AlfalfaGEDB | Msa0070860

M. sativa cultivar zhongmu-4 / Msa0070860

KEGG: -
GO: GO:0000166 GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0008144 GO:0016020 GO:0016208 GO:0017076 GO:0030554 GO:0032553 GO:0032555 GO:0032559 GO:0036094 GO:0043167 GO:0043168 GO:0043169 GO:0044464 GO:0071944 GO:0097159 GO:0097367 GO:1901265 GO:1901363
PFAM: PF00582.29

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0070860	QJD38934.1	98.611	72	1	0	2	73	104	175	3.10e-44	150

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0070860	sp\|Q8LGG8\|USPAL_ARATH	40.323	62	37	0	3	64	101	162	7.20e-15	68.2

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0070860	A0A6M3SL49	98.611	72	1	0	2	73	104	175	1.48e-44	150

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0015930	Msa0070860	0.838579	2.644204e-57	-8.615850e-47
Msa0023010	Msa0070860	0.818444	1.953504e-52	-8.615850e-47
Msa0023040	Msa0070860	0.817697	2.883305e-52	-8.615850e-47
Msa0023050	Msa0070860	0.864099	1.551009e-64	-8.615850e-47
Msa0070860	Msa0070920	0.813113	3.016861e-51	-8.615850e-47
Msa0070860	Msa0118790	0.801683	8.018694e-49	-8.615850e-47
Msa0070860	Msa0156370	0.840929	6.467708e-58	-8.615850e-47
Msa0070860	Msa0162120	0.811849	5.699554e-51	-8.615850e-47
Msa0070860	Msa0162130	0.849592	2.929981e-60	-8.615850e-47
Msa0070860	Msa0515270	-0.808150	3.567510e-50	-8.615850e-47
Msa0070860	Msa0550120	0.822948	1.802781e-53	-8.615850e-47
Msa0070860	Msa0550150	0.811365	7.261626e-51	-8.615850e-47
Msa0070860	Msa0605630	0.814631	1.396509e-51	-8.615850e-47
Msa0070860	Msa0605650	0.850959	1.211986e-60	-8.615850e-47
Msa0070860	Msa0646580	0.832657	8.339770e-56	-8.615850e-47
Msa0070860	Msa0686210	0.800549	1.368316e-48	-8.615850e-47
Msa0070860	Msa0867730	0.824502	7.795289e-54	-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
Msa0070860	MtrunA17_Chr1g0176321	97.222	72	2	0	2	73	106	177	1.15e-47	149
Msa0070860	MtrunA17_Chr1g0176311	93.056	72	5	0	2	73	119	190	3.45e-45	142
Msa0070860	MtrunA17_Chr1g0192651	59.375	64	26	0	4	67	95	158	6.81e-23	85.5
Msa0070860	MtrunA17_Chr1g0194801	52.308	65	31	0	2	66	94	158	3.43e-20	78.6
Msa0070860	MtrunA17_Chr1g0195661	51.613	62	30	0	9	70	106	167	8.40e-20	77.8
Msa0070860	MtrunA17_Chr4g0001641	47.541	61	32	0	4	64	5	65	4.09e-19	73.2
Msa0070860	MtrunA17_Chr5g0427291	45.312	64	35	0	1	64	107	170	1.84e-18	74.3
Msa0070860	MtrunA17_Chr2g0294421	50.847	59	29	0	12	70	105	163	1.67e-17	71.6
Msa0070860	MtrunA17_Chr7g0269301	52.632	57	27	0	14	70	106	162	1.80e-16	68.9
Msa0070860	MtrunA17_Chr6g0450171	40.323	62	37	0	3	64	101	162	1.28e-14	64.3
Msa0070860	MtrunA17_Chr4g0032261	46.032	63	34	0	2	64	95	157	5.21e-14	62.8
Msa0070860	MtrunA17_Chr5g0433951	41.935	62	36	0	12	73	105	166	6.55e-13	59.7
Msa0070860	MtrunA17_Chr4g0008801	42.857	63	36	0	2	64	95	157	7.48e-13	59.7
Msa0070860	MtrunA17_Chr2g0323291	42.188	64	34	1	8	68	122	185	1.09e-12	60.1
Msa0070860	MtrunA17_Chr7g0240701	45.283	53	29	0	12	64	105	157	4.81e-12	57.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0070860	AT3G11930.4	71.429	70	20	0	2	71	132	201	1.90e-34	116
Msa0070860	AT3G11930.2	71.429	70	20	0	2	71	131	200	1.98e-34	116
Msa0070860	AT3G11930.1	71.429	70	20	0	2	71	130	199	2.10e-34	116
Msa0070860	AT3G58450.1	72.727	66	18	0	3	68	127	192	6.92e-31	107
Msa0070860	AT3G58450.2	72.727	66	18	0	3	68	120	185	7.63e-31	107
Msa0070860	AT3G11930.3	52.083	96	20	1	2	71	131	226	1.69e-27	99.4
Msa0070860	AT1G09740.2	51.471	68	31	1	1	68	103	168	3.54e-20	79.0
Msa0070860	AT1G09740.1	51.471	68	31	1	1	68	103	168	3.54e-20	79.0
Msa0070860	AT3G62550.1	56.604	53	23	0	12	64	104	156	1.35e-17	72.0
Msa0070860	AT1G68300.1	50.000	62	31	0	3	64	96	157	1.52e-17	72.0
Msa0070860	AT2G47710.1	49.153	59	30	0	9	67	101	159	1.88e-17	72.0
Msa0070860	AT3G01520.1	40.323	62	37	0	3	64	101	162	7.32e-16	68.2
Msa0070860	AT5G14680.1	40.323	62	37	0	3	64	101	162	4.14e-15	66.2
Msa0070860	AT3G03270.2	49.057	53	27	0	12	64	105	157	5.02e-14	62.8
Msa0070860	AT3G17020.1	46.429	56	30	0	9	64	105	160	2.57e-12	58.5
Msa0070860	AT3G53990.1	44.643	56	31	0	12	67	105	160	3.48e-12	58.2
Msa0070860	AT1G11360.2	40.625	64	35	1	8	68	134	197	1.38e-11	57.8
Msa0070860	AT1G11360.1	40.625	64	35	1	8	68	134	197	1.38e-11	57.8
Msa0070860	AT1G11360.4	40.625	64	35	1	8	68	134	197	1.38e-11	57.8
Msa0070860	AT1G11360.3	40.625	64	35	1	8	68	134	197	1.38e-11	57.8

Find 11 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GCAGAAAGTGTGATTCTTAA+TGG	0.228368	1_2:+41728765	Msa0070860:CDS
GCAAGTTGATCTCTTAATCA+TGG	0.412365	1_2:+41728827	Msa0070860:CDS
ATCATGGGTAGTCGTGGCCT+TGG	0.451807	1_2:+41728843	Msa0070860:CDS
TGCAAGAGAAATGATTTGTC+AGG	0.490363	1_2:+41728791	Msa0070860:CDS
GTGGCCTTGGCAAACTCAAA+AGG	0.501962	1_2:+41728856	Msa0070860:CDS
GGTGGCTTCACAATGAGAAT+AGG	0.504003	1_2:-41729044	None:intergenic
TTTGGTGGCAGAGCATTCCT+TGG	0.514690	1_2:+41728984	Msa0070860:intron
CTCTTAATCATGGGTAGTCG+TGG	0.541714	1_2:+41728837	Msa0070860:CDS
AATAGTCACTTACACTTCCA+AGG	0.548894	1_2:-41729001	None:intergenic
CAAGTTGATCTCTTAATCAT+GGG	0.558572	1_2:+41728828	Msa0070860:CDS
TCTCATTGTGAAGCCACCAG+AGG	0.677993	1_2:+41729049	Msa0070860:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	GTTCTAATATTTTTTACATT+TGG	+	chr1_2:41728966-41728985	Msa0070860:intron	15.0%
!!!	AATAAGCTTGCTAATAATTT+TGG	+	chr1_2:41728921-41728940	Msa0070860:intron	20.0%
!!!	CTAATATTTTTTACATTTGG+TGG	+	chr1_2:41728969-41728988	Msa0070860:intron	20.0%
!!!	ATTTTGGTTTCTTTTATGCA+TGG	+	chr1_2:41728937-41728956	Msa0070860:intron	25.0%
!!	CAAGTTGATCTCTTAATCAT+GGG	+	chr1_2:41728828-41728847	Msa0070860:CDS	30.0%
!	TTTCTTTTATGCATGGTTGA+TGG	+	chr1_2:41728944-41728963	Msa0070860:intron	30.0%
!	GCAGAAAGTGTGATTCTTAA+TGG	+	chr1_2:41728765-41728784	Msa0070860:CDS	35.0%
!	TGCAAGAGAAATGATTTGTC+AGG	+	chr1_2:41728791-41728810	Msa0070860:CDS	35.0%
!!	GCAAGTTGATCTCTTAATCA+TGG	+	chr1_2:41728827-41728846	Msa0070860:CDS	35.0%
	AATAGTCACTTACACTTCCA+AGG	-	chr1_2:41729004-41729023	None:intergenic	35.0%
!!!	CTTACCTTTTGAGTTTGCCA+AGG	-	chr1_2:41728863-41728882	None:intergenic	40.0%
	CTCTTAATCATGGGTAGTCG+TGG	+	chr1_2:41728837-41728856	Msa0070860:CDS	45.0%
	GGTGGCTTCACAATGAGAAT+AGG	-	chr1_2:41729047-41729066	None:intergenic	45.0%
!	TTTTTATGGTGCTCCTCTGG+TGG	-	chr1_2:41729065-41729084	None:intergenic	45.0%
!!	TGCTTTTTATGGTGCTCCTC+TGG	-	chr1_2:41729068-41729087	None:intergenic	45.0%
!	GTGGCCTTGGCAAACTCAAA+AGG	+	chr1_2:41728856-41728875	Msa0070860:CDS	50.0%
!	TTTGGTGGCAGAGCATTCCT+TGG	+	chr1_2:41728984-41729003	Msa0070860:intron	50.0%
	TCTCATTGTGAAGCCACCAG+AGG	+	chr1_2:41729049-41729068	Msa0070860:CDS	50.0%
	ATCATGGGTAGTCGTGGCCT+TGG	+	chr1_2:41728843-41728862	Msa0070860:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	41728753	41729091	41728753	ID=Msa0070860;Name=Msa0070860
chr1_2	mRNA	41728753	41729091	41728753	ID=Msa0070860-mRNA-1;Parent=Msa0070860;Name=Msa0070860-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0\|0\|0\|1\|1\|1\|2\|0\|73
chr1_2	exon	41728753	41728877	41728753	ID=Msa0070860-mRNA-1:exon:12798;Parent=Msa0070860-mRNA-1
chr1_2	exon	41728995	41729091	41728995	ID=Msa0070860-mRNA-1:exon:12799;Parent=Msa0070860-mRNA-1
chr1_2	CDS	41728753	41728877	41728753	ID=Msa0070860-mRNA-1:cds;Parent=Msa0070860-mRNA-1
chr1_2	CDS	41728995	41729091	41728995	ID=Msa0070860-mRNA-1:cds;Parent=Msa0070860-mRNA-1

Gene Sequence	>Msa0070860 ATGCAGGTAAAAGCAGAAAGTGTGATTCTTAATGGAGATGCAAGAGAAATGATTTGTCAGGCTACAGAGAAAATGCAAGTTGATCTCTTAATCATGGGTAGTCGTGGCCTTGGCAAACTCAAAAGAGCATTCCTTGGAAGTGTAAGTGACTATTGTGCACATCATGCAAAAGCACCTATTCTCATTGTGAAGCCACCAGAGGAGCACCATAAAAAGCATTGA
Protein sequence	>Msa0070860 MQVKAESVILNGDAREMICQATEKMQVDLLIMGSRGLGKLKRAFLGSVSDYCAHHAKAPILIVKPPEEHHKKH*