AlfalfaGEDB | Msa1239310

M. sativa cultivar zhongmu-4 / Msa1239310

KEGG: K09260
GO: GO:0000003 GO:0000060 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0006606 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0007275 GO:0008104 GO:0008134 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009719 GO:0009725 GO:0009739 GO:0009791 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0009909 GO:0009911 GO:0010033 GO:0010073 GO:0010074 GO:0010077 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0015031 GO:0015833 GO:0017038 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0033036 GO:0033365 GO:0033993 GO:0034504 GO:0034613 GO:0042221 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045184 GO:0045893 GO:0045935 GO:0046907 GO:0048367 GO:0048507 GO:0048518 GO:0048522 GO:0048580 GO:0048582 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051169 GO:0051170 GO:0051171 GO:0051173 GO:0051179 GO:0051234 GO:0051239 GO:0051240 GO:0051252 GO:0051254 GO:0051641 GO:0051649 GO:0060255 GO:0061458 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0072594 GO:0080090 GO:0090567 GO:0098727 GO:0140110 GO:1901700 GO:1902680 GO:1903506 GO:1903508 GO:2000026 GO:2000112 GO:2000241 GO:2000243 GO:2001141
PFAM: PF00319.21

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
Msa1239310	XP_013444984.1	75.446	224	28	1	1	197	1	224	3.95e-109	322

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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
Msa1239310	sp\|O64645\|SOC1_ARATH	48.837	215	75	4	1	186	1	209	5.19e-56	179

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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
Msa1239310	A0A072TND6	75.446	224	28	1	1	197	1	224	1.89e-109	322

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TFs/TRs:

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Gene ID	Type	Classification
Msa1239310	TF	MADS-M-type

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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
Msa0201330	Msa1239310	0.801202	1.006118e-48	-8.615850e-47
Msa0201370	Msa1239310	0.818007	2.453853e-52	-8.615850e-47
Msa0243930	Msa1239310	0.806525	7.886974e-50	-8.615850e-47
Msa0282590	Msa1239310	0.828738	7.607651e-55	-8.615850e-47
Msa0304740	Msa1239310	0.807247	5.549291e-50	-8.615850e-47
Msa0331590	Msa1239310	0.807079	6.020932e-50	-8.615850e-47
Msa0483650	Msa1239310	0.800998	1.107830e-48	-8.615850e-47
Msa0797360	Msa1239310	0.802429	5.633143e-49	-8.615850e-47
Msa0946120	Msa1239310	0.802534	5.360155e-49	-8.615850e-47
Msa1185310	Msa1239310	0.809542	1.796981e-50	-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
Msa1239310	MtrunA17_Chr8g0351031	75.446	224	28	1	1	197	1	224	3.63e-113	322
Msa1239310	MtrunA17_Chr8g0351041	96.364	110	4	0	1	110	1	110	3.71e-73	218
Msa1239310	MtrunA17_Chr7g0246431	54.717	212	63	6	1	184	1	207	4.57e-63	194
Msa1239310	MtrunA17_Chr4g0057151	47.805	205	89	6	1	189	1	203	4.34e-46	150
Msa1239310	MtrunA17_Chr3g0097101	41.294	201	89	6	1	175	16	213	1.10e-35	125
Msa1239310	MtrunA17_Chr2g0284911	58.333	108	44	1	3	110	18	124	1.41e-35	125
Msa1239310	MtrunA17_Chr8g0380021	57.407	108	45	1	3	110	19	125	1.98e-34	122
Msa1239310	MtrunA17_Chr3g0077501	55.455	110	48	1	1	110	1	109	3.40e-34	120
Msa1239310	MtrunA17_Chr8g0351051	52.727	110	51	1	1	110	1	109	4.85e-31	113
Msa1239310	MtrunA17_Chr5g0420091	70.423	71	20	1	1	70	1	71	1.74e-30	111

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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
Msa1239310	AT2G45660.1	48.837	215	75	4	1	186	1	209	5.28e-57	179
Msa1239310	AT2G45660.2	74.107	112	24	2	1	110	1	109	9.94e-53	166
Msa1239310	AT5G62165.10	47.739	199	84	4	1	186	1	192	6.16e-50	160
Msa1239310	AT5G62165.4	47.739	199	84	4	1	186	1	192	6.16e-50	160
Msa1239310	AT4G22950.3	45.133	226	83	4	1	195	1	216	3.61e-49	159
Msa1239310	AT4G22950.1	45.133	226	83	4	1	195	1	216	3.61e-49	159
Msa1239310	AT4G11880.4	47.465	217	81	5	1	189	1	212	2.98e-48	157
Msa1239310	AT4G11880.1	47.465	217	81	5	1	189	1	212	2.98e-48	157
Msa1239310	AT5G62165.3	44.131	213	85	4	1	186	1	206	9.97e-48	155
Msa1239310	AT5G62165.1	44.131	213	85	4	1	186	1	206	9.97e-48	155

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Find 69 sgRNAs with CRISPR-Local

Find 1085 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTCTTAGGAGAAGGTCT+AGG	0.447821	8_2:+20896602	Msa1239310:CDS
AAAGAAAATATATGTATAAA+GGG	0.409393	8_2:-20882670	None:intergenic
AAAGTAGTGATCCATAATTG+AGG	0.623208	8_2:-20882556	None:intergenic
AAATCATTTGTTTCTTAATA+TGG	0.155891	8_2:+20882406	Msa1239310:five_prime_UTR
AAATGCCATGCTCACGGAGA+AGG	0.547063	8_2:+20897900	Msa1239310:CDS
AACAAGACGCATTTCTCCAA+AGG	0.605530	8_2:+20898349	Msa1239310:CDS
AACGATACCGCAATCATACC+AGG	0.576369	8_2:+20888593	Msa1239310:CDS
AACTCTTAGGAGAAGGTCTA+GGG	0.544433	8_2:+20896603	Msa1239310:CDS
AAGCAGTCCAAGTTCAGATG+TGG	0.601808	8_2:+20898292	Msa1239310:CDS
AATTCATAAAGCCTCCCTCT+TGG	0.547865	8_2:-20883364	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAGTAGTGATCCATAATTG+AGG	-	chr8_2:20882559-20882578	None:intergenic	30.0%
CTAGAATAGGAAAATAAGGA+AGG	-	chr8_2:20882644-20882663	None:intergenic	30.0%
GCAAGAAAAGCAATTTCAAA+AGG	-	chr8_2:20882725-20882744	None:intergenic	30.0%
GGATGAAAGAAACAAAGAAA+TGG	-	chr8_2:20882886-20882905	None:intergenic	30.0%
TTACCACCCAATAAAATCAA+AGG	-	chr8_2:20882944-20882963	None:intergenic	30.0%
AAAAAAAGTTCTCACCAAGA+AGG	-	chr8_2:20883080-20883099	None:intergenic	30.0%
ATGTGTGATTATATTGCATC+TGG	+	chr8_2:20883446-20883465	Msa1239310:intron	30.0%
AGAAGTGAGAGAATGAAAAT+AGG	+	chr8_2:20883573-20883592	Msa1239310:intron	30.0%
TCCACATTAACTTTACTCAT+GGG	-	chr8_2:20883986-20884005	None:intergenic	30.0%
ATCCACATTAACTTTACTCA+TGG	-	chr8_2:20883987-20884006	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_2	gene	20882367	20898618	20882367	ID=Msa1239310;Name=Msa1239310
chr8_2	mRNA	20882367	20898618	20882367	ID=Msa1239310-mRNA-1;Parent=Msa1239310;Name=Msa1239310-mRNA-1;_AED=0.24;_eAED=0.24;_QI=402\|0.66\|0.85\|1\|0.33\|0.57\|7\|242\|197
chr8_2	exon	20882367	20882746	20882367	ID=Msa1239310-mRNA-1:exon:7546;Parent=Msa1239310-mRNA-1
chr8_2	exon	20883195	20883398	20883195	ID=Msa1239310-mRNA-1:exon:7547;Parent=Msa1239310-mRNA-1
chr8_2	exon	20888576	20888660	20888576	ID=Msa1239310-mRNA-1:exon:7548;Parent=Msa1239310-mRNA-1
chr8_2	exon	20896430	20896491	20896430	ID=Msa1239310-mRNA-1:exon:7549;Parent=Msa1239310-mRNA-1
chr8_2	exon	20896564	20896624	20896564	ID=Msa1239310-mRNA-1:exon:7550;Parent=Msa1239310-mRNA-1
chr8_2	exon	20897880	20897921	20897880	ID=Msa1239310-mRNA-1:exon:7551;Parent=Msa1239310-mRNA-1
chr8_2	exon	20898215	20898618	20898215	ID=Msa1239310-mRNA-1:exon:7552;Parent=Msa1239310-mRNA-1
chr8_2	five_prime_UTR	20882367	20882746	20882367	ID=Msa1239310-mRNA-1:five_prime_utr;Parent=Msa1239310-mRNA-1
chr8_2	five_prime_UTR	20883195	20883216	20883195	ID=Msa1239310-mRNA-1:five_prime_utr;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20883217	20883398	20883217	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20888576	20888660	20888576	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20896430	20896491	20896430	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20896564	20896624	20896564	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20897880	20897921	20897880	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	CDS	20898215	20898376	20898215	ID=Msa1239310-mRNA-1:cds;Parent=Msa1239310-mRNA-1
chr8_2	three_prime_UTR	20898377	20898618	20898377	ID=Msa1239310-mRNA-1:three_prime_utr;Parent=Msa1239310-mRNA-1

Gene Sequence

>Msa1239310

ATGGTGAGAGGAAAGACACAAATGAAGCGTATAGAGAACGCAACAAGTAGACAAGTAACATTCTCAAAGAGGAGAAATGGTTTGTTGAAGAAGGCCTTTGAGTTATCAGTGTTGTGTGATGCTGAGGTTGCTCTTATTGTTTTCTCACCAAGAGGGAGGCTTTATGAATTTGCTAGCTCTAGCATTCCAGAAACGATTGAACGATACCGCAATCATACCAGGATTAATAGCACTCCAACACCATCTGAATCAGTTGAAAATACTCAGCAATTGAAGGAAGAAGCAGAAAACATGATGAAAAAGATTGACCTTCTTGAGACTTCAAAACGAACAGACTATGTTGCATTTGTAATTTCATACCCTCAGGAAACTCTTAGGAGAAGGTCTAGGGAAAAAACCCTAGTTGCTGAAAATGCCATGCTCACGGAGAAGTATGGTAACTATTCATCACAGGAAGAAACAAAGGATCAGAGAGAAAATATAGCTGAAGCTGAACCTTATGCAGATCAAAGCAGTCCAAGTTCAGATGTGGAAACTGAATTGTTCATTGGTCCTCCAGAAACAAGAACAAGACGCATTTCTCCAAAGGTGTAG

Protein sequence

>Msa1239310

MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFASSSIPETIERYRNHTRINSTPTPSESVENTQQLKEEAENMMKKIDLLETSKRTDYVAFVISYPQETLRRRSREKTLVAENAMLTEKYGNYSSQEETKDQRENIAEAEPYADQSSPSSDVETELFIGPPETRTRRISPKV*