AlfalfaGEDB | Msa1208520

M. sativa cultivar zhongmu-4 / Msa1208520

KEGG: -
GO: -
PFAM: PF00642.27

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
Msa1208520	XP_003608904.1	96.690	574	16	2	1	572	1	573	0.0	1141

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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
Msa1208520	sp\|Q9STM4\|C3H43_ARATH	58.610	331	125	7	210	531	90	417	3.02e-133	399
Msa1208520	sp\|Q9STM4\|C3H43_ARATH	47.561	82	36	3	228	307	342	418	1.43e-13	76.6
Msa1208520	sp\|Q9STM4\|C3H43_ARATH	29.268	164	62	5	456	571	106	263	2.16e-11	69.7

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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
Msa1208520	G7JMP1	96.690	574	16	2	1	572	1	573	0.0	1141

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TFs/TRs:

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Gene ID	Type	Classification
Msa1208520	TF	C3H

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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
Msa1208520	Msa1369840	0.976147	2.840927e-141	-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
Msa1208520	MtrunA17_Chr4g0058011	96.690	574	16	2	1	572	1	573	0.0	1141
Msa1208520	MtrunA17_Chr3g0116431	54.383	559	185	16	21	568	12	511	0.0	555
Msa1208520	MtrunA17_Chr7g0249221	37.701	374	186	12	229	571	27	384	1.38e-68	228
Msa1208520	MtrunA17_Chr5g0438891	38.272	324	164	13	229	536	36	339	9.83e-65	217
Msa1208520	MtrunA17_Chr2g0286151	34.097	349	179	11	229	536	44	382	6.46e-51	182
Msa1208520	MtrunA17_Chr1g0195891	33.540	322	167	13	222	510	39	346	9.92e-48	170
Msa1208520	MtrunA17_Chr1g0195891	41.880	117	65	1	457	570	91	207	7.18e-22	97.4
Msa1208520	MtrunA17_Chr8g0356241	30.641	359	152	10	213	532	174	474	9.73e-45	166
Msa1208520	MtrunA17_Chr8g0356241	35.714	168	65	4	229	353	309	476	8.59e-25	108
Msa1208520	MtrunA17_Chr8g0356241	48.780	82	37	1	452	533	185	261	1.24e-17	86.3

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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
Msa1208520	AT3G48440.1	58.610	331	125	7	210	531	90	417	3.07e-134	399
Msa1208520	AT3G48440.1	47.561	82	36	3	228	307	342	418	1.46e-14	76.6
Msa1208520	AT3G48440.1	29.268	164	62	5	456	571	106	263	2.20e-12	69.7
Msa1208520	AT5G63260.1	54.121	364	149	8	212	566	79	433	4.28e-124	372
Msa1208520	AT5G63260.2	52.116	378	151	8	212	566	79	449	1.46e-122	369
Msa1208520	AT3G02830.2	42.059	340	137	12	226	532	14	326	5.08e-72	236
Msa1208520	AT3G02830.2	44.118	102	56	1	457	557	62	163	1.28e-21	97.4
Msa1208520	AT3G02830.1	42.059	340	137	12	226	532	34	346	5.67e-72	236
Msa1208520	AT3G02830.1	44.118	102	56	1	457	557	82	183	1.67e-21	97.4
Msa1208520	AT5G16540.3	40.909	308	147	9	229	532	18	294	2.65e-66	220

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Find 213 sgRNAs with CRISPR-Local

Find 341 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATCAATTTCTGCTATTA+GGG	0.196169	8_1:-66652575	Msa1208520:five_prime_UTR
AAAATCATTGCACTATGCAC+CGG	0.550723	8_1:+66648557	None:intergenic
AAACATTTGTTTCAATTGTT+GGG	0.452056	8_1:+66649531	None:intergenic
AAACTCAGCTAATGCTCAGG+TGG	0.626361	8_1:-66648984	Msa1208520:CDS
AAACTGCATTCAGGTTCACC+AGG	0.584269	8_1:+66649461	None:intergenic
AAAGGGAGTGAAGAAACCAG+GGG	0.669089	8_1:+66652698	None:intergenic
AAAGTTTCGAACTTTAACGA+TGG	0.565585	8_1:-66652314	Msa1208520:CDS
AAAGTTTGGAACTTTAACGA+TGG	0.565585	8_1:-66652251	Msa1208520:CDS
AAATAAAATGTATCATGTTT+AGG	0.310619	8_1:+66648844	None:intergenic
AACGCCGAAGAACCCCAACT+GGG	0.666568	8_1:-66652491	Msa1208520:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAGTTTCGAACTTTAACGA+TGG	-	chr8_1:66648826-66648845	Msa1208520:three_prime_UTR	30.0%
AGATGAAGAAGAATCTGTTA+AGG	-	chr8_1:66649017-66649036	Msa1208520:CDS	30.0%
GATGAAGAAGAATCTGTTAA+GGG	-	chr8_1:66649018-66649037	Msa1208520:CDS	30.0%
TCAACAATGCCATATCTAAA+GGG	+	chr8_1:66649491-66649510	None:intergenic	30.0%
TTCAACAATGCCATATCTAA+AGG	+	chr8_1:66649492-66649511	None:intergenic	30.0%
AATAACTGTTGCATCTTTGT+TGG	-	chr8_1:66649618-66649637	Msa1208520:intron	30.0%
ATGTTAGTGTCAAAAAACAG+AGG	+	chr8_1:66649923-66649942	None:intergenic	30.0%
ATATAGTAGAAGATCTCACT+AGG	+	chr8_1:66649983-66650002	None:intergenic	30.0%
TAGTGAGATCTTCTACTATA+TGG	-	chr8_1:66649982-66650001	Msa1208520:CDS	30.0%
ACATAGCAAACATGTTCTAT+TGG	-	chr8_1:66650088-66650107	Msa1208520:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	66648429	66652733	66648429	ID=Msa1208520;Name=Msa1208520
chr8_1	mRNA	66648429	66652733	66648429	ID=Msa1208520-mRNA-1;Parent=Msa1208520;Name=Msa1208520-mRNA-1;_AED=0.06;_eAED=0.06;_QI=178\|1\|1\|1\|1\|1\|6\|505\|572
chr8_1	exon	66648429	66649131	66648429	ID=Msa1208520-mRNA-1:exon:21945;Parent=Msa1208520-mRNA-1
chr8_1	exon	66649343	66649612	66649343	ID=Msa1208520-mRNA-1:exon:21944;Parent=Msa1208520-mRNA-1
chr8_1	exon	66649807	66650079	66649807	ID=Msa1208520-mRNA-1:exon:21943;Parent=Msa1208520-mRNA-1
chr8_1	exon	66650176	66650289	66650176	ID=Msa1208520-mRNA-1:exon:21942;Parent=Msa1208520-mRNA-1
chr8_1	exon	66650902	66650967	66650902	ID=Msa1208520-mRNA-1:exon:21941;Parent=Msa1208520-mRNA-1
chr8_1	exon	66651758	66652733	66651758	ID=Msa1208520-mRNA-1:exon:21940;Parent=Msa1208520-mRNA-1
chr8_1	five_prime_UTR	66652556	66652733	66652556	ID=Msa1208520-mRNA-1:five_prime_utr;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66651758	66652555	66651758	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66650902	66650967	66650902	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66650176	66650289	66650176	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66649807	66650079	66649807	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66649343	66649612	66649343	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	CDS	66648934	66649131	66648934	ID=Msa1208520-mRNA-1:cds;Parent=Msa1208520-mRNA-1
chr8_1	three_prime_UTR	66648429	66648933	66648429	ID=Msa1208520-mRNA-1:three_prime_utr;Parent=Msa1208520-mRNA-1

Gene Sequence

>Msa1208520

ATGGAACACTCTGAAGAAATCGATTTAGCTGCTACTGTTTCCAACGCCGAAGAACCCCAACTGGGTTCTGAGGTTCAACAATCTTCACCAGTTGATCATCATTCTCCACCGTCAGATCTCAATCAAACGGTTCAAAAGAATGATGATGAACTTGCTGTGGAGCTTCATGAGAAGTTGGATTTGAAGGTTGAAGATGAAGGAGTTGTTGAAACTGATGATAAAGTTTCGAACTTTAACGATGGTGAAGTAGTTTCCGATGAAAGGGGTGCTGAAATTGATGATAAAGTTTGGAACTTTAACGATGGTGAACGAGTTGGAGATGAAAGGGGTGCTGAAACTGATGATAAAGTTTTGAACTTTGATGATGGCGAACGAGTTGGTGATGAAGAATCTCTGAAGGGTGAAAAGGAAGATGAAGAAGAATCTGTTAAGGGTGAAAATGAAGAATTTGTTGAGGGTGAAGAAAGGGTTGATGTTGATGGAGACAGCAAAGGTTGGGATACTAATAGTTGGAATGAGAATGTGAATGAAGAGCTTGGTGGTGGTAGAGATGCTGATGATTGGGGTTATGGTGGTGGTGATGGTGGTGGTGCTGGTTATGGTGCTGAATATGGGGATGGTTATGGTGACGGTTATGGCTATGGTGATGAGAAGGAAGAGAAAAGCAGCGATGGAACTCATCAATTCCCTTTGAGGCCTGAAGCTGAAGATTGTTCATTTTATATGAAGACTGGGAGTTGCAAGTTTGGATTCAACTGCAAATTTAATCACCCCATTAGGAGGAAAAACCAAAACCAGGCTGTTAGGGAGAAGGTGCGAGAAAGAGAAGAACCAGAAGAGAACGCGGGCCAGACAGAATGCAAGTATTATCAAAGGTCTGGAGGTTGTAAGTTTGGAAAAGCTTGTAAGTACAACCACTCAAGAGGGTTCACAGCACCAATTTCAGAACTTAACTTTCTCGGCTTACCTATTCGTCTGGGAGAGAGAGAGTGCCCCTATTACATGCGCACTGGCTCTTGTAAGTTTGGATCGAACTGTAGGTTTAATCATCCTGATCCTACAACTGTCGGAGGATCTGATCCTCAATCAGGGTATGGTAATGGAGGGTCCGTTTCACTACGAGGTGTATCACAACAACCTGTCGCCTCATGGTCTTCTTCAAGAAAGTTAAATGAAACACCTTTTGCTCCATTGATGCCTACGCCTACTCAAGGACTTGCTCCCCAAACTTCTGATTGGAATGGATATCAGGCACCTGCCTACTTATCAGAGAGGATCATGCATCCATCTTCTACTTATGTCATGAACAACCCAACAATTGAAACAAATGTTTACATGCACCATCAAAAGCAGATGCCGTTTGAAGTGTTTCCAGAAAGGCCTGGTGAACCTGAATGCAGTTTCTTCATTAAAACTGGGGATTGCAAGTTCAAATCTAATTGTAAATTTCACCATCCAAAGAATCGGGTTGCAAAGTTGCCTCCTTGCAACCTTAGTGACAAGGGCCTGCCTTTGAGACCTGACCAGAGTGTCTGCTCGCACTATAGTCGTTATGGAATTTGCAAATTTGGGCCAGCTTGTAGATTTGACCACCCAGAAAGCGCACTTCCCCTAATGATGCCTGGACTCGGACAACAATCCTATGCAAACTCAGCTAATGCTCAGGTGGCTGGGATGGGTGGAAGTGCAAGTGATGCAACAATTCAACAATCTGTCTAA

Protein sequence

>Msa1208520

MEHSEEIDLAATVSNAEEPQLGSEVQQSSPVDHHSPPSDLNQTVQKNDDELAVELHEKLDLKVEDEGVVETDDKVSNFNDGEVVSDERGAEIDDKVWNFNDGERVGDERGAETDDKVLNFDDGERVGDEESLKGEKEDEEESVKGENEEFVEGEERVDVDGDSKGWDTNSWNENVNEELGGGRDADDWGYGGGDGGGAGYGAEYGDGYGDGYGYGDEKEEKSSDGTHQFPLRPEAEDCSFYMKTGSCKFGFNCKFNHPIRRKNQNQAVREKVREREEPEENAGQTECKYYQRSGGCKFGKACKYNHSRGFTAPISELNFLGLPIRLGERECPYYMRTGSCKFGSNCRFNHPDPTTVGGSDPQSGYGNGGSVSLRGVSQQPVASWSSSRKLNETPFAPLMPTPTQGLAPQTSDWNGYQAPAYLSERIMHPSSTYVMNNPTIETNVYMHHQKQMPFEVFPERPGEPECSFFIKTGDCKFKSNCKFHHPKNRVAKLPPCNLSDKGLPLRPDQSVCSHYSRYGICKFGPACRFDHPESALPLMMPGLGQQSYANSANAQVAGMGGSASDATIQQSV*