AlfalfaGEDB | Msa0035400

M. sativa cultivar zhongmu-4 / Msa0035400

KEGG: -
GO: GO:0000272 GO:0001871 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005975 GO:0005976 GO:0005982 GO:0005983 GO:0006073 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009251 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016052 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019203 GO:0030246 GO:0030247 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044042 GO:0044237 GO:0044238 GO:0044247 GO:0044248 GO:0044260 GO:0044262 GO:0044264 GO:0044275 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0071704 GO:0097367 GO:1901575 GO:2001066
PFAM: PF00782.23

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
Msa0035400	sp\|G4LTX4\|DSP4_CASSA	63.918	388	98	6	1	360	1	374	9.93e-170	480

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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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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0000290	Msa0035400	0.821319	4.302173e-53	-8.615850e-47
Msa0014410	Msa0035400	0.829624	4.639232e-55	-8.615850e-47
Msa0018470	Msa0035400	0.804757	1.853496e-49	-8.615850e-47
Msa0035290	Msa0035400	0.925720	1.251613e-90	-8.615850e-47
Msa0035400	Msa0064550	0.831803	1.357283e-55	-8.615850e-47
Msa0035400	Msa0067150	0.813759	2.175597e-51	-8.615850e-47
Msa0035400	Msa0109490	0.832997	6.866437e-56	-8.615850e-47
Msa0035400	Msa0129360	0.898512	4.935988e-77	-8.615850e-47
Msa0035400	Msa0154200	0.801059	1.076406e-48	-8.615850e-47
Msa0035400	Msa0154270	0.820454	6.800576e-53	-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
Msa0035400	MtrunA17_Chr1g0197631	88.402	388	15	3	1	361	1	385	0.0	676
Msa0035400	MtrunA17_Chr3g0129011	42.781	187	75	3	71	230	66	247	5.08e-35	129
Msa0035400	MtrunA17_Chr7g0228091	30.182	275	147	10	97	333	328	595	9.01e-26	108

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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
Msa0035400	AT3G52180.1	55.643	381	133	3	1	354	1	372	1.17e-139	402
Msa0035400	AT3G52180.4	61.511	278	80	1	105	355	1	278	1.38e-123	357
Msa0035400	AT3G52180.3	57.439	289	87	3	1	262	1	280	6.94e-100	297
Msa0035400	AT3G52180.2	57.439	289	87	3	1	262	1	280	1.20e-99	297
Msa0035400	AT3G10940.1	38.462	195	91	3	63	230	51	243	8.17e-34	127
Msa0035400	AT3G01510.3	30.337	267	140	8	97	324	140	399	8.10e-28	113
Msa0035400	AT3G01510.2	30.337	267	140	8	97	324	140	399	8.10e-28	113
Msa0035400	AT3G01510.1	30.337	267	140	8	97	324	282	541	1.64e-27	114
Msa0035400	AT3G52526.3	52.326	86	27	2	96	179	21	94	9.90e-20	83.6

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Find 111 sgRNAs with CRISPR-Local

Find 361 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAGAATAATAGAGTTTC+TGG	0.199837	1_1:-63578348	Msa0035400:CDS
AAGAGACATACCGCAACAGC+TGG	0.503978	1_1:+63581832	None:intergenic
AAGATATTGTGGTGGCGAGC+AGG	0.477727	1_1:+63584539	None:intergenic
AAGCCTGTCACTTTGTCGTG+GGG	0.672587	1_1:-63579942	Msa0035400:CDS
AAGGAAGAAAGATATTGTGG+TGG	0.657505	1_1:+63584531	None:intergenic
AAGGCAATTAATTCTAATGG+AGG	0.612848	1_1:-63581895	Msa0035400:CDS
AAGGTCATGCTGTCCAAAGC+TGG	0.475543	1_1:-63580457	Msa0035400:CDS
AAGTAGCTCTGATGTCGAGG+AGG	0.659228	1_1:-63583352	Msa0035400:CDS
AAGTGACAGGCTTCTTACTA+AGG	0.492229	1_1:+63579952	None:intergenic
AATAAATAGACTCACAATAT+CGG	0.395842	1_1:+63580413	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TCATAGAGAATAACAAACCT+GGG	+	chr1_1:63578142-63578161	None:intergenic	30.0%
ATCATAGAGAATAACAAACC+TGG	+	chr1_1:63578143-63578162	None:intergenic	30.0%
AAAGAATTACTAAGCAGCAA+TGG	+	chr1_1:63578184-63578203	None:intergenic	30.0%
ATGAAGGAAGAAAGATATTG+TGG	+	chr1_1:63578278-63578297	None:intergenic	30.0%
AAAGAAGAAGAAGAAGATGA+AGG	+	chr1_1:63578294-63578313	None:intergenic	30.0%
AACCTATGTATGTGTATTGA+AGG	-	chr1_1:63579035-63579054	Msa0035400:intron	30.0%
ATCCTTCAATACACATACAT+AGG	+	chr1_1:63579040-63579059	None:intergenic	30.0%
GACTGTCCAATCTAAATAAA+TGG	+	chr1_1:63579157-63579176	None:intergenic	30.0%
ATTGAGTGATGTAATTCTGT+AGG	-	chr1_1:63579187-63579206	Msa0035400:intron	30.0%
TTAGCAATCAATGATGTTGA+TGG	-	chr1_1:63579212-63579231	Msa0035400:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	63577999	63584826	63577999	ID=Msa0035400;Name=Msa0035400
chr1_1	mRNA	63577999	63584826	63577999	ID=Msa0035400-mRNA-1;Parent=Msa0035400;Name=Msa0035400-mRNA-1;_AED=0.10;_eAED=0.10;_QI=113\|0.91\|1\|1\|1\|1\|13\|323\|361
chr1_1	exon	63577999	63578453	63577999	ID=Msa0035400-mRNA-1:exon:20259;Parent=Msa0035400-mRNA-1
chr1_1	exon	63578722	63578829	63578722	ID=Msa0035400-mRNA-1:exon:20258;Parent=Msa0035400-mRNA-1
chr1_1	exon	63579454	63579513	63579454	ID=Msa0035400-mRNA-1:exon:20257;Parent=Msa0035400-mRNA-1
chr1_1	exon	63579887	63579982	63579887	ID=Msa0035400-mRNA-1:exon:20256;Parent=Msa0035400-mRNA-1
chr1_1	exon	63580428	63580484	63580428	ID=Msa0035400-mRNA-1:exon:20255;Parent=Msa0035400-mRNA-1
chr1_1	exon	63580981	63581040	63580981	ID=Msa0035400-mRNA-1:exon:20254;Parent=Msa0035400-mRNA-1
chr1_1	exon	63581843	63581975	63581843	ID=Msa0035400-mRNA-1:exon:20253;Parent=Msa0035400-mRNA-1
chr1_1	exon	63582563	63582639	63582563	ID=Msa0035400-mRNA-1:exon:20252;Parent=Msa0035400-mRNA-1
chr1_1	exon	63582736	63582812	63582736	ID=Msa0035400-mRNA-1:exon:20251;Parent=Msa0035400-mRNA-1
chr1_1	exon	63583301	63583406	63583301	ID=Msa0035400-mRNA-1:exon:20250;Parent=Msa0035400-mRNA-1
chr1_1	exon	63584351	63584395	63584351	ID=Msa0035400-mRNA-1:exon:20249;Parent=Msa0035400-mRNA-1
chr1_1	exon	63584505	63584607	63584505	ID=Msa0035400-mRNA-1:exon:20248;Parent=Msa0035400-mRNA-1
chr1_1	exon	63584682	63584826	63584682	ID=Msa0035400-mRNA-1:exon:20247;Parent=Msa0035400-mRNA-1
chr1_1	five_prime_UTR	63584714	63584826	63584714	ID=Msa0035400-mRNA-1:five_prime_utr;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63584682	63584713	63584682	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63584505	63584607	63584505	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63584351	63584395	63584351	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63583301	63583406	63583301	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63582736	63582812	63582736	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63582563	63582639	63582563	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63581843	63581975	63581843	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63580981	63581040	63580981	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63580428	63580484	63580428	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63579887	63579982	63579887	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63579454	63579513	63579454	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63578722	63578829	63578722	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	CDS	63578322	63578453	63578322	ID=Msa0035400-mRNA-1:cds;Parent=Msa0035400-mRNA-1
chr1_1	three_prime_UTR	63577999	63578321	63577999	ID=Msa0035400-mRNA-1:three_prime_utr;Parent=Msa0035400-mRNA-1

Gene Sequence

>Msa0035400

ATGAACTGTCTTCAGAATCTGAATCTTCCCAGATCCTCCTCTGTTTTACAATTCCACACACTATCTGCTCCTCCTCTTCCTGCTCGCCACCACAATATCTTTCTTCCTTCATCTTCTTCTTCTTCTTTATCCCTGGGAATCATAACTAAATCTCATCACACTCCAACCATGCTACTTAAGGCTGCTTCTGGTTCTATACCGAGTGCAGAGACAAGTAGCTCTGATGTCGAGGAGGAGGTTAAGTCTGAGATATACAGTAATAACATGACAGAAGCCATGGGTGCTGTTTTGACTTATAGGCATGAATTAGGAATGAACTACAACTTCATCCTTCCGGACTTGATTGTTGGATCATGCCTGCAGACTCCTGAAGACGTTGATAAACTGCGTAAAATCGGAGTGAAAACTATATTTTGCTTGCAACAAAACTCAGATCTAGAGGACTTCGATTCATTTGATCTACGAAAGCGGCTTCCGGCTGTAATTAGCAAATTATATAAGGCAATTAATTCTAATGGAGGTGTGACATATATACATTGCACTGCTGGACTTGGAAGAGCTCCAGCTGTTGCGTTGGCATATATGTTTTGGGTTCAGGGTTATAAACTCAATGAGGCTAATACACTACTTCTGAGCAAAAGGTCATGCTGTCCAAAGCTGGATGCCATAAAAAGTGCAACAGCCGATATTCTTACAGGCCTTAGTAAGAAGCCTGTCACTTTGTCGTGGGGACACCGCAATTGCTCTACGGTGGAAATTTCAGGACTTGATATTGGATGGGGGCAGAGAGTGCCCTTAAATTTCGATGACAAACAGGGTTCATGGTTTCTCAAGAAGGAAATGTTTGAAGGGCGCTACGAGTACAAGTACATTGTTGATGGAGAATGGACATGTAATAACGATGAGCTTGTAACCTCTCCCAATGAAGATGGCCATGTCAATAATTTTATCGAAGTCCTTGATGATGCGGACAGTGGCCGTGCCTCCCTTCGGGAGAGAGTGACTGGTGATGATCCTGATCTCACGAAGGATGAACGAAACAGAATAATAGAGTTTCTGGAAGCTCTTCCCAATGAGGATCTCTGA

Protein sequence

>Msa0035400

MNCLQNLNLPRSSSVLQFHTLSAPPLPARHHNIFLPSSSSSSLSLGIITKSHHTPTMLLKAASGSIPSAETSSSDVEEEVKSEIYSNNMTEAMGAVLTYRHELGMNYNFILPDLIVGSCLQTPEDVDKLRKIGVKTIFCLQQNSDLEDFDSFDLRKRLPAVISKLYKAINSNGGVTYIHCTAGLGRAPAVALAYMFWVQGYKLNEANTLLLSKRSCCPKLDAIKSATADILTGLSKKPVTLSWGHRNCSTVEISGLDIGWGQRVPLNFDDKQGSWFLKKEMFEGRYEYKYIVDGEWTCNNDELVTSPNEDGHVNNFIEVLDDADSGRASLRERVTGDDPDLTKDERNRIIEFLEALPNEDL*