AlfalfaGEDB | Msa0012440

M. sativa cultivar zhongmu-4 / Msa0012440

KEGG: -
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005794 GO:0005802 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0012505 GO:0031410 GO:0031982 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0097708 GO:0098791
PFAM: PF03181.18

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
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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
Msa0012440	sp\|Q08298\|RD22_ARATH	35.401	274	104	7	15	220	7	275	1.57e-41	148

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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
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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0003040	Msa0012440	0.806125	9.572612e-50	-8.615850e-47
Msa0005050	Msa0012440	0.817325	3.496532e-52	-8.615850e-47
Msa0011720	Msa0012440	0.859889	3.026292e-63	-8.615850e-47
Msa0012440	Msa0023170	0.815868	7.416148e-52	-8.615850e-47
Msa0012440	Msa0024680	0.803660	3.135784e-49	-8.615850e-47
Msa0012440	Msa0032370	0.817014	4.107177e-52	-8.615850e-47
Msa0012440	Msa0036430	0.848875	4.637274e-60	-8.615850e-47
Msa0012440	Msa0044020	0.822761	1.992220e-53	-8.615850e-47
Msa0012440	Msa0050040	0.811443	6.983811e-51	-8.615850e-47
Msa0012440	Msa0050430	0.817323	3.500024e-52	-8.615850e-47

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PPI

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Gene1	Gene2	Type
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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
Msa0012440	MtrunA17_Chr1g0146631	92.381	210	16	0	11	220	1	210	5.07e-144	405
Msa0012440	MtrunA17_Chr1g0147331	92.857	210	15	0	11	220	1	210	1.02e-133	379
Msa0012440	MtrunA17_Chr1g0147311	69.231	221	56	5	6	218	22	238	2.19e-98	290
Msa0012440	MtrunA17_Chr1g0147271	54.613	271	56	6	11	218	1	267	2.45e-83	253
Msa0012440	MtrunA17_Chr3g0139431	57.477	214	84	4	11	224	1	207	1.23e-79	241
Msa0012440	MtrunA17_Chr1g0147261	57.416	209	63	4	11	218	1	184	1.43e-70	218
Msa0012440	MtrunA17_Chr1g0147241	55.502	209	80	4	11	218	1	197	2.46e-67	209
Msa0012440	MtrunA17_Chr1g0147301	63.158	171	54	5	53	218	1	167	7.54e-63	197
Msa0012440	MtrunA17_Chr1g0147291	70.199	151	39	4	71	218	2	149	1.98e-62	196
Msa0012440	MtrunA17_Chr1g0147321	73.874	111	27	1	108	218	12	120	1.28e-50	165

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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
Msa0012440	AT5G25610.1	35.401	274	104	7	15	220	7	275	1.60e-42	148
Msa0012440	AT1G49320.1	36.364	99	62	1	116	213	51	149	2.33e-15	73.6
Msa0012440	AT1G60390.1	38.776	98	60	0	123	220	409	506	1.37e-12	67.0

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Find 71 sgRNAs with CRISPR-Local

Find 258 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATCAAGAAAGGGTCAAA+GGG	0.531552	1_1:-18624316	Msa0012440:CDS
AAACAACATGATCCTCAGGC+AGG	0.608017	1_1:+18623862	None:intergenic
AAAGCTTTGTGTAACATCAT+TGG	0.398015	1_1:-18624233	Msa0012440:CDS
AAAGGAACTTGGGTGGATGT+AGG	0.554611	1_1:-18624634	Msa0012440:CDS
AAATGTAGCACTCTTCTTTC+TGG	0.227762	1_1:-18624479	Msa0012440:CDS
AACAAGATGAAAATCCATAT+TGG	0.372048	1_1:+18625483	None:intergenic
AACTTGGCGCGGCAAGAATG+TGG	0.603165	1_1:+18624393	None:intergenic
AACTTGGGTGGATGTAGGCA+AGG	0.557293	1_1:-18624629	Msa0012440:CDS
AAGGGATACTATGAAGGAGG+TGG	0.599632	1_1:-18624583	Msa0012440:CDS
AAGTACTCAAAGTTCAACCT+GGG	0.622856	1_1:-18623905	Msa0012440:three_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTTGGATTGATAAATTGGGT+TGG	+	chr1_1:18623614-18623633	None:intergenic	30.0%
AAAAAGGACAATCAAGAATG+TGG	-	chr1_1:18624445-18624464	Msa0012440:CDS	30.0%
AAAAGGACAATCAAGAATGT+GGG	-	chr1_1:18624446-18624465	Msa0012440:CDS	30.0%
ATTAACAAACACAAGAAACC+AGG	+	chr1_1:18625026-18625045	None:intergenic	30.0%
TAATAAAAAGAGCGGAAAGA+TGG	-	chr1_1:18625391-18625410	Msa0012440:intron	30.0%
TAATTTACTAGCGAAAAGAC+GGG	+	chr1_1:18625428-18625447	None:intergenic	30.0%
AAAACAATGGAGAGAGAAAA+AGG	+	chr1_1:18625998-18626017	None:intergenic	30.0%
TCAACAAAGTTGTCATCAAA+TGG	-	chr1_1:18626049-18626068	Msa0012440:intron	30.0%
GTGTAGTTTGGTTAAACATA+TGG	+	chr1_1:18626214-18626233	None:intergenic	30.0%
GGGAAGTTGAATTAATAAGT+TGG	-	chr1_1:18626265-18626284	Msa0012440:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	18623590	18628358	18623590	ID=Msa0012440;Name=Msa0012440
chr1_1	mRNA	18623590	18628358	18623590	ID=Msa0012440-mRNA-1;Parent=Msa0012440;Name=Msa0012440-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0\|0.5\|0.4\|0.6\|1\|1\|5\|578\|228
chr1_1	exon	18623590	18624676	18623590	ID=Msa0012440-mRNA-1:exon:6903;Parent=Msa0012440-mRNA-1
chr1_1	exon	18625252	18625360	18625252	ID=Msa0012440-mRNA-1:exon:6902;Parent=Msa0012440-mRNA-1
chr1_1	exon	18625462	18625515	18625462	ID=Msa0012440-mRNA-1:exon:6901;Parent=Msa0012440-mRNA-1
chr1_1	exon	18628279	18628286	18628279	ID=Msa0012440-mRNA-1:exon:6900;Parent=Msa0012440-mRNA-1
chr1_1	exon	18628352	18628358	18628352	ID=Msa0012440-mRNA-1:exon:6899;Parent=Msa0012440-mRNA-1
chr1_1	CDS	18628352	18628358	18628352	ID=Msa0012440-mRNA-1:cds;Parent=Msa0012440-mRNA-1
chr1_1	CDS	18628279	18628286	18628279	ID=Msa0012440-mRNA-1:cds;Parent=Msa0012440-mRNA-1
chr1_1	CDS	18625462	18625515	18625462	ID=Msa0012440-mRNA-1:cds;Parent=Msa0012440-mRNA-1
chr1_1	CDS	18625252	18625360	18625252	ID=Msa0012440-mRNA-1:cds;Parent=Msa0012440-mRNA-1
chr1_1	CDS	18624168	18624676	18624168	ID=Msa0012440-mRNA-1:cds;Parent=Msa0012440-mRNA-1
chr1_1	three_prime_UTR	18623590	18624167	18623590	ID=Msa0012440-mRNA-1:three_prime_utr;Parent=Msa0012440-mRNA-1

Gene Sequence

>Msa0012440

ATGCATGCATCTCTACTTCACTTATCCAATATGGATTTTCATCTTGTTCCCATCATTACTTTTTTCATGCTTGTGGTAGTGGCAACTAATGCTGCAATCTTACCTCCTCAACTTTACTGGAAGTCCATGCTTCCCACCTCTTCAATGCCAAAAGCCATCACTAATCTGCTACACCCTGCTGGATATTGGAGTGAAGAGAAAGGAACTTGGGTGGATGTAGGCAAGGGTGGTGTAGATGTTGGAGTCAGAAAGGGATACTATGAAGGAGGTGGCTCTGATGTGAATGTTGGAGTTGGACGTTCTCCATTTATTTATAATTATGCTGCAAGTGAGACTCAGTTACATGATAAACCAAATGTAGCACTCTTCTTTCTGGAAAAGGACTTGCATCATGGAACAAAACTGAACTTGCAATTCACTAAGATCACTTCAAATGCAGCCACATTCTTGCCGCGCCAAGTTGCTAATTCAATACCCTTTTCATCAAACAAGGTGGAATACATAATCAACAAGTTAAAAATCAAGAAAGGGTCAAAGGGTGCTCAGATTGTGAAGAACACCGTCAGTGAGTGTGAAGAGCAAGGGATCAAAGGAGAGGAAAAGCTTTGTGTAACATCATTGGAGTCTATGGTTGATTTCACTACTTCAAAGCTTGAAAAAATGTTGAGGCTGTTTCAACAGAAGTGA

Protein sequence

>Msa0012440

MHASLLHLSNMDFHLVPIITFFMLVVVATNAAILPPQLYWKSMLPTSSMPKAITNLLHPAGYWSEEKGTWVDVGKGGVDVGVRKGYYEGGGSDVNVGVGRSPFIYNYAASETQLHDKPNVALFFLEKDLHHGTKLNLQFTKITSNAATFLPRQVANSIPFSSNKVEYIINKLKIKKGSKGAQIVKNTVSECEEQGIKGEEKLCVTSLESMVDFTTSKLEKMLRLFQQK*