AlfalfaGEDB | Msa0048400

M. sativa cultivar zhongmu-4 / Msa0048400

KEGG: K04733
GO: GO:0003674 GO:0003824 GO:0004672 GO:0004674 GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044464 GO:0071704 GO:0071944 GO:0140096 GO:1901564
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0048400	AFK38830.1	95.833	120	5	0	1	120	246	365	1.37e-77	244

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0048400	sp\|O04086\|Y1105_ARATH	58.491	106	35	4	1	97	496	601	4.09e-33	125

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0048400	I3SEY8	95.833	120	5	0	1	120	246	365	6.57e-78	244

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0011050	Msa0048400	0.873786	1.122626e-67	-8.615850e-47
Msa0048390	Msa0048400	0.829244	5.735735e-55	-8.615850e-47
Msa0048400	Msa0060070	0.883057	6.187642e-71	-8.615850e-47
Msa0048400	Msa0151220	0.880578	4.891314e-70	-8.615850e-47
Msa0048400	Msa0259440	0.811166	8.018664e-51	-8.615850e-47
Msa0048400	Msa0259580	0.800505	1.396383e-48	-8.615850e-47
Msa0048400	Msa0584600	0.806717	7.184337e-50	-8.615850e-47
Msa0048400	Msa0810440	0.803767	2.978941e-49	-8.615850e-47
Msa0048400	Msa0968050	0.807147	5.824735e-50	-8.615850e-47
Msa0048400	Msa1031460	0.810440	1.151612e-50	-8.615850e-47
Msa0048400	Msa1070540	0.816809	4.565408e-52	-8.615850e-47
Msa0048400	Msa1101240	0.819504	1.121619e-52	-8.615850e-47
Msa0048400	Msa1214170	0.827269	1.717319e-54	-8.615850e-47
Msa0048400	Msa1260680	0.820731	5.874908e-53	-8.615850e-47
Msa0048400	Msa1360020	0.819634	1.047902e-52	-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
Msa0048400	MtrunA17_Chr1g0159611	97.500	120	3	0	1	120	438	557	1.33e-81	249
Msa0048400	MtrunA17_Chr2g0277731	58.036	112	38	3	1	103	512	623	2.47e-37	133
Msa0048400	MtrunA17_Chr8g0380681	50.000	100	46	2	1	96	1186	1285	1.52e-27	106
Msa0048400	MtrunA17_Chr8g0380681	50.980	102	44	3	1	96	516	617	1.05e-25	100
Msa0048400	MtrunA17_Chr1g0196391	38.298	94	54	3	1	91	495	587	2.68e-20	85.5
Msa0048400	MtrunA17_Chr7g0259211	33.333	93	60	2	1	91	484	576	9.60e-15	69.7
Msa0048400	MtrunA17_Chr8g0366991	35.135	111	64	3	5	108	672	781	1.01e-13	66.6
Msa0048400	MtrunA17_Chr8g0366981	33.333	117	67	4	2	108	497	612	1.93e-13	65.9
Msa0048400	MtrunA17_Chr8g0366971	31.034	116	71	3	2	108	271	386	2.08e-12	62.8
Msa0048400	MtrunA17_Chr8g0358821	30.645	124	81	4	1	120	883	1005	7.89e-12	61.2
Msa0048400	MtrunA17_Chr8g0366931	31.683	101	58	3	17	108	238	336	3.55e-11	59.3
Msa0048400	MtrunA17_Chr5g0407721	30.000	70	49	0	16	85	577	646	4.45e-11	58.9
Msa0048400	MtrunA17_Chr8g0358781	29.839	124	82	3	1	120	538	660	8.33e-11	58.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0048400	AT1G11050.1	58.491	106	35	4	1	97	496	601	4.16e-34	125
Msa0048400	AT2G48010.1	35.106	94	57	3	1	91	482	574	1.10e-16	75.5
Msa0048400	AT1G29720.1	35.714	84	54	0	11	94	878	961	1.19e-12	63.9

Find 19 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ACAGGCCTATCAGGTAAATT+AGG	0.306930	1_2:-686367	None:intergenic
ATATTCCTAATTTACCTGAT+AGG	0.325756	1_2:+686362	Msa0048400:CDS
CCAAGTGGAACAGGCCTATC+AGG	0.329277	1_2:-686376	None:intergenic
GAATAAGAAGAATTATAATA+AGG	0.370041	1_2:-686454	None:intergenic
ATGGAAAGGTTTGTGCTTGT+TGG	0.395146	1_2:+686262	Msa0048400:CDS
GCTTGGACACTTGCAAAATC+AGG	0.399093	1_2:+686184	Msa0048400:CDS
GATTCATGACCAAGTGGAAC+AGG	0.421059	1_2:-686385	None:intergenic
CCTGATAGGCCTGTTCCACT+TGG	0.445601	1_2:+686376	Msa0048400:CDS
GAGGCAATTAAGATGTTAGA+AGG	0.462503	1_2:+686331	Msa0048400:CDS
GATCAAGCAGTTAAAGATGA+AGG	0.473333	1_2:+686226	Msa0048400:CDS
CAATCAGTGATCAAAACAAC+TGG	0.502286	1_2:-686160	None:intergenic
TTAATTGCCTCAGCAATAGT+AGG	0.533516	1_2:-686319	None:intergenic
AATTCTTTGTGCTCATGCAA+TGG	0.562123	1_2:+686285	Msa0048400:CDS
ATCAAGCAGTTAAAGATGAA+GGG	0.564778	1_2:+686227	Msa0048400:CDS
TGAAGGGCCAGAGAAAATCA+TGG	0.568513	1_2:+686243	Msa0048400:CDS
GGCCAGAGAAAATCATGGAA+AGG	0.613834	1_2:+686248	Msa0048400:CDS
TGAAAAGATTCATGACCAAG+TGG	0.631076	1_2:-686391	None:intergenic
ATTAAGACCTACTATTGCTG+AGG	0.639115	1_2:+686312	Msa0048400:CDS
GTGATACTTGAGATAATGAG+TGG	0.709839	1_2:+686109	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	GAATAAGAAGAATTATAATA+AGG	-	chr1_2:686457-686476	None:intergenic	15.0%
!!!	ATTGTTTTGAAATTATTTGA+AGG	+	chr1_2:686564-686583	Msa0048400:intron	15.0%
!!	GTGTTTAGATTAGATTAATT+AGG	+	chr1_2:686541-686560	Msa0048400:intron	20.0%
!	ATATTCCTAATTTACCTGAT+AGG	+	chr1_2:686362-686381	Msa0048400:CDS	25.0%
!!	TTTCAATCTTCTCTTTTGAA+TGG	+	chr1_2:686409-686428	Msa0048400:CDS	25.0%
!!!	CTAAATTTTGATAACTTGGA+AGG	-	chr1_2:686600-686619	None:intergenic	25.0%
!!!	CACACTAAATTTTGATAACT+TGG	-	chr1_2:686604-686623	None:intergenic	25.0%
!!!	AGTTGTTTTGATCACTGATT+GGG	+	chr1_2:686162-686181	Msa0048400:CDS	30.0%
	ATCAAGCAGTTAAAGATGAA+GGG	+	chr1_2:686227-686246	Msa0048400:CDS	30.0%
	CAATCAGTGATCAAAACAAC+TGG	-	chr1_2:686163-686182	None:intergenic	35.0%
!!!	CAGTTGTTTTGATCACTGAT+TGG	+	chr1_2:686161-686180	Msa0048400:CDS	35.0%
	GATCAAGCAGTTAAAGATGA+AGG	+	chr1_2:686226-686245	Msa0048400:CDS	35.0%
!	AACCTTTCCATGATTTTCTC+TGG	-	chr1_2:686253-686272	None:intergenic	35.0%
	AATTCTTTGTGCTCATGCAA+TGG	+	chr1_2:686285-686304	Msa0048400:CDS	35.0%
	ATTAAGACCTACTATTGCTG+AGG	+	chr1_2:686312-686331	Msa0048400:CDS	35.0%
	TTAATTGCCTCAGCAATAGT+AGG	-	chr1_2:686322-686341	None:intergenic	35.0%
	GAGGCAATTAAGATGTTAGA+AGG	+	chr1_2:686331-686350	Msa0048400:CDS	35.0%
	TGAAAAGATTCATGACCAAG+TGG	-	chr1_2:686394-686413	None:intergenic	35.0%
!	CTTTTGAATGGTATGCAAAG+TGG	+	chr1_2:686421-686440	Msa0048400:CDS	35.0%
!!	TTTTGATCACTGATTGGGCT+TGG	+	chr1_2:686167-686186	Msa0048400:CDS	40.0%
	ATGGAAAGGTTTGTGCTTGT+TGG	+	chr1_2:686262-686281	Msa0048400:CDS	40.0%
	ACAGGCCTATCAGGTAAATT+AGG	-	chr1_2:686370-686389	None:intergenic	40.0%
	GCTTGGACACTTGCAAAATC+AGG	+	chr1_2:686184-686203	Msa0048400:CDS	45.0%
	TGAAGGGCCAGAGAAAATCA+TGG	+	chr1_2:686243-686262	Msa0048400:CDS	45.0%
	GGCCAGAGAAAATCATGGAA+AGG	+	chr1_2:686248-686267	Msa0048400:CDS	45.0%
	GATTCATGACCAAGTGGAAC+AGG	-	chr1_2:686388-686407	None:intergenic	45.0%
	CCAAGTGGAACAGGCCTATC+AGG	-	chr1_2:686379-686398	None:intergenic	55.0%
	CCTGATAGGCCTGTTCCACT+TGG	+	chr1_2:686376-686395	Msa0048400:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	686124	686629	686124	ID=Msa0048400;Name=Msa0048400
chr1_2	mRNA	686124	686629	686124	ID=Msa0048400-mRNA-1;Parent=Msa0048400;Name=Msa0048400-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0\|0\|0\|0.5\|1\|1\|2\|0\|133
chr1_2	exon	686124	686481	686124	ID=Msa0048400-mRNA-1:exon:124;Parent=Msa0048400-mRNA-1
chr1_2	exon	686586	686629	686586	ID=Msa0048400-mRNA-1:exon:125;Parent=Msa0048400-mRNA-1
chr1_2	CDS	686124	686481	686124	ID=Msa0048400-mRNA-1:cds;Parent=Msa0048400-mRNA-1
chr1_2	CDS	686586	686629	686586	ID=Msa0048400-mRNA-1:cds;Parent=Msa0048400-mRNA-1

Gene Sequence

>Msa0048400

ATGAGTGGTAGAAAAGTGCTTGATACAATGAATTCACCAGTTGTTTTGATCACTGATTGGGCTTGGACACTTGCAAAATCAGGTAAAGTTGATGAAATATTTGATCAAGCAGTTAAAGATGAAGGGCCAGAGAAAATCATGGAAAGGTTTGTGCTTGTTGGAATTCTTTGTGCTCATGCAATGGTTGCATTAAGACCTACTATTGCTGAGGCAATTAAGATGTTAGAAGGTGATATTGATATTCCTAATTTACCTGATAGGCCTGTTCCACTTGGTCATGAATCTTTTCAATCTTCTCTTTTGAATGGTATGCAAAGTGGAAGATCAACACCTTATTATAATTCTTCTTATTCTACAAGTTCACATGAACCTTCCAAGTTATCAAAATTTAGTGTGATGTAG

Protein sequence

>Msa0048400

MSGRKVLDTMNSPVVLITDWAWTLAKSGKVDEIFDQAVKDEGPEKIMERFVLVGILCAHAMVALRPTIAEAIKMLEGDIDIPNLPDRPVPLGHESFQSSLLNGMQSGRSTPYYNSSYSTSSHEPSKLSKFSVM*