AlfalfaGEDB | Msa0342990

M. sativa cultivar zhongmu-4 / Msa0342990

KEGG: -
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0007275 GO:0007623 GO:0008150 GO:0009266 GO:0009314 GO:0009409 GO:0009416 GO:0009628 GO:0009639 GO:0009791 GO:0009889 GO:0009900 GO:0009908 GO:0010029 GO:0010047 GO:0010114 GO:0010154 GO:0010187 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032504 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048511 GO:0048519 GO:0048580 GO:0048581 GO:0048608 GO:0048609 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051239 GO:0051241 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0099402 GO:0140110 GO:1900140 GO:1903506 GO:2000026 GO:2000112 GO:2001141
PFAM: PF00010.29

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342990	XP_003611714.1	94.925	335	16	1	14	347	10	344	0.0	604

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342990	sp\|Q9FUA4\|SPT_ARATH	49.099	222	86	5	78	296	160	357	3.19e-46	164

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342990	G7K6L5	94.925	335	16	1	14	347	10	344	0.0	604

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TFs/TRs:

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Gene ID	Type	Classification
Msa0342990	TF	bHLH

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0342990	Msa0714770	0.906586	1.266271e-80	-8.615850e-47
Msa0342990	Msa0756840	0.925739	1.219080e-90	-8.615850e-47
Msa0342990	Msa0836170	0.947890	2.781012e-106	-8.615850e-47

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PPI

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Gene1	Gene2	Type
No data available in table

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342990	MtrunA17_Chr5g0402031	94.925	335	16	1	14	347	10	344	0.0	604
Msa0342990	MtrunA17_Chr1g0153241	81.319	91	16	1	97	186	73	163	3.19e-42	147
Msa0342990	MtrunA17_Chr1g0193321	57.983	119	49	1	79	197	434	551	1.26e-33	131
Msa0342990	MtrunA17_Chr7g0262691	57.500	120	42	3	72	183	213	331	5.49e-30	119
Msa0342990	MtrunA17_Chr1g0182791	59.813	107	38	3	77	183	289	390	1.65e-29	118
Msa0342990	MtrunA17_Chr3g0095391	48.551	138	60	5	109	243	310	439	1.25e-26	109
Msa0342990	MtrunA17_Chr7g0271251	55.140	107	42	1	104	204	428	534	4.01e-24	103
Msa0342990	MtrunA17_Chr7g0231461	68.182	66	21	0	109	174	298	363	9.81e-23	99.0
Msa0342990	MtrunA17_Chr7g0270871	50.549	91	42	1	88	178	185	272	3.54e-22	96.3
Msa0342990	MtrunA17_Chr4g0074161	36.029	136	67	2	40	172	152	270	7.05e-19	87.0

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342990	AT4G36930.1	49.099	222	86	5	78	296	160	357	3.25e-47	164
Msa0342990	AT5G67110.1	52.381	168	57	5	16	181	14	160	3.82e-37	133
Msa0342990	AT1G09530.3	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT1G09530.2	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT1G09530.5	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT1G09530.1	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT1G09530.4	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT1G09530.6	60.177	113	40	3	82	191	311	421	1.68e-31	124
Msa0342990	AT2G20180.7	64.516	93	23	1	80	172	189	271	6.11e-30	118
Msa0342990	AT2G20180.1	64.516	93	23	1	80	172	189	271	6.11e-30	118

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Find 87 sgRNAs with CRISPR-Local

Find 171 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGATGCAAACCTGTACT+TGG	0.441182	3_1:-1014779	None:intergenic
AACAACACAGAAACTTCTTT+CGG	0.333925	3_1:+1015629	Msa0342990:CDS
AACAAGTCTTCGCCGTGTAT+TGG	0.455886	3_1:-1015798	None:intergenic
AAGAAGATGAAGATGAACGA+AGG	0.614318	3_1:-1013747	None:intergenic
AAGCCTTCATGAAAGTACAT+AGG	0.613283	3_1:-1015425	None:intergenic
AAGGAGTTGTCTAGGGGATG+AGG	0.512056	3_1:-1015530	None:intergenic
AAGGGATTTCTATGTTTACG+AGG	0.664139	3_1:-1016210	None:intergenic
AATCTATTAGGCGGTTCTCA+AGG	0.591562	3_1:+1015858	Msa0342990:CDS
AATGGAACATAACAACAACA+TGG	0.706557	3_1:+1013660	Msa0342990:exon
AATGTATCTTCCTCTTCTGT+TGG	0.387184	3_1:+1013850	Msa0342990:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATGGAACATAACAACAACA+TGG	+	chr3_1:1013660-1013679	Msa0342990:exon	30.0%
TTTACTCAATGTCTTGGAAA+AGG	+	chr3_1:1014089-1014108	Msa0342990:intron	30.0%
ATTCTAAATACTTCTCTCGA+CGG	+	chr3_1:1015044-1015063	Msa0342990:intron	30.0%
ACGTCTTAAATTTGAATCGT+CGG	+	chr3_1:1015096-1015115	Msa0342990:intron	30.0%
AGAGAATTACCAACATTTGA+AGG	+	chr3_1:1015164-1015183	Msa0342990:intron	30.0%
ATAAAGTAAGGAGTTGTCTA+GGG	-	chr3_1:1015540-1015559	None:intergenic	30.0%
TAGATTGGATGCATAAAGTA+AGG	-	chr3_1:1015552-1015571	None:intergenic	30.0%
AACAACACAGAAACTTCTTT+CGG	+	chr3_1:1015629-1015648	Msa0342990:CDS	30.0%
CTGCGATGTAAATATAATGT+TGG	-	chr3_1:1016080-1016099	None:intergenic	30.0%
TATTTACATCGCAGTTAAGT+AGG	+	chr3_1:1016086-1016105	Msa0342990:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	1013572	1016299	1013572	ID=Msa0342990;Name=Msa0342990
chr3_1	mRNA	1013572	1016299	1013572	ID=Msa0342990-mRNA-1;Parent=Msa0342990;Name=Msa0342990-mRNA-1;_AED=0.06;_eAED=0.06;_QI=89\|0.83\|0.85\|1\|1\|1\|7\|188\|347
chr3_1	exon	1013572	1013924	1013572	ID=Msa0342990-mRNA-1:exon:270;Parent=Msa0342990-mRNA-1
chr3_1	exon	1014358	1014465	1014358	ID=Msa0342990-mRNA-1:exon:271;Parent=Msa0342990-mRNA-1
chr3_1	exon	1014561	1014626	1014561	ID=Msa0342990-mRNA-1:exon:272;Parent=Msa0342990-mRNA-1
chr3_1	exon	1014723	1014788	1014723	ID=Msa0342990-mRNA-1:exon:273;Parent=Msa0342990-mRNA-1
chr3_1	exon	1015392	1015703	1015392	ID=Msa0342990-mRNA-1:exon:274;Parent=Msa0342990-mRNA-1
chr3_1	exon	1015798	1015879	1015798	ID=Msa0342990-mRNA-1:exon:275;Parent=Msa0342990-mRNA-1
chr3_1	exon	1015966	1016299	1015966	ID=Msa0342990-mRNA-1:exon:276;Parent=Msa0342990-mRNA-1
chr3_1	five_prime_UTR	1013572	1013660	1013572	ID=Msa0342990-mRNA-1:five_prime_utr;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1013661	1013924	1013661	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1014358	1014465	1014358	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1014561	1014626	1014561	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1014723	1014788	1014723	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1015392	1015703	1015392	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1015798	1015879	1015798	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	CDS	1015966	1016111	1015966	ID=Msa0342990-mRNA-1:cds;Parent=Msa0342990-mRNA-1
chr3_1	three_prime_UTR	1016112	1016299	1016112	ID=Msa0342990-mRNA-1:three_prime_utr;Parent=Msa0342990-mRNA-1

Gene Sequence

>Msa0342990

ATGGAACATAACAACAACATGGCTCAGTTTGACAAAAACATGTCCTCTTCACAAGACGAAATCTCTCTTTTTCTTCATCAAATTCTCCTTCGTTCATCTTCATCTTCTTCCATGCCAGGATCCATTAACCAGCTTCAAGATGGAAAGATCTCAGCCTTTGATTCAACTTCTAGACCAAACCATGCTTTAAATGTATCTTCCTCTTCTGTTGGAGCAGGAGGACTCAGTGGTAATGACACTGATGAATATGACTGTGAAAGTGAGGAGGGTGTGGAAGCATTGATTGAAGAAGTTCCAACAAAGTCAGCTGGTGCTTCTAGGAGTTCTTCAAAAAGAAGTAGAGCAGCTGAAGTTCATAATTTGTCAGAAAAGAGAAGAAGGAGTAGGATTAATGAGAAAATGAAAGCTTTACAAAATCTAATTCCAAATTCTAACAAGACTGATAAAGCTTCAATGCTAGATGAAGCTATTGAATACCTTAAACAGCTTCAGCTCCAAGTACAGATGCTGTCATTGAGAAATGGATTGAGTTTGCATCCTATGTACTTTCATGAAGGCTTACATTCTCTGCCTTTGTCTCGGATGAGTACGGAGTTGAGTGAAGGAAACGGTTCTAACCCTTTAAATATGACATCTACTCTGCCTCATCCCCTAGACAACTCCTTACTTTATGCATCCAATCTACCTAACAAAAACACATTGTCGAGTCAGCCATCAATGTCTTCCTATCCTTCATATATTAACAACACAGAAACTTCTTTCGGGGTGGAATCTGGAATCCCAGCACAGAAAAAACGTCTCCAACAATCTTCAGAGCCAATACACGGCGAAGACTTGTTGCAGCACCAGCAATTGAATGCAATAAATTCTTTTACCAATCTATTAGGCGGTTCTCAAGCTGTCAAAGAATTTCAGTCGGGCGCAATGGCTACACCTACTACTAACAATACTTTGCAAACTTGTGTTGCCGGAAGAGATCAGTCAGGAGCGGTCATGAGAAATAGTGAGCCCAACATTATATTTACATCGCAGTTAAGTAGGTAA

Protein sequence

>Msa0342990

MEHNNNMAQFDKNMSSSQDEISLFLHQILLRSSSSSSMPGSINQLQDGKISAFDSTSRPNHALNVSSSSVGAGGLSGNDTDEYDCESEEGVEALIEEVPTKSAGASRSSSKRSRAAEVHNLSEKRRRSRINEKMKALQNLIPNSNKTDKASMLDEAIEYLKQLQLQVQMLSLRNGLSLHPMYFHEGLHSLPLSRMSTELSEGNGSNPLNMTSTLPHPLDNSLLYASNLPNKNTLSSQPSMSSYPSYINNTETSFGVESGIPAQKKRLQQSSEPIHGEDLLQHQQLNAINSFTNLLGGSQAVKEFQSGAMATPTTNNTLQTCVAGRDQSGAVMRNSEPNIIFTSQLSR*