AlfalfaGEDB | Msa0334960

M. sativa cultivar zhongmu-4 / Msa0334960

KEGG: -
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
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
Msa0334960	XP_003596613.1	98.696	230	2	1	1	229	1	230	3.78e-164	462

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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
Msa0334960	sp\|Q9FH37\|ILR3_ARATH	69.787	235	64	5	1	229	1	234	2.23e-107	311

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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
No data available in table

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TFs/TRs:

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Gene ID	Type	Classification
Msa0334960	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
Msa0217490	Msa0334960	0.924930	3.642181e-90	-8.615850e-47
Msa0334960	Msa0622480	0.801580	8.419869e-49	-8.615850e-47
Msa0334960	Msa1067980	0.812307	4.528421e-51	-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
Msa0334960	MtrunA17_Chr2g0319301	98.696	230	2	1	1	229	1	230	3.47e-168	462
Msa0334960	MtrunA17_Chr4g0042041	78.571	238	41	4	1	229	1	237	2.13e-125	354
Msa0334960	MtrunA17_Chr2g0323031	50.195	257	84	8	9	229	12	260	9.91e-73	222
Msa0334960	MtrunA17_Chr1g0167821	52.273	176	80	1	54	229	75	246	4.86e-58	184
Msa0334960	MtrunA17_Chr4g0038511	51.515	99	47	1	69	167	6	103	3.85e-23	94.4
Msa0334960	MtrunA17_Chr1g0161461	36.806	144	78	3	32	167	36	174	1.55e-19	85.9
Msa0334960	MtrunA17_Chr4g0060591	33.898	118	74	2	51	168	13	126	2.12e-13	67.0

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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
Msa0334960	AT5G54680.1	69.787	235	64	5	1	229	1	234	2.27e-108	311
Msa0334960	AT1G51070.1	62.343	239	67	6	1	229	1	226	6.23e-95	277
Msa0334960	AT1G51070.2	65.829	199	57	4	36	229	100	292	3.20e-84	252
Msa0334960	AT4G14410.2	52.041	196	77	6	37	229	96	277	2.87e-55	178
Msa0334960	AT4G14410.3	52.041	196	77	6	37	229	96	277	2.87e-55	178
Msa0334960	AT4G14410.1	52.041	196	77	6	37	229	102	283	3.25e-55	178
Msa0334960	AT3G23210.2	52.261	199	87	5	35	229	97	291	5.16e-55	178
Msa0334960	AT3G23210.1	52.261	199	87	5	35	229	126	320	1.42e-54	177
Msa0334960	AT3G19860.1	45.299	117	59	2	66	178	2	117	1.27e-22	93.6
Msa0334960	AT3G19860.3	45.299	117	59	2	66	178	33	148	2.31e-22	93.6

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Find 93 sgRNAs with CRISPR-Local

Find 205 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATCTCATTTCTTCACCGC+CGG	0.486690	2_4:-54056801	Msa0334960:five_prime_UTR
AACTAAAAGGAAAGAGTGTA+TGG	0.377933	2_4:+54054640	None:intergenic
AACTTCGTGATGAGAAGCAG+AGG	0.627738	2_4:-54054950	Msa0334960:CDS
AAGAACCTGGTTCGAAGAAG+AGG	0.561194	2_4:-54055793	Msa0334960:intron
AAGGAGCCATCGACAGAAAC+AGG	0.397378	2_4:+54056684	None:intergenic
AAGGCCACCTAAAACAGACA+AGG	0.714338	2_4:-54055268	Msa0334960:CDS
AAGTTGAAAGACTCAAATTC+AGG	0.412450	2_4:-54055189	Msa0334960:CDS
AATCTCATTTCTTCACCGCC+GGG	0.536866	2_4:-54056800	Msa0334960:five_prime_UTR
AATGCAGCAGGGATTGCAGG+AGG	0.644570	2_4:+54054855	None:intergenic
AATGGATGATAGCTCTCTAG+TGG	0.589069	2_4:-54055831	Msa0334960:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CAGGAATTTCATCAATCAAA+GGG	+	chr2_4:54054657-54054676	None:intergenic	30.0%
ACAGGAATTTCATCAATCAA+AGG	+	chr2_4:54054658-54054677	None:intergenic	30.0%
TTTGTAGTAGAACTTGAACT+AGG	-	chr2_4:54054949-54054968	Msa0334960:CDS	30.0%
AATTGATATGTGTTAAACGC+TGG	-	chr2_4:54055197-54055216	Msa0334960:CDS	30.0%
AAACCTAAAATCCAAGGTAA+AGG	+	chr2_4:54055399-54055418	None:intergenic	30.0%
AAACCAAAACCTAAAATCCA+AGG	+	chr2_4:54055405-54055424	None:intergenic	30.0%
CTATCATCCATTTCAATACT+AGG	+	chr2_4:54055518-54055537	None:intergenic	30.0%
GTCAAATTGGCAATTTAACA+TGG	-	chr2_4:54055719-54055738	Msa0334960:intron	30.0%
TAATAAAAGGCAAGATAGTG+GGG	+	chr2_4:54055962-54055981	None:intergenic	30.0%
AAGAGGAGAGGAATAATAAA+AGG	+	chr2_4:54055975-54055994	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	54054342	54057037	54054342	ID=Msa0334960;Name=Msa0334960
chr2_4	mRNA	54054342	54057037	54054342	ID=Msa0334960-mRNA-1;Parent=Msa0334960;Name=Msa0334960-mRNA-1;_AED=0.05;_eAED=0.05;_QI=274\|1\|1\|1\|1\|1\|5\|380\|229
chr2_4	exon	54054342	54054985	54054342	ID=Msa0334960-mRNA-1:exon:16289;Parent=Msa0334960-mRNA-1
chr2_4	exon	54055161	54055323	54055161	ID=Msa0334960-mRNA-1:exon:16288;Parent=Msa0334960-mRNA-1
chr2_4	exon	54055426	54055503	54055426	ID=Msa0334960-mRNA-1:exon:16287;Parent=Msa0334960-mRNA-1
chr2_4	exon	54055794	54055859	54055794	ID=Msa0334960-mRNA-1:exon:16286;Parent=Msa0334960-mRNA-1
chr2_4	exon	54056645	54057037	54056645	ID=Msa0334960-mRNA-1:exon:16285;Parent=Msa0334960-mRNA-1
chr2_4	five_prime_UTR	54056764	54057037	54056764	ID=Msa0334960-mRNA-1:five_prime_utr;Parent=Msa0334960-mRNA-1
chr2_4	CDS	54056645	54056763	54056645	ID=Msa0334960-mRNA-1:cds;Parent=Msa0334960-mRNA-1
chr2_4	CDS	54055794	54055859	54055794	ID=Msa0334960-mRNA-1:cds;Parent=Msa0334960-mRNA-1
chr2_4	CDS	54055426	54055503	54055426	ID=Msa0334960-mRNA-1:cds;Parent=Msa0334960-mRNA-1
chr2_4	CDS	54055161	54055323	54055161	ID=Msa0334960-mRNA-1:cds;Parent=Msa0334960-mRNA-1
chr2_4	CDS	54054722	54054985	54054722	ID=Msa0334960-mRNA-1:cds;Parent=Msa0334960-mRNA-1
chr2_4	three_prime_UTR	54054342	54054721	54054342	ID=Msa0334960-mRNA-1:three_prime_utr;Parent=Msa0334960-mRNA-1

Gene Sequence

>Msa0334960

ATGGTTTCCCCGGAAAACACCAATTGGCTTTTCGATTACCCTTTGATTGATGAAATTCCTGTTTCTGTCGATGGCTCCTTCGCCTTCACGTGGCCCCCACCTCAACTCTCCAATGGCGGTATTGAAATGGATGATAGCTCTCTAGTGGATTCTGATGGTATCAAAGAACCTGGTTCGAAGAAGAGAGGTAGATCGGATTCATGTGCTCCTTCCAGCTCTAAGGCATGTCGAGAGAAGTTGCGGAGGGATAGGCTGAACGACAAGTTTGTTGAATTAGGCTCCATCTTGGAGCCTGGAAGGCCACCTAAAACAGACAAGGCAGCAATTCTGATTGATGCTGTCCGAATGGTGACACAGTTGCGGGGTGAAGCCCAAAAGTTGAAAGACTCAAATTCAGGTCTTCAAGAGAAGATTAAAGAGTTAAAGGTTGAGAAGAATGAACTTCGTGATGAGAAGCAGAGGCTTAAGGCTGAGAAGGAGAAGTTGGAGCAGCAGGTGAAATCAATGAACACCCAACCCAGTTTCTTGACACACCCTCCTGCAATCCCTGCTGCATTTGCTCATCAAGGCCAAGCCCCAAACAAGTTAATGCCTTTCATGAGTTATCCAGGAGTTGCCATGTGGCAATTCATGCCACCAGCCGCCGTGGATACCTCACAAGATCATGTACTCCGTCCACCAGTTGCCTAA

Protein sequence

>Msa0334960

MVSPENTNWLFDYPLIDEIPVSVDGSFAFTWPPPQLSNGGIEMDDSSLVDSDGIKEPGSKKRGRSDSCAPSSSKACREKLRRDRLNDKFVELGSILEPGRPPKTDKAAILIDAVRMVTQLRGEAQKLKDSNSGLQEKIKELKVEKNELRDEKQRLKAEKEKLEQQVKSMNTQPSFLTHPPAIPAAFAHQGQAPNKLMPFMSYPGVAMWQFMPPAAVDTSQDHVLRPPVA*