AlfalfaGEDB | Msa0188620

M. sativa cultivar zhongmu-4 / Msa0188620

KEGG: -
GO: -
PFAM: -

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
Msa0188620	XP_024632239.1	93.789	161	3	1	1	154	1	161	1.14e-104	306

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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
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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
Msa0188620	Q1SKW7	93.789	161	3	1	1	154	1	161	5.45e-105	306

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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0017670	Msa0188620	0.801786	7.639483e-49	-8.615850e-47
Msa0025160	Msa0188620	0.801395	9.190090e-49	-8.615850e-47
Msa0042640	Msa0188620	0.841202	5.483201e-58	-8.615850e-47
Msa0077340	Msa0188620	0.823382	1.427747e-53	-8.615850e-47
Msa0077560	Msa0188620	0.802403	5.703998e-49	-8.615850e-47
Msa0089460	Msa0188620	0.807675	4.501034e-50	-8.615850e-47
Msa0125360	Msa0188620	0.839751	1.313592e-57	-8.615850e-47
Msa0142430	Msa0188620	0.804707	1.898143e-49	-8.615850e-47
Msa0178450	Msa0188620	0.818377	2.023765e-52	-8.615850e-47
Msa0188620	Msa0204950	0.821890	3.173903e-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
Msa0188620	MtrunA17_Chr2g0277071	93.789	161	3	1	1	154	1	161	1.05e-108	306
Msa0188620	MtrunA17_Chr2g0281541	45.714	105	48	2	47	148	53	151	4.00e-24	92.0
Msa0188620	MtrunA17_Chr4g0047901	45.833	120	46	5	38	149	25	133	3.47e-23	89.0

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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
Msa0188620	AT1G09812.1	46.715	137	59	3	8	144	3	125	1.44e-29	105
Msa0188620	AT1G58007.4	48.571	105	44	3	42	146	20	114	1.64e-23	89.4
Msa0188620	AT1G58007.3	48.571	105	44	3	42	146	20	114	1.64e-23	89.4
Msa0188620	AT1G58007.2	48.571	105	44	3	42	146	20	114	1.64e-23	89.4
Msa0188620	AT1G11120.2	46.341	123	58	4	32	147	24	145	2.07e-22	87.8
Msa0188620	AT1G11120.1	39.597	149	58	5	31	147	23	171	2.27e-19	80.5
Msa0188620	AT4G28170.1	36.207	116	52	6	23	133	37	135	8.94e-12	59.7
Msa0188620	AT1G58007.1	81.250	32	6	0	42	73	20	51	1.78e-11	56.6

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Find 68 sgRNAs with CRISPR-Local

Find 166 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGTGACACTCATATTTA+AGG	0.221587	2_1:-3828513	None:intergenic
AAAGAGACTAAGAGATTATT+GGG	0.315819	2_1:+3829595	Msa0188620:three_prime_UTR
AAAGATGTGGAACGTATACA+CGG	0.657288	2_1:+3829013	Msa0188620:CDS
AAGGTCCATGGAAAAGCTTT+GGG	0.488752	2_1:+3829090	Msa0188620:CDS
AAGTCTTAACACTAAAATGA+AGG	0.550501	2_1:-3829752	None:intergenic
AATTAGAACAAAGACAAAAC+AGG	0.469285	2_1:+3828949	Msa0188620:five_prime_UTR
ACAAAATGTTGTTGGTGAGA+AGG	0.517710	2_1:-3829500	None:intergenic
ACAAGGCAGAGGAGCAGGTT+GGG	0.462248	2_1:-3829456	None:intergenic
ACACTATTCATGTGACTTAA+AGG	0.213889	2_1:+3828445	Msa0188620:five_prime_UTR
ACAGTGAAAGATCAAAGATG+TGG	0.629582	2_1:+3829000	Msa0188620:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACACTATTCATGTGACTTAA+AGG	+	chr2_1:3828445-3828464	Msa0188620:five_prime_UTR	30.0%
ATTCATGTGACTTAAAGGTT+TGG	+	chr2_1:3828450-3828469	Msa0188620:five_prime_UTR	30.0%
ATTAAGTTAAGCATCAGTTG+AGG	+	chr2_1:3828667-3828686	Msa0188620:intron	30.0%
TTATAAAGCTTAGCTAACTG+TGG	+	chr2_1:3828732-3828751	Msa0188620:intron	30.0%
AAGAATCAGACAGAATAACT+AGG	-	chr2_1:3828903-3828922	None:intergenic	30.0%
TCTATGAGTGCAATATCATT+TGG	+	chr2_1:3829116-3829135	Msa0188620:CDS	30.0%
ACATGAAACAGGTAGTAAAA+GGG	-	chr2_1:3829311-3829330	None:intergenic	30.0%
GGAAAAAAAACACATGAAAC+AGG	-	chr2_1:3829322-3829341	None:intergenic	30.0%
AGTCAATGAGTAAATGATGA+CGG	+	chr2_1:3829671-3829690	Msa0188620:three_prime_UTR	30.0%
ACACTATTCATGTGACTTAA+AGG	+	chr2_1:3828445-3828464	Msa0188620:five_prime_UTR	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	3828401	3829795	3828401	ID=Msa0188620;Name=Msa0188620
chr2_1	mRNA	3828401	3829795	3828401	ID=Msa0188620-mRNA-1;Parent=Msa0188620;Name=Msa0188620-mRNA-1;_AED=0.10;_eAED=0.10;_QI=382\|1\|1\|1\|0.33\|0.25\|4\|260\|154
chr2_1	exon	3828401	3828642	3828401	ID=Msa0188620-mRNA-1:exon:1609;Parent=Msa0188620-mRNA-1
chr2_1	exon	3828740	3828841	3828740	ID=Msa0188620-mRNA-1:exon:1610;Parent=Msa0188620-mRNA-1
chr2_1	exon	3828949	3829301	3828949	ID=Msa0188620-mRNA-1:exon:1611;Parent=Msa0188620-mRNA-1
chr2_1	exon	3829386	3829795	3829386	ID=Msa0188620-mRNA-1:exon:1612;Parent=Msa0188620-mRNA-1
chr2_1	five_prime_UTR	3828401	3828642	3828401	ID=Msa0188620-mRNA-1:five_prime_utr;Parent=Msa0188620-mRNA-1
chr2_1	five_prime_UTR	3828740	3828841	3828740	ID=Msa0188620-mRNA-1:five_prime_utr;Parent=Msa0188620-mRNA-1
chr2_1	five_prime_UTR	3828949	3828986	3828949	ID=Msa0188620-mRNA-1:five_prime_utr;Parent=Msa0188620-mRNA-1
chr2_1	CDS	3828987	3829301	3828987	ID=Msa0188620-mRNA-1:cds;Parent=Msa0188620-mRNA-1
chr2_1	CDS	3829386	3829535	3829386	ID=Msa0188620-mRNA-1:cds;Parent=Msa0188620-mRNA-1
chr2_1	three_prime_UTR	3829536	3829795	3829536	ID=Msa0188620-mRNA-1:three_prime_utr;Parent=Msa0188620-mRNA-1

Gene Sequence

>Msa0188620

ATGAGCGATTTAAACAGTGAAAGATCAAAGATGTGGAACGTATACACGGCTTCAAACGCAGGTCCATCACATTCACAGACAGGAGGAGGAGGAGTTGATGAGGAAGGTCCATGGAAAAGCTTTGGGACTTCTATGAGTGCAATATCATTTGGTTTTGTTGCCACAGCCATTTTGATTTCAATGTTTCTAATAATGGCCATATTTGAACATTTGTTCAAACCCACACAACACTTTTCTTCCACGCCAGAATCTATGCTTCCAACTTATCAGGAACACCACTCACTACCAACCACAAAACAAGGAAATGCACAATCAGTTCTATCATCGTCTTATGCATGTGATTTGTCGGTGTTGATGCCGGGGCAGCAATATCCTACTTACATTGCCCAACCTGCTCCTCTGCCTTGTCCAAGGGAAGAAGCTTATTGGCCTTCTCACCAACAACATTTTGTATTTAACAACTAG

Protein sequence

>Msa0188620

MSDLNSERSKMWNVYTASNAGPSHSQTGGGGVDEEGPWKSFGTSMSAISFGFVATAILISMFLIMAIFEHLFKPTQHFSSTPESMLPTYQEHHSLPTTKQGNAQSVLSSSYACDLSVLMPGQQYPTYIAQPAPLPCPREEAYWPSHQQHFVFNN*