279	3_2:+50114090	None:intergenic
GATGATTACTTGATCCGTGT+GGG	0.657593	3_2:-50114181	Msa0409540:CDS
TGATGATTACTTGATCCGTG+TGG	0.685873	3_2:-50114182	Msa0409540:CDS
GCAATCGAAGGAGACAACAC+TGG	0.694206	3_2:-50114268	Msa0409540:CDS
GGTACACATCCAGGATCACG+AGG	0.696672	3_2:+50114151	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TTGATTTCTTTGGTTAACAA+TGG	+	chr3_2:50114042-50114061	None:intergenic	25.0%
!!	TTTGAGTAGTTTGATTTCTT+TGG	+	chr3_2:50114052-50114071	None:intergenic	25.0%
!	AAAGAAATCAAACTACTCAA+AGG	-	chr3_2:50114051-50114070	Msa0409540:CDS	25.0%
	CGAGAAATCATATTGAGTAA+AGG	+	chr3_2:50114295-50114314	None:intergenic	30.0%
	TGCAGACATTAAAGATGAGT+TGG	-	chr3_2:50114089-50114108	Msa0409540:CDS	35.0%
	TCTTCTATCAGCATCCTTTA+AGG	+	chr3_2:50114131-50114150	None:intergenic	35.0%
	AGTCAAAGTATGAGTGAAAC+AGG	-	chr3_2:50114183-50114202	Msa0409540:CDS	35.0%
	AAGTATGAGTGAAACAGGTT+CGG	-	chr3_2:50114188-50114207	Msa0409540:CDS	35.0%
	AACCAACCTGTTATTGAACA+AGG	-	chr3_2:50114421-50114440	Msa0409540:CDS	35.0%
	ATCCTTGTTCAATAACAGGT+TGG	+	chr3_2:50114426-50114445	None:intergenic	35.0%
!	CTATCAGCATCCTTTAAGGA+AGG	+	chr3_2:50114127-50114146	None:intergenic	40.0%
	AGTATGAGTGAAACAGGTTC+GGG	-	chr3_2:50114189-50114208	Msa0409540:CDS	40.0%
	TGATGATTACTTGATCCGTG+TGG	-	chr3_2:50114240-50114259	Msa0409540:intron	40.0%
	GATGATTACTTGATCCGTGT+GGG	-	chr3_2:50114241-50114260	Msa0409540:intron	40.0%
!	TTGAGTAAAGGTACACATCC+AGG	+	chr3_2:50114283-50114302	None:intergenic	40.0%
	AGCATCCAAGCCTTCCTTAA+AGG	-	chr3_2:50114114-50114133	Msa0409540:CDS	45.0%
!	AGCATCCTTTAAGGAAGGCT+TGG	+	chr3_2:50114122-50114141	None:intergenic	45.0%
	GATAGAAGAGCTGCAATCGA+AGG	-	chr3_2:50114142-50114161	Msa0409540:CDS	45.0%
	TGACGCTATTTGATGTCGAG+GGG	+	chr3_2:50114335-50114354	None:intergenic	45.0%
	CTGACGCTATTTGATGTCGA+GGG	+	chr3_2:50114336-50114355	None:intergenic	45.0%
	TCTGACGCTATTTGATGTCG+AGG	+	chr3_2:50114337-50114356	None:intergenic	45.0%
	GCAATCGAAGGAGACAACAC+TGG	-	chr3_2:50114154-50114173	Msa0409540:CDS	50.0%
	GAAGGAGACAACACTGGTGA+CGG	-	chr3_2:50114160-50114179	Msa0409540:CDS	50.0%
	GGTACACATCCAGGATCACG+AGG	+	chr3_2:50114274-50114293	None:intergenic	55.0%
	CACGAGGCTTCTGTCCCACA+CGG	+	chr3_2:50114258-50114277	None:intergenic	60.0%
	GGACAGAAGCCTCGTGATCC+TGG	-	chr3_2:50114262-50114281	Msa0409540:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	50113997	50114447	50113997	ID=Msa0409540;Name=Msa0409540
chr3_2	mRNA	50113997	50114447	50113997	ID=Msa0409540-mRNA-1;Parent=Msa0409540;Name=Msa0409540-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0\|0\|0\|1\|0.5\|0.66\|3\|0\|138
chr3_2	exon	50114370	50114447	50114370	ID=Msa0409540-mRNA-1:exon:9934;Parent=Msa0409540-mRNA-1
chr3_2	exon	50114255	50114350	50114255	ID=Msa0409540-mRNA-1:exon:9933;Parent=Msa0409540-mRNA-1
chr3_2	exon	50113997	50114239	50113997	ID=Msa0409540-mRNA-1:exon:9932;Parent=Msa0409540-mRNA-1
chr3_2	CDS	50114370	50114447	50114370	ID=Msa0409540-mRNA-1:cds;Parent=Msa0409540-mRNA-1
chr3_2	CDS	50114255	50114350	50114255	ID=Msa0409540-mRNA-1:cds;Parent=Msa0409540-mRNA-1
chr3_2	CDS	50113997	50114239	50113997	ID=Msa0409540-mRNA-1:cds;Parent=Msa0409540-mRNA-1

Gene Sequence

>Msa0409540

ATGGCAGAAATAGCAGTGTCTTTTGCTATTGAACAACTGCTTCCATTGTTAACCAAAGAAATCAAACTACTCAAAGGTACATTAAAGATGAGTTGGAAAGCATCCAAGCCTTCCTTAAAGGATGCTGATAGAAGAGCTGCAATCGAAGGAGACAACACTGGTGACGGAGTCAAAGTTCGGGAAGTAGCTTTTCGCATAGAAGATGTCATTGATGATTACTTGATCCGTGTGGGACAGAAGCCTCGTGATCCTGGATGTGTACCTTTACTCAATATGATTTCTCGCATGCTCAAACATATGACCCCTCGACATCAAATAGCGTCAGAGATTCAAGAAATTAAGTCATCTGTTCGTGACATCAAAGAAAGAAGTAAAAGATATGACTTCAGAAACCAACCTGTTATTGAACAAGGATGA

Protein sequence

>Msa0409540

MAEIAVSFAIEQLLPLLTKEIKLLKGTLKMSWKASKPSLKDADRRAAIEGDNTGDGVKVREVAFRIEDVIDDYLIRVGQKPRDPGCVPLLNMISRMLKHMTPRHQIASEIQEIKSSVRDIKERSKRYDFRNQPVIEQG*