AlfalfaGEDB | Msa0902020

M. sativa cultivar zhongmu-4 / Msa0902020

KEGG: K19307
GO: GO:0000154 GO:0001510 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008170 GO:0008173 GO:0008649 GO:0008757 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016436 GO:0016740 GO:0016741 GO:0022613 GO:0031167 GO:0032259 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043412 GO:0043414 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0070042 GO:0070475 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:0140102 GO:1901360
PFAM: PF10354.12

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0902020	XP_003620394.1	68.712	163	49	1	15	175	49	211	2.26e-71	225

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0902020	sp\|P0C8L4\|Y4648_ARATH	51.079	139	65	2	32	167	70	208	4.27e-41	140

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0902020	G7KMJ9	68.712	163	49	1	15	175	49	211	1.08e-71	225

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0023610	Msa0902020	0.806268	8.932207e-50	-8.615850e-47
Msa0068630	Msa0902020	0.864680	1.021560e-64	-8.615850e-47
Msa0629940	Msa0902020	0.804255	2.358498e-49	-8.615850e-47
Msa0639460	Msa0902020	0.842574	2.379748e-58	-8.615850e-47
Msa0675510	Msa0902020	0.801327	9.486767e-49	-8.615850e-47
Msa0682360	Msa0902020	0.834680	2.605482e-56	-8.615850e-47
Msa0784580	Msa0902020	0.816905	4.344476e-52	-8.615850e-47
Msa0815320	Msa0902020	0.822471	2.326761e-53	-8.615850e-47
Msa0818010	Msa0902020	0.834574	2.769746e-56	-8.615850e-47
Msa0818030	Msa0902020	0.815361	9.614981e-52	-8.615850e-47
Msa0138290	Msa0902020	0.809994	1.437124e-50	-8.615850e-47
Msa0153200	Msa0902020	0.846447	2.159622e-59	-8.615850e-47
Msa0162580	Msa0902020	0.819208	1.310063e-52	-8.615850e-47
Msa0205930	Msa0902020	0.800654	1.302392e-48	-8.615850e-47
Msa0211680	Msa0902020	0.809777	1.599652e-50	-8.615850e-47
Msa0273570	Msa0902020	0.800562	1.359622e-48	-8.615850e-47
Msa0291600	Msa0902020	0.825116	5.585309e-54	-8.615850e-47
Msa0352280	Msa0902020	0.839738	1.324369e-57	-8.615850e-47
Msa0352300	Msa0902020	0.833445	5.311426e-56	-8.615850e-47
Msa0353690	Msa0902020	0.813500	2.479913e-51	-8.615850e-47
Msa0360900	Msa0902020	0.805572	1.251463e-49	-8.615850e-47
Msa0362860	Msa0902020	0.801533	8.609935e-49	-8.615850e-47
Msa0527680	Msa0902020	0.821129	4.758785e-53	-8.615850e-47
Msa0533290	Msa0902020	0.808105	3.647328e-50	-8.615850e-47
Msa0533430	Msa0902020	0.846856	1.669561e-59	-8.615850e-47
Msa0548060	Msa0902020	0.805715	1.167756e-49	-8.615850e-47
Msa0580610	Msa0902020	0.800134	1.661992e-48	-8.615850e-47
Msa0858360	Msa0902020	0.848631	5.419060e-60	-8.615850e-47
Msa0865390	Msa0902020	0.822486	2.309223e-53	-8.615850e-47
Msa0884920	Msa0902020	0.838700	2.460518e-57	-8.615850e-47
Msa0898360	Msa0902020	0.809060	2.280806e-50	-8.615850e-47
Msa0902020	Msa0912370	0.859369	4.337110e-63	-8.615850e-47
Msa0902020	Msa0912500	0.824555	7.577240e-54	-8.615850e-47
Msa0902020	Msa0924370	0.871349	7.314059e-67	-8.615850e-47
Msa0902020	Msa0947120	0.805601	1.233554e-49	-8.615850e-47
Msa0902020	Msa0963310	0.893489	5.994928e-75	-8.615850e-47
Msa0902020	Msa0964180	0.826458	2.682578e-54	-8.615850e-47
Msa0902020	Msa0965750	0.813938	1.986388e-51	-8.615850e-47
Msa0902020	Msa1006250	0.852888	3.434505e-61	-8.615850e-47
Msa0902020	Msa1006360	0.806399	8.381373e-50	-8.615850e-47
Msa0902020	Msa1006390	0.830249	3.266276e-55	-8.615850e-47
Msa0902020	Msa1006670	0.812650	3.809688e-51	-8.615850e-47
Msa0902020	Msa1027240	0.804724	1.882951e-49	-8.615850e-47
Msa0902020	Msa1048490	0.805634	1.214256e-49	-8.615850e-47
Msa0902020	Msa1100180	0.805804	1.118417e-49	-8.615850e-47
Msa0902020	Msa1131820	0.831441	1.666166e-55	-8.615850e-47
Msa0902020	Msa1172620	0.815766	7.811749e-52	-8.615850e-47
Msa0902020	Msa1187060	0.807831	4.171488e-50	-8.615850e-47
Msa0902020	Msa1232060	0.842554	2.408748e-58	-8.615850e-47
Msa0902020	Msa1288000	0.854774	9.837556e-62	-8.615850e-47
Msa0902020	Msa1349090	0.806898	6.576047e-50	-8.615850e-47
Msa0902020	Msa1351080	0.830553	2.752497e-55	-8.615850e-47
Msa0902020	Msa1359820	0.839397	1.623479e-57	-8.615850e-47
Msa0902020	Msa1384370	0.819625	1.052653e-52	-8.615850e-47
Msa0902020	Msa1409770	0.828637	8.047427e-55	-8.615850e-47
Msa0902020	Msa1423990	0.803990	2.677652e-49	-8.615850e-47
Msa0902020	Msa1444370	0.822434	2.374241e-53	-8.615850e-47
Msa0902020	Msa1463140	0.845965	2.922542e-59	-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
Msa0902020	MtrunA17_Chr6g0483591	68.712	163	49	1	15	175	49	211	2.08e-75	225
Msa0902020	MtrunA17_Chr6g0483571	62.092	153	55	2	16	165	50	202	1.54e-59	184
Msa0902020	MtrunA17_Chr6g0483551	62.987	154	54	2	16	166	50	203	1.50e-57	179
Msa0902020	MtrunA17_Chr5g0444781	45.930	172	91	1	5	174	43	214	3.15e-51	167
Msa0902020	MtrunA17_Chr3g0103011	47.368	152	78	1	16	165	18	169	8.10e-40	139
Msa0902020	MtrunA17_Chr2g0290801	40.244	164	95	2	5	165	76	239	4.26e-37	128
Msa0902020	MtrunA17_Chr5g0444791	42.953	149	78	2	21	167	19	162	1.75e-33	119

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0902020	AT4G26485.1	51.079	139	65	2	32	167	70	208	4.34e-42	140
Msa0902020	AT5G56060.1	48.993	149	70	4	11	155	3	149	9.36e-40	133
Msa0902020	AT5G56075.1	45.513	156	65	3	19	170	116	255	4.55e-37	129
Msa0902020	AT1G55790.1	41.243	177	97	2	5	174	54	230	1.13e-36	131
Msa0902020	AT5G25030.1	39.506	162	81	4	9	167	46	193	5.96e-30	108
Msa0902020	AT2G11045.1	37.975	158	60	6	13	167	14	136	1.31e-19	80.9
Msa0902020	AT1G55800.1	43.434	99	51	1	81	174	10	108	7.49e-19	81.3

Find 32 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTGATCTTCCACTCAGTAAA+TGG	0.272354	6_1:+99610651	None:intergenic
TGTTATCATAGTTTCCCTAT+TGG	0.304013	6_1:-99610528	Msa0902020:CDS
TGTGCATAACTTACAGAATC+TGG	0.305326	6_1:+99610899	None:intergenic
AAAGTACTACTCTTTCCAAT+AGG	0.320713	6_1:+99610513	None:intergenic
GAGTTTCTAGTGCGGAAGTA+TGG	0.345670	6_1:-99611084	Msa0902020:CDS
TGTAGCCGGTGGCGGTTGTA+AGG	0.400513	6_1:-99610450	None:intergenic
ATTTATTATTCTTGAGATGC+TGG	0.407798	6_1:+99610983	None:intergenic
ATTGGAGTTTATTGAAGAAG+TGG	0.422371	6_1:-99610607	Msa0902020:CDS
TTGATTGAACCTGAGGGTCT+TGG	0.427886	6_1:-99611051	Msa0902020:CDS
AAGTACTACTCTTTCCAATA+GGG	0.433046	6_1:+99610514	None:intergenic
AATCTGGCAATGGTGAAATT+CGG	0.453999	6_1:+99610915	None:intergenic
ATTGAAGAAGTGGAGTTTCA+AGG	0.461497	6_1:-99610597	Msa0902020:CDS
GATTAGTGAGTGGATTTCTA+CGG	0.516725	6_1:-99610734	Msa0902020:CDS
ATGGTACAGCCAAGACCCTC+AGG	0.521275	6_1:+99611042	None:intergenic
TGAGTGGAAGATCAAGGATC+TGG	0.521381	6_1:-99610643	Msa0902020:CDS
TCTGGCAAAAGATGAGGGAT+TGG	0.522145	6_1:-99610625	Msa0902020:CDS
TTATTGATTGTAGCCGGTGG+CGG	0.526880	6_1:-99610458	Msa0902020:CDS
TAAAATTGCAGGCTTCATAG+AGG	0.536898	6_1:-99610756	Msa0902020:intron
ATTTACTGAGTGGAAGATCA+AGG	0.558209	6_1:-99610649	Msa0902020:CDS
AACATTCACTTCGTGCAAGA+TGG	0.561233	6_1:+99611023	None:intergenic
CAAGGATCTGGCAAAAGATG+AGG	0.571437	6_1:-99610631	Msa0902020:CDS
CCGGGCCTTACAACCGCCAC+CGG	0.578486	6_1:+99610445	None:intergenic
TAGTACTTTCAAATTTGCCA+AGG	0.578937	6_1:-99610499	Msa0902020:CDS
ATGAGGTTATTGATTGTAGC+CGG	0.578986	6_1:-99610464	Msa0902020:CDS
TAGCAACTTGATTGAACCTG+AGG	0.588396	6_1:-99611058	Msa0902020:CDS
CGAAGTGAATGTTCACAACA+TGG	0.605758	6_1:-99611013	Msa0902020:CDS
CTTCATAGAGGATTAGTGAG+TGG	0.613571	6_1:-99610744	Msa0902020:CDS
AAGGATCTGGCAAAAGATGA+GGG	0.615741	6_1:-99610630	Msa0902020:CDS
AGGTTATTGATTGTAGCCGG+TGG	0.629115	6_1:-99610461	Msa0902020:CDS
TAACTTACAGAATCTGGCAA+TGG	0.641546	6_1:+99610905	None:intergenic
AGCAACTTGATTGAACCTGA+GGG	0.656802	6_1:-99611057	Msa0902020:CDS
CAACACATCCATTTACTGAG+TGG	0.685186	6_1:-99610659	Msa0902020:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTTTAAAAATAAAATTGC+AGG	-	chr6_1:99610808-99610827	Msa0902020:intron	10.0%
!	ATTTATTATTCTTGAGATGC+TGG	+	chr6_1:99610595-99610614	None:intergenic	25.0%
!!!	ATTTTGAAGAGTTTCTAGTG+CGG	-	chr6_1:99610483-99610502	Msa0902020:CDS	30.0%
!!	ATCTTTAATTTTCCACATGC+TGG	-	chr6_1:99610626-99610645	Msa0902020:CDS	30.0%
!	GCTAAAAACATGCTTTCTTT+TGG	-	chr6_1:99610867-99610886	Msa0902020:intron	30.0%
!	AAAAACATGCTTTCTTTTGG+AGG	-	chr6_1:99610870-99610889	Msa0902020:intron	30.0%
	ATTGGAGTTTATTGAAGAAG+TGG	-	chr6_1:99610968-99610987	Msa0902020:CDS	30.0%
!	TTTCAAGGATCATTTTATCC+AGG	-	chr6_1:99610993-99611012	Msa0902020:CDS	30.0%
	TATAAAAACAAGAGAGGATC+TGG	-	chr6_1:99611017-99611036	Msa0902020:CDS	30.0%
	TGTTATCATAGTTTCCCTAT+TGG	-	chr6_1:99611047-99611066	Msa0902020:CDS	30.0%
	AAGTACTACTCTTTCCAATA+GGG	+	chr6_1:99611064-99611083	None:intergenic	30.0%
!	AAAGTACTACTCTTTCCAAT+AGG	+	chr6_1:99611065-99611084	None:intergenic	30.0%
	TAGTACTTTCAAATTTGCCA+AGG	-	chr6_1:99611076-99611095	Msa0902020:CDS	30.0%
!!!	ATTTGCCAAGGAGAATTTTT+TGG	-	chr6_1:99611088-99611107	Msa0902020:CDS	30.0%
	GAAAAATTGAAACCAGCATG+TGG	+	chr6_1:99610641-99610660	None:intergenic	35.0%
	AATCTGGCAATGGTGAAATT+CGG	+	chr6_1:99610663-99610682	None:intergenic	35.0%
	TAACTTACAGAATCTGGCAA+TGG	+	chr6_1:99610673-99610692	None:intergenic	35.0%
	TGTGCATAACTTACAGAATC+TGG	+	chr6_1:99610679-99610698	None:intergenic	35.0%
	TAAAATTGCAGGCTTCATAG+AGG	-	chr6_1:99610819-99610838	Msa0902020:intron	35.0%
!	GATTAGTGAGTGGATTTCTA+CGG	-	chr6_1:99610841-99610860	Msa0902020:intron	35.0%
	TTGATCTTCCACTCAGTAAA+TGG	+	chr6_1:99610927-99610946	None:intergenic	35.0%
	ATTTACTGAGTGGAAGATCA+AGG	-	chr6_1:99610926-99610945	Msa0902020:CDS	35.0%
	ATTGAAGAAGTGGAGTTTCA+AGG	-	chr6_1:99610978-99610997	Msa0902020:CDS	35.0%
!!!	CCTCTCTTGTTTTTATAACC+TGG	+	chr6_1:99611014-99611033	None:intergenic	35.0%
	CCAGGTTATAAAAACAAGAG+AGG	-	chr6_1:99611011-99611030	Msa0902020:CDS	35.0%
	CTCATCCAAAAAATTCTCCT+TGG	+	chr6_1:99611096-99611115	None:intergenic	35.0%
!!!	CAAGGAGAATTTTTTGGATG+AGG	-	chr6_1:99611094-99611113	Msa0902020:CDS	35.0%
!	ATGAGGTTATTGATTGTAGC+CGG	-	chr6_1:99611111-99611130	Msa0902020:CDS	35.0%
	TAGCAACTTGATTGAACCTG+AGG	-	chr6_1:99610517-99610536	Msa0902020:CDS	40.0%
	AGCAACTTGATTGAACCTGA+GGG	-	chr6_1:99610518-99610537	Msa0902020:CDS	40.0%
	AACATTCACTTCGTGCAAGA+TGG	+	chr6_1:99610555-99610574	None:intergenic	40.0%
	CGAAGTGAATGTTCACAACA+TGG	-	chr6_1:99610562-99610581	Msa0902020:CDS	40.0%
	TGTATACCGACATTGAGACA+CGG	-	chr6_1:99610773-99610792	Msa0902020:intron	40.0%
!	CTTCATAGAGGATTAGTGAG+TGG	-	chr6_1:99610831-99610850	Msa0902020:intron	40.0%
	CAACACATCCATTTACTGAG+TGG	-	chr6_1:99610916-99610935	Msa0902020:CDS	40.0%
	AAGGATCTGGCAAAAGATGA+GGG	-	chr6_1:99610945-99610964	Msa0902020:CDS	40.0%
!!	GAGTTTCTAGTGCGGAAGTA+TGG	-	chr6_1:99610491-99610510	Msa0902020:CDS	45.0%
	TTGATTGAACCTGAGGGTCT+TGG	-	chr6_1:99610524-99610543	Msa0902020:CDS	45.0%
	GTAACACCGTGTCTCAATGT+CGG	+	chr6_1:99610782-99610801	None:intergenic	45.0%
	TGAGTGGAAGATCAAGGATC+TGG	-	chr6_1:99610932-99610951	Msa0902020:CDS	45.0%
	CAAGGATCTGGCAAAAGATG+AGG	-	chr6_1:99610944-99610963	Msa0902020:CDS	45.0%
	TCTGGCAAAAGATGAGGGAT+TGG	-	chr6_1:99610950-99610969	Msa0902020:CDS	45.0%
!	AGGTTATTGATTGTAGCCGG+TGG	-	chr6_1:99611114-99611133	Msa0902020:CDS	45.0%
!	TTATTGATTGTAGCCGGTGG+CGG	-	chr6_1:99611117-99611136	Msa0902020:CDS	45.0%
	ATGGTACAGCCAAGACCCTC+AGG	+	chr6_1:99610536-99610555	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_1	gene	99610452	99611145	99610452	ID=Msa0902020;Name=Msa0902020
chr6_1	mRNA	99610452	99611145	99610452	ID=Msa0902020-mRNA-1;Parent=Msa0902020;Name=Msa0902020-mRNA-1;_AED=0.16;_eAED=0.17;_QI=0\|0\|0\|1\|1\|1\|2\|0\|182
chr6_1	exon	99610913	99611145	99610913	ID=Msa0902020-mRNA-1:exon:17583;Parent=Msa0902020-mRNA-1
chr6_1	exon	99610452	99610767	99610452	ID=Msa0902020-mRNA-1:exon:17582;Parent=Msa0902020-mRNA-1
chr6_1	CDS	99610913	99611145	99610913	ID=Msa0902020-mRNA-1:cds;Parent=Msa0902020-mRNA-1
chr6_1	CDS	99610452	99610767	99610452	ID=Msa0902020-mRNA-1:cds;Parent=Msa0902020-mRNA-1

Gene Sequence

>Msa0902020

TTGAGTTTATTTATTTTGCAAAATACTACAAATTTTGAAGAGTTTCTAGTGCGGAAGTATGGATCTAGCAACTTGATTGAACCTGAGGGTCTTGGCTGTACCATCTTGCACGAAGTGAATGTTCACAACATGGCTCAAGACCAGCATCTCAAGAATAATAAATTTGATCGAATAATCTTTAATTTTCCACATGCTGGTTTCAATTTTTCCGAATTTCACCATTGCCAGATTCTGCTTCATAGAGGATTAGTGAGTGGATTTCTACGGAATGCTAAAAACATGCTTTCTTTTGGAGGAGAAATTCATATTTCTCACAAGACAACACATCCATTTACTGAGTGGAAGATCAAGGATCTGGCAAAAGATGAGGGATTGGAGTTTATTGAAGAAGTGGAGTTTCAAGGATCATTTTATCCAGGTTATAAAAACAAGAGAGGATCTGGTTCTAAATGTTATCATAGTTTCCCTATTGGAAAGAGTAGTACTTTCAAATTTGCCAAGGAGAATTTTTTGGATGAGGTTATTGATTGTAGCCGGTGGCGGTTGTAA

Protein sequence

>Msa0902020

LSLFILQNTTNFEEFLVRKYGSSNLIEPEGLGCTILHEVNVHNMAQDQHLKNNKFDRIIFNFPHAGFNFSEFHHCQILLHRGLVSGFLRNAKNMLSFGGEIHISHKTTHPFTEWKIKDLAKDEGLEFIEEVEFQGSFYPGYKNKRGSGSKCYHSFPIGKSSTFKFAKENFLDEVIDCSRWRL*