AlfalfaGEDB | Msa0289370

M. sativa cultivar zhongmu-4 / Msa0289370

KEGG: -
GO: -
PFAM: PF04640.17

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
Msa0289370	KEH38906.1	65.992	247	73	2	5	245	1	242	7.09e-105	313

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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
Msa0289370	sp\|Q1G3Q4\|RITF1_ARATH	38.060	134	72	5	9	142	8	130	7.53e-19	85.9

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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
Msa0289370	TF	PLATZ

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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
Msa0289370	MtrunA17_Chr2g0320561	68.145	248	68	2	4	245	1	243	9.69e-107	308
Msa0289370	MtrunA17_Chr4g0020811	94.483	145	8	0	2	146	1	145	1.85e-102	294
Msa0289370	MtrunA17_Chr2g0308401	94.406	143	8	0	4	146	1	143	1.08e-100	289
Msa0289370	MtrunA17_Chr2g0320521	64.000	250	66	4	2	245	1	232	1.61e-98	287
Msa0289370	MtrunA17_Chr2g0320551	70.323	155	41	1	4	153	1	155	4.66e-75	225
Msa0289370	MtrunA17_Chr1g0179781	39.200	250	96	8	2	244	1	201	3.94e-46	152
Msa0289370	MtrunA17_Chr5g0395181	37.131	237	98	6	8	244	22	207	1.61e-43	146
Msa0289370	MtrunA17_Chr5g0411151	35.772	246	108	7	3	244	31	230	4.41e-43	145
Msa0289370	MtrunA17_Chr4g0040071	36.555	238	105	7	8	244	16	208	3.65e-42	142
Msa0289370	MtrunA17_Chr7g0265291	38.645	251	98	10	1	244	1	202	7.66e-42	141

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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
Msa0289370	AT1G43000.2	39.669	242	116	6	3	244	12	223	6.76e-49	160
Msa0289370	AT1G43000.1	39.669	242	116	6	3	244	5	216	8.68e-49	160
Msa0289370	AT1G21000.2	38.492	252	128	9	3	244	9	243	7.37e-44	148
Msa0289370	AT1G21000.1	38.492	252	128	9	3	244	12	246	8.26e-44	148
Msa0289370	AT1G32700.1	36.864	236	106	5	9	244	14	206	1.18e-40	139
Msa0289370	AT4G17900.1	50.360	139	58	4	8	145	35	163	1.65e-40	139
Msa0289370	AT4G17900.2	50.360	139	58	4	8	145	21	149	3.66e-40	138
Msa0289370	AT1G76590.1	35.628	247	129	9	8	244	19	245	5.36e-40	138
Msa0289370	AT2G27930.1	47.857	140	67	3	9	145	6	142	2.48e-35	124
Msa0289370	AT2G27930.4	47.857	140	67	3	9	145	6	142	2.48e-35	124

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Find 31 sgRNAs with CRISPR-Local

Find 150 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACGAAAACAAGGAGAAGC+AGG	0.534783	2_3:+35570240	Msa0289370:CDS
AACATGCTTGTAAATTTCAG+TGG	0.588826	2_3:-35569278	None:intergenic
AAGAAAAGGAATACCTTATA+GGG	0.333491	2_3:+35570398	Msa0289370:CDS
AAGTCCAATTCAAGAAGAAA+AGG	0.488785	2_3:+35570384	Msa0289370:CDS
AAGTTCTGCCTCGATTGCAA+TGG	0.617127	2_3:+35569006	Msa0289370:CDS
AATCTTGTACCTCTTAGGTT+GGG	0.514191	2_3:-35569371	None:intergenic
AATTGATGAAGAAAATGAAG+AGG	0.587208	2_3:+35570263	Msa0289370:CDS
AGGATATGATGTTGGTACCC+TGG	0.557529	2_3:+35568905	Msa0289370:intron
AGGTACAAGATTGGTAAAAT+TGG	0.400779	2_3:+35569382	Msa0289370:CDS
AGTAGAGCTATTGATCACGT+AGG	0.696424	2_3:-35569320	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTTATGCAAGATCCACATAA+TGG	-	chr2_3:35569036-35569055	None:intergenic	30.0%
CAAACTAAACAACACTTACT+TGG	-	chr2_3:35569086-35569105	None:intergenic	30.0%
AACATGCTTGTAAATTTCAG+TGG	-	chr2_3:35569281-35569300	None:intergenic	30.0%
AGGTACAAGATTGGTAAAAT+TGG	+	chr2_3:35569382-35569401	Msa0289370:CDS	30.0%
GAAAAAAAGAAGTGAGATTG+AGG	-	chr2_3:35569499-35569518	None:intergenic	30.0%
CAAACATTGGAGGAAAATAA+TGG	+	chr2_3:35569963-35569982	Msa0289370:intron	30.0%
GAATATATAAAAAAGGAGGG+AGG	+	chr2_3:35570108-35570127	Msa0289370:intron	30.0%
TTGATGAAGAAAATGAAGAG+GGG	+	chr2_3:35570265-35570284	Msa0289370:CDS	30.0%
AAGGAAGAAGAAAAAGAAGA+AGG	+	chr2_3:35570306-35570325	Msa0289370:CDS	30.0%
AAGTCCAATTCAAGAAGAAA+AGG	+	chr2_3:35570384-35570403	Msa0289370:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	35568820	35570434	35568820	ID=Msa0289370;Name=Msa0289370
chr2_3	mRNA	35568820	35570434	35568820	ID=Msa0289370-mRNA-1;Parent=Msa0289370;Name=Msa0289370-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0\|0\|0\|0.75\|0.66\|0.75\|4\|0\|245
chr2_3	exon	35568820	35568825	35568820	ID=Msa0289370-mRNA-1:exon:11488;Parent=Msa0289370-mRNA-1
chr2_3	exon	35568907	35569086	35568907	ID=Msa0289370-mRNA-1:exon:11489;Parent=Msa0289370-mRNA-1
chr2_3	exon	35569244	35569483	35569244	ID=Msa0289370-mRNA-1:exon:11490;Parent=Msa0289370-mRNA-1
chr2_3	exon	35570123	35570434	35570123	ID=Msa0289370-mRNA-1:exon:11491;Parent=Msa0289370-mRNA-1
chr2_3	CDS	35568820	35568825	35568820	ID=Msa0289370-mRNA-1:cds;Parent=Msa0289370-mRNA-1
chr2_3	CDS	35568907	35569086	35568907	ID=Msa0289370-mRNA-1:cds;Parent=Msa0289370-mRNA-1
chr2_3	CDS	35569244	35569483	35569244	ID=Msa0289370-mRNA-1:cds;Parent=Msa0289370-mRNA-1
chr2_3	CDS	35570123	35570434	35570123	ID=Msa0289370-mRNA-1:cds;Parent=Msa0289370-mRNA-1

Gene Sequence

>Msa0289370

ATGGTAGATATGATGTTGGTACCCTGGTTAGAAAAATTGCTGGCAATCACTACTTTTTTTACAACATGTGAAGTCCACCCAAGAGAGTCGAAAAATGAGTGTAACAAGTTCTGCCTCGATTGCAATGGCAATCCATTATGTGGATCTTGCATAAAATATTGTCACAAAGATCACCGAGTAATCCAAATAAGGAGATCGTCTTACAATGAAGCAGTTAAGACCACTGAAATTTACAAGCATGTTGACATCCTCGGAATTCAAACCTACGTGATCAATAGCTCTACTGTTGTATTCTTAAACAAGAGAGCTCGTGCCCAACCTAAGAGGTACAAGATTGGTAAAATTGGTCACACTAGCGACTCTCTTTGTAAGACATGCGATAGAAATCTTGTGGATTCTACCTACTTTTGCTCTTTGGCATGCAAGGAGGGAGGATTTTTCGTAAGCACAAAAGAGATGGAAGAAATGGAAGTATTGCTGCATGAATCAATCAAGGTATCAGCACCAAAAGAAAAAGCTAAAATATCACGTGAACACAATCTGAAACGAAAACAAGGAGAAGCAGGAATTGATGAAGAAAATGAAGAGGGGGAAGAGGAAGAAGAGCAAAAGGAAGAAGAAAAAGAAGAAGGTGACGAAAACAATGAAAGTATGCTTCGTGTTAATCGCTCATCATCTTCATTACGCAAGTCCAATTCAAGAAGAAAAGGAATACCTTATAGGGCACCTTTTTTTTAA

Protein sequence

>Msa0289370

MVDMMLVPWLEKLLAITTFFTTCEVHPRESKNECNKFCLDCNGNPLCGSCIKYCHKDHRVIQIRRSSYNEAVKTTEIYKHVDILGIQTYVINSSTVVFLNKRARAQPKRYKIGKIGHTSDSLCKTCDRNLVDSTYFCSLACKEGGFFVSTKEMEEMEVLLHESIKVSAPKEKAKISREHNLKRKQGEAGIDEENEEGEEEEEQKEEEKEEGDENNESMLRVNRSSSSLRKSNSRRKGIPYRAPFF*