AlfalfaGEDB | MS.gene28960

M. sativa cultivar XinJiangDaYe / MS.gene28960

KEGG: K02958
GO: GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0015935 GO:0019538 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0071704 GO:0097159 GO:0110165 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904
PFAM: PF00203.24

Nr:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene28960.t1	RHN61606.1	100	152	0	0	1	152	1	152	2.40E-79	304.7

Swissprot:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene28960.t1	Q08112	92.1	152	12	0	1	152	1	152	5.3e-75	281.6

Trembl:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene28960.t1	A0A396I7K8	100.0	152	0	0	1	152	1	152	1.8e-79	304.7

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network:

Gene1	Gene2	correlation coefficient	p_value	FDR

PPI:

Gene1	Gene2	Type
MS.gene28960	MS.gene62695	PPI
MS.gene28960	MS.gene006126	PPI
MS.gene28960	MS.gene97614	PPI
MS.gene28960	MS.gene60716	PPI
MS.gene28960	MS.gene054292	PPI
MS.gene28960	MS.gene006123	PPI
MS.gene28960	MS.gene03522	PPI
MS.gene28960	MS.gene60717	PPI
MS.gene28960	MS.gene80490	PPI
MS.gene28960	MS.gene88892	PPI
MS.gene28960	MS.gene006122	PPI

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene28960.t1	MTR_4g075450	99.342	152	1	0	1	152	1	152	2.04e-108	305
MS.gene28960.t1	MTR_1g070450	96.053	152	6	0	1	152	1	152	2.40e-104	295
MS.gene28960.t1	MTR_8g105110	93.506	154	8	1	1	152	1	154	3.53e-98	279

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene28960.t1	AT5G09500	88.816	152	15	1	1	152	1	150	1.62e-94	270
MS.gene28960.t1	AT5G09510	92.105	152	12	0	1	152	1	152	2.95e-92	264
MS.gene28960.t1	AT1G04270	92.105	152	12	0	1	152	1	152	3.48e-92	264
MS.gene28960.t1	AT5G09490	82.895	152	26	0	1	152	1	152	3.26e-91	261
MS.gene28960.t1	AT1G04270	91.447	152	12	1	1	152	1	151	1.13e-89	258
MS.gene28960.t1	AT5G43640	87.919	149	18	0	4	152	1	149	4.59e-85	246
MS.gene28960.t1	AT5G09510	93.220	118	8	0	35	152	1	118	4.73e-69	204
MS.gene28960.t1	AT5G63070	63.750	160	50	4	1	152	1	160	2.70e-62	189
MS.gene28960.t1	AT1G33850	79.104	67	14	0	4	70	1	67	1.15e-21	83.2

Find 46 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AGATAGTGGCCAATCATTTC+AGG	0.255429	4.4:-34769142	None:intergenic
GAGATGATTGGTAGCATTAT+TGG	0.295899	4.4:+34769079	MS.gene28960:CDS
AGGTGAGTTCTCACTGGTTC+TGG	0.320238	4.4:-34769034	None:intergenic
CCAGGCCTACCGTGCTTAAC+AGG	0.326778	4.4:-34769190	None:intergenic
GATCAGTGCCATAGGCTTGC+GGG	0.366809	4.4:-34768966	None:intergenic
GAAATTAAACCTGAAATGAT+TGG	0.389036	4.4:+34769133	MS.gene28960:CDS
TTTAATTTCAACCTGATTGA+AGG	0.413851	4.4:-34769119	None:intergenic
ACTGGTTCTGGCTTCTCACC+AGG	0.440200	4.4:-34769022	None:intergenic
ACTCCATGTGCTGCTACCTC+TGG	0.447556	4.4:-34768812	None:intergenic
AGTTGATCTCGATGCTCTCT+TGG	0.473380	4.4:+34768874	MS.gene28960:CDS
CAATGGAAAGACCTTCAATC+AGG	0.479116	4.4:+34769108	MS.gene28960:CDS
CCTGTTAAGCACGGTAGGCC+TGG	0.480548	4.4:+34769190	MS.gene28960:CDS
TGGTTTAACCCGCAAGCCTA+TGG	0.481267	4.4:+34768958	MS.gene28960:CDS
TCTCTGCACGTGCCCGACGA+AGG	0.500103	4.4:+34768927	MS.gene28960:CDS
TGATCAGTGCCATAGGCTTG+CGG	0.511355	4.4:-34768967	None:intergenic
TTGAGAATTCAGCAAGATAG+TGG	0.526209	4.4:-34769156	None:intergenic
CAGGCACAATGATCATGTTA+CGG	0.535956	4.4:-34769057	None:intergenic
AGCTTAACAAGTTCATCAGT+GGG	0.537708	4.4:-34768902	None:intergenic
TTCAAGAAGTTCAGTTTCCG+TGG	0.538808	4.4:+34768851	MS.gene28960:CDS
ATCATTGTGCCTGAGATGAT+TGG	0.552522	4.4:+34769067	MS.gene28960:CDS
ACCACGTCGAAACCTTCGTC+GGG	0.558631	4.4:-34768939	None:intergenic
GTGCCTCACGTTTCGCCTTG+CGG	0.558971	4.4:-34768997	None:intergenic
TTACGGAGGTGAGTTCTCAC+TGG	0.564573	4.4:-34769040	None:intergenic
GATGAGAGTCTTCACTTGAG+AGG	0.572177	4.4:-34769244	None:intergenic
TCGGTGCTACTAACTCCTCC+AGG	0.575536	4.4:+34769215	MS.gene28960:CDS
GAGTTAGTAGCACCGATACC+AGG	0.575818	4.4:-34769208	None:intergenic
ATAATGCTACCAATCATCTC+AGG	0.577641	4.4:-34769076	None:intergenic
AGCATTATTGGTGTCTACAA+TGG	0.579267	4.4:+34769091	MS.gene28960:CDS
AAGCACGGTAGGCCTGGTAT+CGG	0.593127	4.4:+34769196	MS.gene28960:CDS
GAACCAGAGGTAGCAGCACA+TGG	0.595234	4.4:+34768809	MS.gene28960:CDS
ACAAGCCTGTTAAGCACGGT+AGG	0.596494	4.4:+34769185	MS.gene28960:CDS
AGCTTCTTGATCAGTGCCAT+AGG	0.597848	4.4:-34768974	None:intergenic
GCGAAACGTGAGGCACCACC+TGG	0.605362	4.4:+34769004	MS.gene28960:CDS
AAGCTTAACAAGTTCATCAG+TGG	0.616027	4.4:-34768903	None:intergenic
AGAGGTAGCAGCACATGGAG+TGG	0.629988	4.4:+34768814	MS.gene28960:CDS
TCACTTGAGAGGAATAAACC+TGG	0.632316	4.4:-34769233	None:intergenic
AACCACGTCGAAACCTTCGT+CGG	0.635075	4.4:-34768940	None:intergenic
GGTTCTGGCTTCTCACCAGG+TGG	0.636958	4.4:-34769019	None:intergenic
TCTTACAAGCCTGTTAAGCA+CGG	0.639372	4.4:+34769181	MS.gene28960:CDS
GCTCCGCAAGGCGAAACGTG+AGG	0.649824	4.4:+34768994	MS.gene28960:CDS
ACTGATCAAGAAGCTCCGCA+AGG	0.663887	4.4:+34768982	MS.gene28960:CDS
CATGGCGGATGTTGAACCAG+AGG	0.672525	4.4:+34768796	None:intergenic
GAGCATCGAGATCAACTCCA+CGG	0.673689	4.4:-34768868	None:intergenic
GCCCGACGAAGGTTTCGACG+TGG	0.696172	4.4:+34768938	MS.gene28960:CDS
GCACAATGATCATGTTACGG+AGG	0.711118	4.4:-34769054	None:intergenic
CTTGAGAGGAATAAACCTGG+AGG	0.744280	4.4:-34769230	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	GAAATTAAACCTGAAATGAT+TGG	+	chr4.4:34769133-34769152	MS.gene28960:CDS	25.0%
!!	TTTAATTTCAACCTGATTGA+AGG	-	chr4.4:34769122-34769141	None:intergenic	25.0%
	AAGCTTAACAAGTTCATCAG+TGG	-	chr4.4:34768906-34768925	None:intergenic	35.0%
	AGCTTAACAAGTTCATCAGT+GGG	-	chr4.4:34768905-34768924	None:intergenic	35.0%
	ATAATGCTACCAATCATCTC+AGG	-	chr4.4:34769079-34769098	None:intergenic	35.0%
	TTGAGAATTCAGCAAGATAG+TGG	-	chr4.4:34769159-34769178	None:intergenic	35.0%
!	AGCATTATTGGTGTCTACAA+TGG	+	chr4.4:34769091-34769110	MS.gene28960:CDS	35.0%
!	GAGATGATTGGTAGCATTAT+TGG	+	chr4.4:34769079-34769098	MS.gene28960:CDS	35.0%
	ATCATTGTGCCTGAGATGAT+TGG	+	chr4.4:34769067-34769086	MS.gene28960:CDS	40.0%
	CAATGGAAAGACCTTCAATC+AGG	+	chr4.4:34769108-34769127	MS.gene28960:CDS	40.0%
	CAGGCACAATGATCATGTTA+CGG	-	chr4.4:34769060-34769079	None:intergenic	40.0%
	TCACTTGAGAGGAATAAACC+TGG	-	chr4.4:34769236-34769255	None:intergenic	40.0%
	TCTTACAAGCCTGTTAAGCA+CGG	+	chr4.4:34769181-34769200	MS.gene28960:CDS	40.0%
	TTCAAGAAGTTCAGTTTCCG+TGG	+	chr4.4:34768851-34768870	MS.gene28960:CDS	40.0%
!	AGATAGTGGCCAATCATTTC+AGG	-	chr4.4:34769145-34769164	None:intergenic	40.0%
	AGCTTCTTGATCAGTGCCAT+AGG	-	chr4.4:34768977-34768996	None:intergenic	45.0%
	AGTTGATCTCGATGCTCTCT+TGG	+	chr4.4:34768874-34768893	MS.gene28960:CDS	45.0%
	CTTGAGAGGAATAAACCTGG+AGG	-	chr4.4:34769233-34769252	None:intergenic	45.0%
	GCACAATGATCATGTTACGG+AGG	-	chr4.4:34769057-34769076	None:intergenic	45.0%
	AACCACGTCGAAACCTTCGT+CGG	-	chr4.4:34768943-34768962	None:intergenic	50.0%
	ACAAGCCTGTTAAGCACGGT+AGG	+	chr4.4:34769185-34769204	MS.gene28960:CDS	50.0%
	ACTGATCAAGAAGCTCCGCA+AGG	+	chr4.4:34768982-34769001	MS.gene28960:CDS	50.0%
	TGATCAGTGCCATAGGCTTG+CGG	-	chr4.4:34768970-34768989	None:intergenic	50.0%
	TGGTTTAACCCGCAAGCCTA+TGG	+	chr4.4:34768958-34768977	MS.gene28960:CDS	50.0%
	TTACGGAGGTGAGTTCTCAC+TGG	-	chr4.4:34769043-34769062	None:intergenic	50.0%
!!	AGGTGAGTTCTCACTGGTTC+TGG	-	chr4.4:34769037-34769056	None:intergenic	50.0%
!!	GAGCATCGAGATCAACTCCA+CGG	-	chr4.4:34768871-34768890	None:intergenic	50.0%
!!	GAGTTAGTAGCACCGATACC+AGG	-	chr4.4:34769211-34769230	None:intergenic	50.0%
	AAGCACGGTAGGCCTGGTAT+CGG	+	chr4.4:34769196-34769215	MS.gene28960:CDS	55.0%
	ACCACGTCGAAACCTTCGTC+GGG	-	chr4.4:34768942-34768961	None:intergenic	55.0%
	AGAGGTAGCAGCACATGGAG+TGG	+	chr4.4:34768814-34768833	MS.gene28960:CDS	55.0%
	GAACCAGAGGTAGCAGCACA+TGG	+	chr4.4:34768809-34768828	MS.gene28960:CDS	55.0%
	GATCAGTGCCATAGGCTTGC+GGG	-	chr4.4:34768969-34768988	None:intergenic	55.0%
!	ACTCCATGTGCTGCTACCTC+TGG	-	chr4.4:34768815-34768834	None:intergenic	55.0%
!!	ACTGGTTCTGGCTTCTCACC+AGG	-	chr4.4:34769025-34769044	None:intergenic	55.0%
!!	TCGGTGCTACTAACTCCTCC+AGG	+	chr4.4:34769215-34769234	MS.gene28960:CDS	55.0%
	CCAGGCCTACCGTGCTTAAC+AGG	-	chr4.4:34769193-34769212	None:intergenic	60.0%
	CCTGTTAAGCACGGTAGGCC+TGG	+	chr4.4:34769190-34769209	MS.gene28960:CDS	60.0%
	GTGCCTCACGTTTCGCCTTG+CGG	-	chr4.4:34769000-34769019	None:intergenic	60.0%
!!	GGTTCTGGCTTCTCACCAGG+TGG	-	chr4.4:34769022-34769041	None:intergenic	60.0%
	GCCCGACGAAGGTTTCGACG+TGG	+	chr4.4:34768938-34768957	MS.gene28960:CDS	65.0%
	GCTCCGCAAGGCGAAACGTG+AGG	+	chr4.4:34768994-34769013	MS.gene28960:CDS	65.0%
	TCTCTGCACGTGCCCGACGA+AGG	+	chr4.4:34768927-34768946	MS.gene28960:CDS	65.0%
!	GCGAAACGTGAGGCACCACC+TGG	+	chr4.4:34769004-34769023	MS.gene28960:CDS	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr4.4	gene	34768797	34769255	34768797	ID=MS.gene28960
chr4.4	mRNA	34768797	34769255	34768797	ID=MS.gene28960.t1;Parent=MS.gene28960
chr4.4	exon	34768797	34769255	34768797	ID=MS.gene28960.t1.exon1;Parent=MS.gene28960.t1
chr4.4	CDS	34768797	34769255	34768797	ID=cds.MS.gene28960.t1;Parent=MS.gene28960.t1

Gene Sequence

>MS.gene28960

ATGGCGGATGTTGAACCAGAGGTAGCAGCACATGGAGTGGCAAAGAAAAGAACATTCAAGAAGTTCAGTTTCCGTGGAGTTGATCTCGATGCTCTCTTGGATATGCCCACTGATGAACTTGTTAAGCTTTTCTCTGCACGTGCCCGACGAAGGTTTCGACGTGGTTTAACCCGCAAGCCTATGGCACTGATCAAGAAGCTCCGCAAGGCGAAACGTGAGGCACCACCTGGTGAGAAGCCAGAACCAGTGAGAACTCACCTCCGTAACATGATCATTGTGCCTGAGATGATTGGTAGCATTATTGGTGTCTACAATGGAAAGACCTTCAATCAGGTTGAAATTAAACCTGAAATGATTGGCCACTATCTTGCTGAATTCTCAATCTCTTACAAGCCTGTTAAGCACGGTAGGCCTGGTATCGGTGCTACTAACTCCTCCAGGTTTATTCCTCTCAAGTGA

Protein sequence

>MS.gene28960.t1

MADVEPEVAAHGVAKKRTFKKFSFRGVDLDALLDMPTDELVKLFSARARRRFRRGLTRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATNSSRFIPLK