AlfalfaGEDB | Msa1240140

M. sativa cultivar zhongmu-4 / Msa1240140

KEGG: -
GO: GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
PFAM: PF12796.10

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
Msa1240140	XP_004510954.1	54.341	668	180	11	1	544	1	667	0.0	580

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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
Msa1240140	sp\|Q10EL1\|C3H24_ORYSJ	41.161	379	150	14	209	520	331	703	6.06e-59	212
Msa1240140	sp\|Q10EL1\|C3H24_ORYSJ	48.026	152	74	1	3	154	58	204	1.01e-27	121

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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
Msa1240140	A0A1S2YWC5	54.341	668	180	11	1	544	1	667	0.0	580

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TFs/TRs:

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Gene ID	Type	Classification
Msa1240140	TF	C3H

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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
No data available in table

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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
Msa1240140	MtrunA17_Chr1g0171151	61.969	589	105	9	1	470	17	605	0.0	578
Msa1240140	MtrunA17_Chr3g0088521	41.354	694	240	23	1	543	31	708	6.47e-113	352
Msa1240140	MtrunA17_Chr7g0257831	38.519	675	253	26	1	530	33	690	2.61e-104	329
Msa1240140	MtrunA17_Chr5g0437251	35.127	316	158	5	15	286	30	342	5.70e-50	182
Msa1240140	MtrunA17_Chr5g0430211	35.276	326	158	4	15	288	35	359	1.56e-46	173
Msa1240140	MtrunA17_Chr1g0187591	29.520	542	304	15	14	495	32	555	1.08e-45	170
Msa1240140	MtrunA17_Chr3g0113651	35.507	276	155	6	14	273	9	277	2.34e-42	159
Msa1240140	MtrunA17_Chr3g0092171	33.414	413	164	15	1	334	69	449	3.35e-41	155
Msa1240140	MtrunA17_Chr3g0105101	37.063	286	155	8	1	276	11	281	3.32e-40	150
Msa1240140	MtrunA17_Chr3g0105131	31.158	475	290	14	36	495	37	489	4.53e-38	146

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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
Msa1240140	AT5G58620.1	30.523	593	305	16	12	516	11	584	5.23e-56	198
Msa1240140	AT5G12850.1	38.978	372	145	16	209	518	307	658	5.94e-54	194
Msa1240140	AT5G12850.1	50.000	144	70	1	11	154	38	179	2.03e-38	150
Msa1240140	AT2G40140.2	29.542	589	290	16	15	530	33	569	1.02e-53	192
Msa1240140	AT2G40140.1	29.542	589	290	16	15	530	33	569	1.02e-53	192
Msa1240140	AT2G41900.1	39.386	391	143	16	209	529	311	677	9.81e-53	191
Msa1240140	AT2G41900.1	51.299	154	74	1	1	154	34	186	5.41e-45	169
Msa1240140	AT3G55980.1	34.069	317	165	6	15	293	30	340	1.04e-45	169
Msa1240140	AT3G55980.2	34.069	317	165	6	15	293	97	407	1.44e-45	170
Msa1240140	AT2G25900.2	57.143	56	24	0	209	264	140	195	3.34e-19	89.0

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Find 116 sgRNAs with CRISPR-Local

Find 332 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATCCCTTCCTCAGTTGT+TGG	0.358560	8_2:-22500281	Msa1240140:CDS
AAAGCAGAGGCAGATGAACA+TGG	0.655402	8_2:+22500929	None:intergenic
AAATAAGACCATGGGTCTGT+AGG	0.574531	8_2:+22500254	None:intergenic
AACAACTGAGGAAGGGATTT+TGG	0.189164	8_2:+22500283	None:intergenic
AACAGCTCAAGTCACTCATA+AGG	0.519911	8_2:+22500681	None:intergenic
AACGAGGTGGGGATTTGGTA+CGG	0.563680	8_2:-22501762	Msa1240140:CDS
AACTGAAGAGTGTTAGTTCT+AGG	0.342883	8_2:-22500316	Msa1240140:CDS
AAGAGATCTTCAAGATTTGA+TGG	0.337434	8_2:+22500614	None:intergenic
AAGCCGGTCCTAGTTCTAGT+CGG	0.644175	8_2:-22500652	Msa1240140:CDS
AATAGATTAAATTTGTGAAT+TGG	0.288759	8_2:+22500019	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GGAAAAATTAGGTTTATGCA+CGG	+	chr8_2:22501063-22501082	None:intergenic	30.0%
AAGAGATCTTCAAGATTTGA+TGG	+	chr8_2:22501293-22501312	None:intergenic	30.0%
CACTTCTCTTTAATCATCTT+AGG	+	chr8_2:22501824-22501843	None:intergenic	30.0%
GGAAAAATTAGGTTTATGCA+CGG	+	chr8_2:22501063-22501082	None:intergenic	30.0%
AAGAGATCTTCAAGATTTGA+TGG	+	chr8_2:22501293-22501312	None:intergenic	30.0%
CACTTCTCTTTAATCATCTT+AGG	+	chr8_2:22501824-22501843	None:intergenic	30.0%
TGCGAAGATTCTTATATCTG+CGG	-	chr8_2:22500360-22500379	Msa1240140:CDS	35.0%
ACCAACAGATCTATTATCAG+AGG	+	chr8_2:22500500-22500519	None:intergenic	35.0%
GATAAGTGTGAATATGCTCA+TGG	-	chr8_2:22500804-22500823	Msa1240140:intron	35.0%
AGAAGAGACTGGGAAAAATT+AGG	+	chr8_2:22501074-22501093	None:intergenic	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_2	gene	22500025	22501901	22500025	ID=Msa1240140;Name=Msa1240140
chr8_2	mRNA	22500025	22501901	22500025	ID=Msa1240140-mRNA-1;Parent=Msa1240140;Name=Msa1240140-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0\|0\|0\|1\|1\|1\|3\|0\|544
chr8_2	exon	22501276	22501901	22501276	ID=Msa1240140-mRNA-1:exon:7998;Parent=Msa1240140-mRNA-1
chr8_2	exon	22500892	22501144	22500892	ID=Msa1240140-mRNA-1:exon:7997;Parent=Msa1240140-mRNA-1
chr8_2	exon	22500025	22500780	22500025	ID=Msa1240140-mRNA-1:exon:7996;Parent=Msa1240140-mRNA-1
chr8_2	CDS	22501276	22501901	22501276	ID=Msa1240140-mRNA-1:cds;Parent=Msa1240140-mRNA-1
chr8_2	CDS	22500892	22501144	22500892	ID=Msa1240140-mRNA-1:cds;Parent=Msa1240140-mRNA-1
chr8_2	CDS	22500025	22500780	22500025	ID=Msa1240140-mRNA-1:cds;Parent=Msa1240140-mRNA-1

Gene Sequence

>Msa1240140

ATGGAATCACTATCTGTCAACATTAAAGATTCTTTTCCCAGCTTACTAGTACTTGCTTCGTACAATGACTCTGAAGGTTTTAAGCTTCTTTTAAACAAAGAAGGAGCTTCTTCAATTAACGAGGTGGGGATTTGGTACGGTCGACAAAATGGTTCTACAGAGATTGTTCTTGAGCACAAAACTCCTTTGATGGTTGCTGCTACTTATGGTAGTATTGATGTTATGAAGGTTATACTCTCGTATCATGACGTTGATGTGAATTTTGCTTGCGGGGTAAACAAAAGTACTGCCCTTCACTATGTTGCTTCTGGTGGGTCTGCTAATGTTGTTAATGCTGCGAAGATTCTTATATCTGCGGGAGCAAATGTTAGTTGTGTCGATAGCAATGGAAATCGTCCTGTTGATGTCATCGTTGTTCCTCCTAATATGCAAGGCTTGAAAGGAGTTCTCGAGAAACTTCTTTTGGATAATGCCTCTGATAATAGATCTGTTGGTGACTTCTCTATTTCGGCGTCTGTTGATTCTTTTAGTTCTGGTTTTCTTGAAAATGGGATGTCTTTGCCATACTCTCCTTCAGTGTCGCCGCCTTCTCTTGTAGTGGATCCGAAATTTACTGAGAAGAAACAGAAAGGGGCTTGTAGGCATGGAGATAAGTGTGAATATGCTCATGGAATATTCAAGTGCTGGCTACACCCACATCAGTATCGAACACGACTCTGTAAAGAGGGGACTAGTTGTGATAAAAGGGTATTTTTTTTGGCACACGATGAAAAGGAATCGAGGCTGCTGCCTTCGTTAACTAGATCTGGTGTTCCTTCACCATGTTCATCTGCCTCTGCTTTTAATGCGATGGACATTGCTGCTGCAATGAATCTTTTGGAATCAATTTTCAATCTAGTCGGTTGGGATCTTCTCTCCAACTTCAATGTGCTGAGCTATTTAGATTGGCAGCAAAACCTTATGAGTGACTTGAGCTGTTTCTCAAAAGCCGGTCCTAGTTCTAGTCGGTCTAAGGCACTAAATCCATCAAATCTTGAAGATCTCTTTTGTGCGGAAATTTTGTCATCTACCAAGTATTCTGACCCAGCAATGGCTTCTGTTTTTTCCCCTTCACGTGAATCAGCTGCTATGAGTGAGCTTCAAAACATGTTATCGCCTTCAAATACTAATATGCCGTCTCCAAAGAAAGTTGAGCATCGTCTGTCACAGTCTTCAATTGGTGTCCCTTCATTCGGTAGCATGTCACCTAGAAGTCTTGAACCAATCTCCTCAATGAGCCCTCAAATGTATGCATTTCCTCATCGCGGGAAACAGCAGCAACAACTGAAGAGTGTTAGTTCTAGGGAACTCGGTTCCAAAATCCCTTCCTCAGTTGTTGGATCACCTACAGACCCATGGTCTTATTTGGGATCGCCTAATGAGATGTTTGATTGGTCCGTAAATGGAGACGAACTAAGTCGCCAAATGCAGAATACATCCTCATTTGAACATAAAATAAACGAGGACGAAGAGCCTCATCTATCATGGGTCCAAGTCCTACTGAAGGAATCCTCACCTAAGATGATTAAAGAGAAGTGTGCATCTTCTGTCCCTATCACATCTTCTGCTAGATTGAATTCCAATTCACAAATTTAA

Protein sequence

>Msa1240140

MESLSVNIKDSFPSLLVLASYNDSEGFKLLLNKEGASSINEVGIWYGRQNGSTEIVLEHKTPLMVAATYGSIDVMKVILSYHDVDVNFACGVNKSTALHYVASGGSANVVNAAKILISAGANVSCVDSNGNRPVDVIVVPPNMQGLKGVLEKLLLDNASDNRSVGDFSISASVDSFSSGFLENGMSLPYSPSVSPPSLVVDPKFTEKKQKGACRHGDKCEYAHGIFKCWLHPHQYRTRLCKEGTSCDKRVFFLAHDEKESRLLPSLTRSGVPSPCSSASAFNAMDIAAAMNLLESIFNLVGWDLLSNFNVLSYLDWQQNLMSDLSCFSKAGPSSSRSKALNPSNLEDLFCAEILSSTKYSDPAMASVFSPSRESAAMSELQNMLSPSNTNMPSPKKVEHRLSQSSIGVPSFGSMSPRSLEPISSMSPQMYAFPHRGKQQQQLKSVSSRELGSKIPSSVVGSPTDPWSYLGSPNEMFDWSVNGDELSRQMQNTSSFEHKINEDEEPHLSWVQVLLKESSPKMIKEKCASSVPITSSARLNSNSQI*