AlfalfaGEDB | Msa1220100

M. sativa cultivar zhongmu-4 / Msa1220100

KEGG: K15263
GO: -
PFAM: PF12874.10

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
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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
Msa1220100	sp\|O64571\|UBA1C_ARATH	31.220	205	88	7	1	164	1	193	8.06e-17	83.2
Msa1220100	sp\|O64571\|UBA1C_ARATH	44.578	83	44	1	53	135	207	287	1.42e-12	70.9
Msa1220100	sp\|O64571\|UBA1C_ARATH	50.794	63	31	0	58	120	142	204	5.05e-11	66.2

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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
Msa1220100	A0A072UT04	84.014	294	22	1	1	269	1	294	1.32e-172	487

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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa1220100	Msa1220900	0.926360	5.222059e-91	-8.615850e-47
Msa1220100	Msa1266190	0.809565	1.776954e-50	-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
Msa1220100	MtrunA17_Chr4g0070801	84.014	294	22	1	1	269	1	294	2.54e-176	487

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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
Msa1220100	AT2G19385.1	43.771	297	117	8	1	269	1	275	6.95e-57	184
Msa1220100	AT2G19380.1	31.220	205	88	7	1	164	1	193	8.20e-18	83.2
Msa1220100	AT2G19380.1	44.578	83	44	1	53	135	207	287	1.44e-13	70.9
Msa1220100	AT2G19380.1	50.794	63	31	0	58	120	142	204	5.14e-12	66.2

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Find 84 sgRNAs with CRISPR-Local

Find 242 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTTCATTCACCGGTTTC+AGG	0.267736	8_1:+83112336	None:intergenic
AAATGAAAATGAATTGAGCG+AGG	0.672838	8_1:-83111853	Msa1220100:CDS
AAATTATCTGTCTGGACTAG+TGG	0.555342	8_1:+83112464	None:intergenic
AACGTCCTCCGTGGTTCTGT+AGG	0.574054	8_1:-83113383	Msa1220100:intron
AACTGGCGTTAACCTGATTT+CGG	0.270078	8_1:+83114995	None:intergenic
AAGGAAACCCTAGAATAGCT+TGG	0.579841	8_1:-83115046	Msa1220100:five_prime_UTR
AAGGCTGCCAAGCTATTCTA+GGG	0.547202	8_1:+83115039	None:intergenic
AAGTATGGTCCAAAAGGCCA+AGG	0.606114	8_1:-83113489	Msa1220100:CDS
AATTCAACATACAAATTTCA+AGG	0.401997	8_1:+83112157	None:intergenic
ACACTGTCTAGAACTAGCAT+TGG	0.542344	8_1:+83111412	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTAATCTACCAATTTACCAC+GGG	+	chr8_1:83111406-83111425	None:intergenic	30.0%
CAACCTTAAAACTAAGACTA+TGG	-	chr8_1:83111558-83111577	Msa1220100:three_prime_UTR	30.0%
AAGCTACATAGCATAAACAA+CGG	+	chr8_1:83111737-83111756	None:intergenic	30.0%
TGGACAAAAATAAGGCAAAA+AGG	+	chr8_1:83111842-83111861	None:intergenic	30.0%
GGGTCCTAATCTATAATTAA+TGG	+	chr8_1:83111862-83111881	None:intergenic	30.0%
CTTATGAAAACAGCTTATTG+TGG	+	chr8_1:83111931-83111950	None:intergenic	30.0%
AAGCTATATGAACATGTCAT+AGG	-	chr8_1:83111948-83111967	Msa1220100:intron	30.0%
TAAGTACTTGTAAGACTGTT+GGG	+	chr8_1:83111992-83112011	None:intergenic	30.0%
ATAAGTACTTGTAAGACTGT+TGG	+	chr8_1:83111993-83112012	None:intergenic	30.0%
ACTAATTTGAGCTTACTTAC+CGG	+	chr8_1:83112017-83112036	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	83111398	83115108	83111398	ID=Msa1220100;Name=Msa1220100
chr8_1	mRNA	83111398	83115108	83111398	ID=Msa1220100-mRNA-1;Parent=Msa1220100;Name=Msa1220100-mRNA-1;_AED=0.08;_eAED=0.08;_QI=179\|0.75\|1\|1\|1\|1\|5\|275\|269
chr8_1	exon	83111398	83111735	83111398	ID=Msa1220100-mRNA-1:exon:29818;Parent=Msa1220100-mRNA-1
chr8_1	exon	83111839	83111949	83111839	ID=Msa1220100-mRNA-1:exon:29817;Parent=Msa1220100-mRNA-1
chr8_1	exon	83112169	83112586	83112169	ID=Msa1220100-mRNA-1:exon:29816;Parent=Msa1220100-mRNA-1
chr8_1	exon	83113384	83113514	83113384	ID=Msa1220100-mRNA-1:exon:29815;Parent=Msa1220100-mRNA-1
chr8_1	exon	83114843	83115108	83114843	ID=Msa1220100-mRNA-1:exon:29814;Parent=Msa1220100-mRNA-1
chr8_1	five_prime_UTR	83114930	83115108	83114930	ID=Msa1220100-mRNA-1:five_prime_utr;Parent=Msa1220100-mRNA-1
chr8_1	CDS	83114843	83114929	83114843	ID=Msa1220100-mRNA-1:cds;Parent=Msa1220100-mRNA-1
chr8_1	CDS	83113384	83113514	83113384	ID=Msa1220100-mRNA-1:cds;Parent=Msa1220100-mRNA-1
chr8_1	CDS	83112169	83112586	83112169	ID=Msa1220100-mRNA-1:cds;Parent=Msa1220100-mRNA-1
chr8_1	CDS	83111839	83111949	83111839	ID=Msa1220100-mRNA-1:cds;Parent=Msa1220100-mRNA-1
chr8_1	CDS	83111673	83111735	83111673	ID=Msa1220100-mRNA-1:cds;Parent=Msa1220100-mRNA-1
chr8_1	three_prime_UTR	83111398	83111672	83111398	ID=Msa1220100-mRNA-1:three_prime_utr;Parent=Msa1220100-mRNA-1

Gene Sequence

>Msa1220100

ATGGTTTGGTTTCAATGTGAAGATTGTGGAGACAACCTCAAAAAACCTAAGTTGCCCAATCACTTCCGATCATGCTCCGCCAACAAGGAAAAGTATGGTCCAAAAGGCCAAGGAAAAACTTTGAATGCTGCAGCTGCCAAGCCTGTCAAAGATGGCAAACAAAGGCTAGTCGTTGATATTAATGTGGGCTTAGCTGAACGTCCTCCGTGGTTCTGTAGTCTTTGCAATACAAAAGCTACAAGTAAGCAAGCACTTCTTCTACATGCTGAAGGAAAGAAACACGGGGCAAAAGCCCGAGCGTTCCATGCTTCGAAGCAACCACTAGTCCAGACAGATAATTTTGCGCCTGATGCAAAGGATGCAGTGGAGACGGGTTCTAATGATATGGCAAAAGATGACAAAATTTCAGAGCAGCCAAAGTTGCACGAGTCTTCTGAACAAAATAACCTGAAACCGGTGAATGAAGTTTCTTCCGAAAAGAAAAAGAGGAAACATGAAGCATTAGAGGGTGACGTTATTAAAAAAAACAAGAATGACACATCAGTTGACGTGGAAAATGGGGAAGTATTTCAGGGCGAGAAGGCAAGAGAGAGGAAAATAAAGTGGAAGAAGTTTATCAAAGCAGCCTTGAAATTTCATCCTGATGGATTGAAGATGAAGAAATTGAGAAAAGTTGTCCTCAAAGCACTGCAGGAATCTAGCATTGTAGTAAATGAAAATGAATTGAGCGAGGCGATTGAGCAGAAGATAAACTCCAGCTCCAACTTTGCAGTTGAGAACAAGTATGTGCGATTAGTGGCCAAAGATTGA

Protein sequence

>Msa1220100

MVWFQCEDCGDNLKKPKLPNHFRSCSANKEKYGPKGQGKTLNAAAAKPVKDGKQRLVVDINVGLAERPPWFCSLCNTKATSKQALLLHAEGKKHGAKARAFHASKQPLVQTDNFAPDAKDAVETGSNDMAKDDKISEQPKLHESSEQNNLKPVNEVSSEKKKRKHEALEGDVIKKNKNDTSVDVENGEVFQGEKARERKIKWKKFIKAALKFHPDGLKMKKLRKVVLKALQESSIVVNENELSEAIEQKINSSSNFAVENKYVRLVAKD*