AlfalfaGEDB | Msa0488980

M. sativa cultivar zhongmu-4 / Msa0488980

KEGG: -
GO: GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 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:0044212 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF13912.9

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
Msa0488980	XP_013459206.1	92.937	269	13	1	1	263	1	269	0.0	515

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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
Msa0488980	sp\|Q9M202\|ZAT9_ARATH	27.138	269	146	10	8	254	6	246	3.27e-13	71.2

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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
Msa0488980	A0A072V3Z9	92.937	269	13	1	1	263	1	269	0.0	515

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TFs/TRs:

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Gene ID	Type	Classification
Msa0488980	TF	C2H2

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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
Msa0488980	MtrunA17_Chr3g0079061	85.455	275	28	1	1	263	1	275	3.09e-173	478
Msa0488980	MtrunA17_Chr3g0079131	64.493	276	84	3	1	263	1	275	1.72e-114	330
Msa0488980	MtrunA17_Chr3g0079091	76.836	177	29	1	1	165	1	177	2.02e-83	247
Msa0488980	MtrunA17_Chr4g0018761	29.688	256	154	6	3	255	4	236	3.91e-24	97.4
Msa0488980	MtrunA17_Chr7g0231181	26.471	306	165	10	8	255	6	309	2.16e-14	72.0

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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
Msa0488980	AT3G60580.1	27.138	269	146	10	8	254	6	246	3.33e-14	71.2
Msa0488980	AT1G02030.1	25.692	253	154	8	8	254	7	231	5.50e-12	64.7

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Find 43 sgRNAs with CRISPR-Local

Find 112 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGATTGAGGATTGTTTGT+TGG	0.403304	3_4:-9138419	None:intergenic
AAATGTACCCCGTCAAACTT+TGG	0.446972	3_4:+9138455	Msa0488980:CDS
AACAATCTAGCAGGAGAGAT+TGG	0.456742	3_4:+9138833	Msa0488980:CDS
AAGATTGAGGATTGTTTGTT+GGG	0.385971	3_4:-9138418	None:intergenic
AATTTCACTTTCAAAGATTG+AGG	0.444853	3_4:-9138431	None:intergenic
ACAAATATCACACTCAAACA+CGG	0.640237	3_4:-9138750	None:intergenic
ACAATCAGCGTATAGTGATT+TGG	0.373049	3_4:+9138622	Msa0488980:CDS
ACCTGAATACTCAGCTGAGT+TGG	0.539000	3_4:+9138334	Msa0488980:CDS
AGAGAATACACAATTTAACA+TGG	0.696888	3_4:+9138571	Msa0488980:CDS
AGGAAAACTAACAATCTAGC+AGG	0.531732	3_4:+9138824	Msa0488980:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGATTGAGGATTGTTTGTT+GGG	-	chr3_4:9138421-9138440	None:intergenic	30.0%
AAAGATTGAGGATTGTTTGT+TGG	-	chr3_4:9138422-9138441	None:intergenic	30.0%
TTATTCCTACCAAAGTTTGA+CGG	-	chr3_4:9138467-9138486	None:intergenic	30.0%
GAATGAATGGAAACAAATTG+AGG	+	chr3_4:9138682-9138701	Msa0488980:CDS	30.0%
ACAAATATCACACTCAAACA+CGG	-	chr3_4:9138753-9138772	None:intergenic	30.0%
AAGATTGAGGATTGTTTGTT+GGG	-	chr3_4:9138421-9138440	None:intergenic	30.0%
AAAGATTGAGGATTGTTTGT+TGG	-	chr3_4:9138422-9138441	None:intergenic	30.0%
TTATTCCTACCAAAGTTTGA+CGG	-	chr3_4:9138467-9138486	None:intergenic	30.0%
GAATGAATGGAAACAAATTG+AGG	+	chr3_4:9138682-9138701	Msa0488980:CDS	30.0%
ACAAATATCACACTCAAACA+CGG	-	chr3_4:9138753-9138772	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	9138203	9138994	9138203	ID=Msa0488980;Name=Msa0488980
chr3_4	mRNA	9138203	9138994	9138203	ID=Msa0488980-mRNA-1;Parent=Msa0488980;Name=Msa0488980-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|263
chr3_4	exon	9138203	9138994	9138203	ID=Msa0488980-mRNA-1:exon:3000;Parent=Msa0488980-mRNA-1
chr3_4	CDS	9138203	9138994	9138203	ID=Msa0488980-mRNA-1:cds;Parent=Msa0488980-mRNA-1

Gene Sequence

>Msa0488980

ATGGAGAACAATGGTAGAGTGTGTCTCATTTGTAACAGGTCATTTTCCAATGGAAAAGCTTTGGGAGGACATATGAAATCCCACTATGCCAAACTACCAATCCATCCAAAACCCCCAATCAACAACCAAGTACCTGAATACTCAGCTGAGTTGGCCAAACATCCAACTCACTCTATCTCTACATCTTCACCATCAATTGTTAATCCAAGAAATAACCCAACAAACAATCCTCAATCTTTGAAAGTGAAATTCAAATGTACCCCGTCAAACTTTGGTAGGAATAATGTGTTTCAGTCTTATCCAACAAACCCAACTGGAAAAAGATCAAAACGCAAACCAAGACAGTTTCATATGGCTGAAGAAAGAGAAGAGAATACACAATTTAACATGGCTGAAGAAAAAGAAGATAATACACAATTACAATCAGCGTATAGTGATTTGGATATAGAAGCTGCTGAAACACTAGGTGTTATTCTTAAGAATGAATGGAAACAAATTGAGGACAAATACTACACTGAGAAGAAAAAAGCAAGTGAAAATGGAAACACCGTGTTTGAGTGTGATATTTGTCATGAAGTGTTTCAATCTGGCAAAGATCTTTTTGGACATGAAGAGATCCATAGGAAAACTAACAATCTAGCAGGAGAGATTGGTAGAAGTGGAAACATATATGATGTCGTAAATGAAAAAGTGCATAAGTGCGAATATTGCTTTGACATCTTTGAATCTGGTCATGTATTGGAGGAACACATGAAGGTACACCTATACAATTATTATGATTCTGACCCATAG

Protein sequence

>Msa0488980

MENNGRVCLICNRSFSNGKALGGHMKSHYAKLPIHPKPPINNQVPEYSAELAKHPTHSISTSSPSIVNPRNNPTNNPQSLKVKFKCTPSNFGRNNVFQSYPTNPTGKRSKRKPRQFHMAEEREENTQFNMAEEKEDNTQLQSAYSDLDIEAAETLGVILKNEWKQIEDKYYTEKKKASENGNTVFECDICHEVFQSGKDLFGHEEIHRKTNNLAGEIGRSGNIYDVVNEKVHKCEYCFDIFESGHVLEEHMKVHLYNYYDSDP*