AlfalfaGEDB | Msa0328400

M. sativa cultivar zhongmu-4 / Msa0328400

KEGG: K01246
GO: -
PFAM: PF03352.16

Nr:

Show entries

Search:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0328400	XP_003595924.1	98.214	392	4	3	1	391	1	390	0.0	786

Showing 1 to 1 of 1 entries

Previous1Next

Swissprot:

Show entries

Search:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0328400	sp\|P05100\|3MG1_ECOLI	42.222	180	100	2	202	379	2	179	2.61e-48	165

Showing 1 to 1 of 1 entries

Previous1Next

Trembl:

Show entries

Search:

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

Showing 0 to 0 of 0 entries

PreviousNext

TFs/TRs:

Show entries

Search:

Gene ID	Type	Classification
No data available in table

Showing 0 to 0 of 0 entries

PreviousNext

Protein Kinases:

Show entries

Search:

Gene ID	Type	Classification
No data available in table

Showing 0 to 0 of 0 entries

PreviousNext

Network:

Co-expression Network

Show entries

Search:

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0328400	Msa0328410	0.976611	3.708221e-142	-8.615850e-47
Msa0328400	Msa0555090	0.815151	1.070468e-51	-8.615850e-47
Msa0328400	Msa0608660	0.812723	3.672282e-51	-8.615850e-47
Msa0328400	Msa0649190	0.817149	3.830183e-52	-8.615850e-47
Msa0328400	Msa1394600	0.814470	1.515798e-51	-8.615850e-47

Showing 1 to 5 of 5 entries

Previous1Next

PPI

Show entries

Search:

Gene1	Gene2	Type
No data available in table

Showing 0 to 0 of 0 entries

PreviousNext

Show entries

Search:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0328400	MtrunA17_Chr2g0309681	98.214	392	4	3	1	391	1	390	0.0	786
Msa0328400	MtrunA17_Chr8g0356301	77.215	395	73	8	1	390	1	383	0.0	568
Msa0328400	MtrunA17_Chr4g0073991	51.813	193	91	1	199	389	145	337	1.79e-69	223
Msa0328400	MtrunA17_Chr5g0420791	48.958	192	96	1	200	389	110	301	1.21e-68	219
Msa0328400	MtrunA17_Chr8g0366071	48.500	200	98	2	195	389	109	308	7.06e-68	217
Msa0328400	MtrunA17_Chr4g0001371	49.738	191	94	1	199	387	134	324	3.02e-67	217
Msa0328400	MtrunA17_Chr3g0141411	45.495	222	116	3	169	387	97	316	7.56e-65	210

Showing 1 to 7 of 7 entries

Previous1Next

Show entries

Search:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0328400	AT3G12710.1	70.609	279	63	4	115	389	46	309	3.04e-139	399
Msa0328400	AT5G44680.1	51.392	395	146	8	1	391	1	353	3.33e-135	391
Msa0328400	AT1G75090.1	53.723	188	85	1	202	387	119	306	4.80e-74	234
Msa0328400	AT5G57970.1	50.000	212	99	2	183	387	130	341	1.31e-72	231
Msa0328400	AT5G57970.2	50.000	212	99	2	183	387	130	341	1.31e-72	231
Msa0328400	AT1G80850.1	54.839	186	82	1	202	385	134	319	3.42e-71	226
Msa0328400	AT1G13635.2	50.510	196	95	1	196	389	109	304	3.56e-71	226
Msa0328400	AT1G13635.1	50.510	196	95	1	196	389	109	304	3.56e-71	226
Msa0328400	AT1G15970.1	50.769	195	84	2	202	389	145	334	8.92e-67	216
Msa0328400	AT1G15970.2	50.769	195	84	2	202	389	145	334	8.92e-67	216

Showing 1 to 10 of 10 entries

Previous1Next

Find 112 sgRNAs with CRISPR-Local

Find 181 sgRNAs with CRISPR-GE

CRISPR-Local

Show entries

Search:

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATGAAGATTGCTCATTA+TGG	0.312266	2_4:-40832429	Msa0328400:CDS
AAAATGAGGGAAATGTTGTG+AGG	0.657957	2_4:+40833033	None:intergenic
AAAGAAAATAGAGTTTGTTA+AGG	0.398022	2_4:+40829240	None:intergenic
AAAGACTACTACTAATCAAG+AGG	0.568854	2_4:-40832343	Msa0328400:CDS
AAATAATGCAAAGTCCTTGT+AGG	0.402213	2_4:+40829316	None:intergenic
AAATGAGGGAAATGTTGTGA+GGG	0.604544	2_4:+40833034	None:intergenic
AAATGATCTTGATCTTGAGC+TGG	0.546630	2_4:+40829619	None:intergenic
AAATGTTGTGAGGGATTGGA+GGG	0.520939	2_4:+40833043	None:intergenic
AAGAAGTGGTGGGAGTGTTA+GGG	0.512402	2_4:-40829417	Msa0328400:three_prime_UTR
AAGAGAGGAAATGACAATAA+TGG	0.373376	2_4:-40832657	Msa0328400:CDS

Showing 1 to 10 of 112 entries

Previous1 2 3 4 5…12Next

CRISPR-GE

Show entries

Search:

sgRNA_sequence	Strand	Position	Region	GC_content
AGGAGTAATAGTGTTAAGAT+TGG	+	chr2_4:40829299-40829318	None:intergenic	30.0%
GAGTTTCTTCTTTCAAGATT+TGG	+	chr2_4:40829483-40829502	None:intergenic	30.0%
TTTCCTCTCTTTATAGCTAA+TGG	+	chr2_4:40829624-40829643	None:intergenic	30.0%
AAGAGAGGAAATGACAATAA+TGG	-	chr2_4:40829633-40829652	Msa0328400:three_prime_UTR	30.0%
CATAATGAAAACTCCAACTT+TGG	-	chr2_4:40829695-40829714	Msa0328400:three_prime_UTR	30.0%
AAAGACTACTACTAATCAAG+AGG	-	chr2_4:40829947-40829966	Msa0328400:three_prime_UTR	30.0%
TTGCTTATCATGATGAAGAA+TGG	-	chr2_4:40830306-40830325	Msa0328400:intron	30.0%
TGCTTATCATGATGAAGAAT+GGG	-	chr2_4:40830307-40830326	Msa0328400:intron	30.0%
TATGTTACACACAACTATGA+AGG	-	chr2_4:40830372-40830391	Msa0328400:intron	30.0%
TATTGAGATGTGTCAAACAT+CGG	-	chr2_4:40830524-40830543	Msa0328400:intron	30.0%

Showing 1 to 10 of 181 entries

Previous1 2 3 4 5…19Next

Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	40829247	40833065	40829247	ID=Msa0328400;Name=Msa0328400
chr2_4	mRNA	40829247	40833065	40829247	ID=Msa0328400-mRNA-1;Parent=Msa0328400;Name=Msa0328400-mRNA-1;_AED=0.02;_eAED=0.02;_QI=122\|1\|1\|1\|1\|1\|5\|777\|391
chr2_4	exon	40829247	40830287	40829247	ID=Msa0328400-mRNA-1:exon:12467;Parent=Msa0328400-mRNA-1
chr2_4	exon	40831264	40831399	40831264	ID=Msa0328400-mRNA-1:exon:12466;Parent=Msa0328400-mRNA-1
chr2_4	exon	40831498	40831581	40831498	ID=Msa0328400-mRNA-1:exon:12465;Parent=Msa0328400-mRNA-1
chr2_4	exon	40831961	40832018	40831961	ID=Msa0328400-mRNA-1:exon:12464;Parent=Msa0328400-mRNA-1
chr2_4	exon	40832310	40833065	40832310	ID=Msa0328400-mRNA-1:exon:12463;Parent=Msa0328400-mRNA-1
chr2_4	five_prime_UTR	40832944	40833065	40832944	ID=Msa0328400-mRNA-1:five_prime_utr;Parent=Msa0328400-mRNA-1
chr2_4	CDS	40832310	40832943	40832310	ID=Msa0328400-mRNA-1:cds;Parent=Msa0328400-mRNA-1
chr2_4	CDS	40831961	40832018	40831961	ID=Msa0328400-mRNA-1:cds;Parent=Msa0328400-mRNA-1
chr2_4	CDS	40831498	40831581	40831498	ID=Msa0328400-mRNA-1:cds;Parent=Msa0328400-mRNA-1
chr2_4	CDS	40831264	40831399	40831264	ID=Msa0328400-mRNA-1:cds;Parent=Msa0328400-mRNA-1
chr2_4	CDS	40830024	40830287	40830024	ID=Msa0328400-mRNA-1:cds;Parent=Msa0328400-mRNA-1
chr2_4	three_prime_UTR	40829247	40830023	40829247	ID=Msa0328400-mRNA-1:three_prime_utr;Parent=Msa0328400-mRNA-1

Gene Sequence

>Msa0328400

ATGTGTAGCTCCAAGGCTAAAGAAGTAACTGTAGGCATAGAATCTTCCACAACACCACATGTTGCTAGAATCAATGGAAGGCCAGTACTTCAACCAACATGCAACCATGTTCCAAATCTTGAAAGAAGAAACTCAATTAAGAAATCAACACCAAAATCACTTTCTCCATTACCACTTCCAAACAAGACTACTACTACTTCTTCATTGACACCACCAATTTCTCCAAAACCAAAGTCACCTACTAGTACTAGACCATTAGCTATAAAGAGAGGAAATGACAATAATGGACTTAATTTAAGCTGTGAAAAGATTTCAATACCAAAAAACATAATGAAAACTCCAACTTTGGAGAGGAAAAAGTCAAAGAGTTTTAAAGAAGGGTCTTTTGGTATTGAAGCTTCGTTGAGTTATTCTTCTTCTTTGATCACTGATTCACCGGGAAGCATAGCTGCTGTTAGAAGGGAACAAGTGGCACTTCAACAAGCACAAAGGAAAATGAAGATTGCTCATTATGGAAGATCAAAGTCTGCTAAATTTGAAAGAGTTTTTCCTATTGATCCTTCAAGTGCTCTTGATTCAAAGACTACTACTAATCAAGAGGAGAAGAGATGCAGCTTCATCACAGCCAATTCAGATCCTATCTATATTGCTTATCATGATGAAGAATGGGGAGTTCCAGTTCATGATGACAAGATGTTATTTGAACTTCTAATTTTAAGTGGTGCTCAAGTTGGATCTGATTGGACCTCCACCTTGAAGAAACGCCTAGACTTCAGAGCTGCATTTTCAGAATTTGATGCAGAAATTGTGGCCAATTTGACTGATAAGCAAATGATGTCTATTAGTTCAGAATATGGCATTGAAATAAGCAAAGTTAGAGGAGTTGTTGATAATGCTAACCAAATTTTACAGGTTAAGAAAGGCTTTGGTTCATTTGACAAATACATTTGGGGGTTTGTGAATCATAAACCAATCTCAAATCAATACAAATTTGGTCACAAGATTCCAGTGAAGACATCAAAATCAGAGAGCATAAGCAAAGACATGATTAAGAGAGGGTTTAGATATGTTGGTCCAACAGTGGTTCATTCATTTATGCAGGCAGCTGGCCTAACAAATGACCACTTAATCACTTGCCACAGGCACTTGCAATGCACATTATTGGCAGCCATATAA

Protein sequence

>Msa0328400

MCSSKAKEVTVGIESSTTPHVARINGRPVLQPTCNHVPNLERRNSIKKSTPKSLSPLPLPNKTTTTSSLTPPISPKPKSPTSTRPLAIKRGNDNNGLNLSCEKISIPKNIMKTPTLERKKSKSFKEGSFGIEASLSYSSSLITDSPGSIAAVRREQVALQQAQRKMKIAHYGRSKSAKFERVFPIDPSSALDSKTTTNQEEKRCSFITANSDPIYIAYHDEEWGVPVHDDKMLFELLILSGAQVGSDWTSTLKKRLDFRAAFSEFDAEIVANLTDKQMMSISSEYGIEISKVRGVVDNANQILQVKKGFGSFDKYIWGFVNHKPISNQYKFGHKIPVKTSKSESISKDMIKRGFRYVGPTVVHSFMQAAGLTNDHLITCHRHLQCTLLAAI*