AlfalfaGEDB | MS.gene001034

M. sativa cultivar XinJiangDaYe / MS.gene001034

KEGG: -
GO: GO:0003674 GO:0003824 GO:0008080 GO:0016407 GO:0016410 GO:0016740 GO:0016746 GO:0016747
PFAM: PF13302.10

Nr:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene001034.t1	XP_003610739.1	93.1	188	13	0	1	188	1	188	2.70E-96	361.3

Swissprot:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene001034.t1	P05332	32.6	178	109	4	15	185	2	175	4.1e-16	86.3

Trembl:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene001034.t1	G7K3P4	93.1	188	13	0	1	188	1	188	2.0e-96	361.3

TFs/TRs:

Gene ID	Type	Classification
MS.gene001034.t1	TR	GNAT

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network:

Gene1	Gene2	correlation coefficient	p_value	FDR

PPI:

Gene1	Gene2	Type
MS.gene001034	MS.gene071357	PPI
MS.gene043815	MS.gene001034	PPI
MS.gene21828	MS.gene001034	PPI
MS.gene95802	MS.gene001034	PPI
MS.gene34370	MS.gene001034	PPI
MS.gene49472	MS.gene001034	PPI
MS.gene001034	MS.gene22888	PPI
MS.gene001034	MS.gene04530	PPI
MS.gene024859	MS.gene001034	PPI
MS.gene024855	MS.gene001034	PPI
MS.gene77154	MS.gene001034	PPI
MS.gene024612	MS.gene001034	PPI
MS.gene001034	MS.gene024614	PPI
MS.gene34371	MS.gene001034	PPI
MS.gene001038	MS.gene001034	PPI
MS.gene21830	MS.gene001034	PPI
MS.gene21833	MS.gene001034	PPI
MS.gene21831	MS.gene001034	PPI
MS.gene95801	MS.gene001034	PPI
MS.gene29937	MS.gene001034	PPI
MS.gene024858	MS.gene001034	PPI
MS.gene006418	MS.gene001034	PPI
MS.gene050493	MS.gene001034	PPI
MS.gene001034	MS.gene21831	PPI
MS.gene024854	MS.gene001034	PPI
MS.gene001034	MS.gene024857	PPI
MS.gene001037	MS.gene001034	PPI
MS.gene001034	MS.gene070944	PPI
MS.gene006417	MS.gene001034	PPI
MS.gene001033	MS.gene001034	PPI
MS.gene21827	MS.gene001034	PPI
MS.gene49468	MS.gene001034	PPI
MS.gene001034	MS.gene49470	PPI
MS.gene001034	MS.gene001032	PPI
MS.gene001034	MS.gene74082	PPI
MS.gene001034	MS.gene49471	PPI
MS.gene043813	MS.gene001034	PPI
MS.gene071361	MS.gene001034	PPI
MS.gene070945	MS.gene001034	PPI

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene001034.t1	MTR_5g006470	93.085	188	13	0	1	188	1	188	3.58e-131	365
MS.gene001034.t1	MTR_5g006450	78.947	190	38	1	1	188	1	190	2.51e-104	298
MS.gene001034.t1	MTR_5g006460	77.436	195	35	6	1	188	1	193	2.08e-99	285
MS.gene001034.t1	MTR_5g006520	76.842	190	42	1	1	188	1719	1908	2.88e-96	305
MS.gene001034.t1	MTR_5g006510	72.778	180	44	3	12	188	14	191	3.90e-90	262
MS.gene001034.t1	MTR_1g103110	64.737	190	65	1	1	188	1	190	4.25e-86	251
MS.gene001034.t1	MTR_1g103150	62.632	190	69	1	1	188	1	190	3.28e-84	247
MS.gene001034.t1	MTR_7g114410	43.787	169	94	1	17	185	4	171	1.07e-45	149
MS.gene001034.t1	MTR_7g024780	42.941	170	95	2	16	185	3	170	4.44e-42	139
MS.gene001034.t1	MTR_7g114410	42.857	154	87	1	17	170	4	156	3.22e-40	134
MS.gene001034.t1	MTR_3g463610	41.860	172	96	2	17	185	3	173	3.64e-40	136
MS.gene001034.t1	MTR_7g024760	41.566	166	94	2	20	185	7	169	1.63e-39	133
MS.gene001034.t1	MTR_7g024765	41.566	166	94	2	20	185	7	169	1.26e-38	130
MS.gene001034.t1	MTR_1g103320	49.367	79	40	0	51	129	11	89	5.06e-20	81.3

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene001034.t1	AT2G32020	53.892	167	72	3	20	185	18	180	8.02e-57	177
MS.gene001034.t1	AT2G32030	51.381	181	75	4	6	185	17	185	9.28e-57	177
MS.gene001034.t1	AT3G22560	38.372	172	103	2	16	185	2	172	1.08e-35	123

Find 40 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CAAATCAATGATCTCTTCTT+TGG	0.196407	5.4:+2220623	None:intergenic
GGGAGTTCTTAGGAAGTATT+TGG	0.241791	5.4:-2220178	MS.gene001034:CDS
CTCTTCTTTGGCACATGGTT+TGG	0.246122	5.4:+2220635	None:intergenic
ATAATCTAAGCTCTATATAT+TGG	0.258828	5.4:-2220347	MS.gene001034:CDS
TCCTAAGAACTCCCTCCTTT+TGG	0.260104	5.4:+2220187	None:intergenic
ATCAAGGTCAGAAAGATTAA+AGG	0.290557	5.4:+2220581	None:intergenic
TAATCTAAGCTCTATATATT+GGG	0.291812	5.4:-2220346	MS.gene001034:CDS
GTTGATGCCATCTTCTTTGC+TGG	0.294680	5.4:+2220497	None:intergenic
AGGTTCCCATGAGCAGAATT+TGG	0.303996	5.4:+2220524	None:intergenic
TGCTGTGAAACAAATTATTA+AGG	0.312252	5.4:-2220304	MS.gene001034:CDS
CCATCTTCTTTGCTGGTGTA+AGG	0.323803	5.4:+2220504	None:intergenic
AAAATGAAACTTATTAAAGT+TGG	0.351635	5.4:+2220100	None:intergenic
TCTCCAAGTATGAATATTCA+TGG	0.389310	5.4:+2220274	None:intergenic
TCCAAAAGGAGGGAGTTCTT+AGG	0.394554	5.4:-2220188	MS.gene001034:CDS
TAAAGGGTCGGAGTGTGATT+TGG	0.396804	5.4:+2220598	None:intergenic
TGCATTGATGATCGTGCTAT+TGG	0.407515	5.4:-2220429	MS.gene001034:CDS
AGGAAACAATCTGCAGAACT+TGG	0.436712	5.4:-2220372	MS.gene001034:CDS
TTCTGACCTTGATGATGTAA+TGG	0.440976	5.4:-2220571	MS.gene001034:CDS
TCAAGGTCAGAAAGATTAAA+GGG	0.477441	5.4:+2220582	None:intergenic
CTTGTCGATGTTGAAAATGT+TGG	0.484592	5.4:-2220240	MS.gene001034:CDS
GCTCTATATATTGGGGCAAA+GGG	0.493310	5.4:-2220338	MS.gene001034:CDS
ATTCCATGAATATTCATACT+TGG	0.496142	5.4:-2220277	MS.gene001034:CDS
CAAAGAGTGTTGGAGAAAGC+TGG	0.499760	5.4:-2220213	MS.gene001034:CDS
AGCTCTATATATTGGGGCAA+AGG	0.501996	5.4:-2220339	MS.gene001034:CDS
TTGTCGATGTTGAAAATGTT+GGG	0.503194	5.4:-2220239	MS.gene001034:CDS
AAGTGGCCAAATTCTGCTCA+TGG	0.506987	5.4:-2220530	MS.gene001034:CDS
AGGAAGTATTTGGTCATGAA+AGG	0.520639	5.4:-2220168	MS.gene001034:CDS
ATGAATATTCATACTTGGAG+AGG	0.521655	5.4:-2220272	MS.gene001034:CDS
ATGATCTCTTCTTTGGCACA+TGG	0.535452	5.4:+2220630	None:intergenic
GGAGAAAGCTGGTTTCCAAA+AGG	0.547990	5.4:-2220202	MS.gene001034:CDS
CCTTACACCAGCAAAGAAGA+TGG	0.560893	5.4:-2220504	MS.gene001034:CDS
GAAAGCTGGTTTCCAAAAGG+AGG	0.562242	5.4:-2220199	MS.gene001034:CDS
TGTTGGGTCACAAAGAGTGT+TGG	0.566749	5.4:-2220223	MS.gene001034:CDS
AGTGGCCAAATTCTGCTCAT+GGG	0.587068	5.4:-2220529	MS.gene001034:CDS
AATCTAAGCTCTATATATTG+GGG	0.593409	5.4:-2220345	MS.gene001034:CDS
GCCACACCATTACATCATCA+AGG	0.594693	5.4:+2220565	None:intergenic
GGTCAGAAAGATTAAAGGGT+CGG	0.596865	5.4:+2220586	None:intergenic
TCACACCTGAAGATAAAAGC+AGG	0.598275	5.4:-2220392	MS.gene001034:CDS
AAAGCTGGTTTCCAAAAGGA+GGG	0.657724	5.4:-2220198	MS.gene001034:CDS
ACCTTGATGATGTAATGGTG+TGG	0.686805	5.4:-2220566	MS.gene001034:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATAATCTAAGCTCTATATAT+TGG	-	chr5.4:2220423-2220442	MS.gene001034:CDS	20.0%
!!	TAATCTAAGCTCTATATATT+GGG	-	chr5.4:2220424-2220443	MS.gene001034:CDS	20.0%
!	AATCTAAGCTCTATATATTG+GGG	-	chr5.4:2220425-2220444	MS.gene001034:CDS	25.0%
!	ATTCCATGAATATTCATACT+TGG	-	chr5.4:2220493-2220512	MS.gene001034:CDS	25.0%
!	TGCTGTGAAACAAATTATTA+AGG	-	chr5.4:2220466-2220485	MS.gene001034:CDS	25.0%
	ATCAAGGTCAGAAAGATTAA+AGG	+	chr5.4:2220192-2220211	None:intergenic	30.0%
	ATGAATATTCATACTTGGAG+AGG	-	chr5.4:2220498-2220517	MS.gene001034:CDS	30.0%
	CAAATCAATGATCTCTTCTT+TGG	+	chr5.4:2220150-2220169	None:intergenic	30.0%
	TCAAGGTCAGAAAGATTAAA+GGG	+	chr5.4:2220191-2220210	None:intergenic	30.0%
	TCTCCAAGTATGAATATTCA+TGG	+	chr5.4:2220499-2220518	None:intergenic	30.0%
	TTGTCGATGTTGAAAATGTT+GGG	-	chr5.4:2220531-2220550	MS.gene001034:CDS	30.0%
	CTTGTCGATGTTGAAAATGT+TGG	-	chr5.4:2220530-2220549	MS.gene001034:CDS	35.0%
!!	AGGAAGTATTTGGTCATGAA+AGG	-	chr5.4:2220602-2220621	MS.gene001034:CDS	35.0%
!!	TGTTTCCTGCTTTTATCTTC+AGG	+	chr5.4:2220386-2220405	None:intergenic	35.0%
!!	TTCTGACCTTGATGATGTAA+TGG	-	chr5.4:2220199-2220218	MS.gene001034:CDS	35.0%
	AGCTCTATATATTGGGGCAA+AGG	-	chr5.4:2220431-2220450	MS.gene001034:CDS	40.0%
	AGGAAACAATCTGCAGAACT+TGG	-	chr5.4:2220398-2220417	MS.gene001034:CDS	40.0%
	ATGATCTCTTCTTTGGCACA+TGG	+	chr5.4:2220143-2220162	None:intergenic	40.0%
	GCTCTATATATTGGGGCAAA+GGG	-	chr5.4:2220432-2220451	MS.gene001034:CDS	40.0%
	GGTCAGAAAGATTAAAGGGT+CGG	+	chr5.4:2220187-2220206	None:intergenic	40.0%
	GTGGCATACTGATGAAAAAG+TGG	-	chr5.4:2220223-2220242	MS.gene001034:CDS	40.0%
	TCACACCTGAAGATAAAAGC+AGG	-	chr5.4:2220378-2220397	MS.gene001034:CDS	40.0%
!	AAAGCTGGTTTCCAAAAGGA+GGG	-	chr5.4:2220572-2220591	MS.gene001034:CDS	40.0%
!	TGCATTGATGATCGTGCTAT+TGG	-	chr5.4:2220341-2220360	MS.gene001034:CDS	40.0%
!!	ACCTTGATGATGTAATGGTG+TGG	-	chr5.4:2220204-2220223	MS.gene001034:CDS	40.0%
!!	GGGAGTTCTTAGGAAGTATT+TGG	-	chr5.4:2220592-2220611	MS.gene001034:CDS	40.0%
	AAGTGGCCAAATTCTGCTCA+TGG	-	chr5.4:2220240-2220259	MS.gene001034:CDS	45.0%
	AGGTTCCCATGAGCAGAATT+TGG	+	chr5.4:2220249-2220268	None:intergenic	45.0%
	AGTGGCCAAATTCTGCTCAT+GGG	-	chr5.4:2220241-2220260	MS.gene001034:CDS	45.0%
	CCATCTTCTTTGCTGGTGTA+AGG	+	chr5.4:2220269-2220288	None:intergenic	45.0%
	CCTTACACCAGCAAAGAAGA+TGG	-	chr5.4:2220266-2220285	MS.gene001034:CDS	45.0%
	CTCTTCTTTGGCACATGGTT+TGG	+	chr5.4:2220138-2220157	None:intergenic	45.0%
	GCCACACCATTACATCATCA+AGG	+	chr5.4:2220208-2220227	None:intergenic	45.0%
	GTTGATGCCATCTTCTTTGC+TGG	+	chr5.4:2220276-2220295	None:intergenic	45.0%
	TAAAGGGTCGGAGTGTGATT+TGG	+	chr5.4:2220175-2220194	None:intergenic	45.0%
	TCCAAAAGGAGGGAGTTCTT+AGG	-	chr5.4:2220582-2220601	MS.gene001034:CDS	45.0%
!	GAAAGCTGGTTTCCAAAAGG+AGG	-	chr5.4:2220571-2220590	MS.gene001034:CDS	45.0%
!	GGAGAAAGCTGGTTTCCAAA+AGG	-	chr5.4:2220568-2220587	MS.gene001034:CDS	45.0%
!	TCCTAAGAACTCCCTCCTTT+TGG	+	chr5.4:2220586-2220605	None:intergenic	45.0%
!	TGTTGGGTCACAAAGAGTGT+TGG	-	chr5.4:2220547-2220566	MS.gene001034:CDS	45.0%
!!	CAAAGAGTGTTGGAGAAAGC+TGG	-	chr5.4:2220557-2220576	MS.gene001034:CDS	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr5.4	gene	2220113	2220679	2220113	ID=MS.gene001034
chr5.4	mRNA	2220113	2220679	2220113	ID=MS.gene001034.t1;Parent=MS.gene001034
chr5.4	exon	2220113	2220679	2220113	ID=MS.gene001034.t1.exon1;Parent=MS.gene001034.t1
chr5.4	CDS	2220113	2220679	2220113	ID=cds.MS.gene001034.t1;Parent=MS.gene001034.t1

Gene Sequence

>MS.gene001034

ATGGAAGAAACTTTTATTTCTTCCAAACCATGTGCCAAAGAAGAGATCATTGATTTGAACCAAATCACACTCCGACCCTTTAATCTTTCTGACCTTGATGATGTAATGGTGTGGCATACTGATGAAAAAGTGGCCAAATTCTGCTCATGGGAACCTTACACCAGCAAAGAAGATGGCATCAACTTCATTGAAAATATAGAAAGCAAGTTTCTATGTTGCAAAGCAATATGCATTGATGATCGTGCTATTGGTTGTATTCTTTTGTTCACACCTGAAGATAAAAGCAGGAAACAATCTGCAGAACTTGGCTATAATCTAAGCTCTATATATTGGGGCAAAGGGATTGTCACGTGTGCTGTGAAACAAATTATTAAGGTTGCATTCCATGAATATTCATACTTGGAGAGGCTTGAAGCACTTGTCGATGTTGAAAATGTTGGGTCACAAAGAGTGTTGGAGAAAGCTGGTTTCCAAAAGGAGGGAGTTCTTAGGAAGTATTTGGTCATGAAAGGAAAAAGCAGAGATATGATCATGTTTAGTGTTCTTTCTACTGATCTCCAACTTTAA

Protein sequence

>MS.gene001034.t1

MEETFISSKPCAKEEIIDLNQITLRPFNLSDLDDVMVWHTDEKVAKFCSWEPYTSKEDGINFIENIESKFLCCKAICIDDRAIGCILLFTPEDKSRKQSAELGYNLSSIYWGKGIVTCAVKQIIKVAFHEYSYLERLEALVDVENVGSQRVLEKAGFQKEGVLRKYLVMKGKSRDMIMFSVLSTDLQL