AlfalfaGEDB | Msa1197660

M. sativa cultivar zhongmu-4 / Msa1197660

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
Msa1197660	XP_003628796.1	100.000	232	0	0	1	232	1	232	1.39e-173	486

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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
Msa1197660	sp\|Q1G3Q4\|RITF1_ARATH	48.819	127	64	1	33	159	6	131	2.78e-36	131

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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
Msa1197660	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
Msa1197660	Msa1291990	0.827560	1.462624e-54	-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
Msa1197660	MtrunA17_Chr8g0366581	100.000	232	0	0	1	232	1	232	1.28e-177	486
Msa1197660	MtrunA17_Chr5g0411151	85.897	234	29	3	1	231	1	233	1.04e-147	411
Msa1197660	MtrunA17_Chr5g0395181	70.370	216	54	4	19	233	7	213	3.45e-108	310
Msa1197660	MtrunA17_Chr4g0040071	72.414	203	52	4	31	232	13	212	5.92e-104	299
Msa1197660	MtrunA17_Chr1g0179781	55.340	206	73	5	33	229	7	202	3.22e-73	221
Msa1197660	MtrunA17_Chr7g0265291	58.333	204	71	5	33	229	7	203	1.99e-71	216
Msa1197660	MtrunA17_Chr2g0308401	49.265	136	59	4	34	159	5	140	5.70e-39	132
Msa1197660	MtrunA17_Chr4g0020811	47.794	136	61	3	34	159	7	142	8.01e-39	132
Msa1197660	MtrunA17_Chr4g0065041	48.031	127	65	1	33	159	8	133	4.69e-37	130
Msa1197660	MtrunA17_Chr2g0297251	34.685	222	118	5	33	228	37	257	6.25e-37	130

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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
Msa1197660	AT4G17900.1	73.391	233	52	5	1	229	1	227	2.72e-122	347
Msa1197660	AT4G17900.2	72.906	203	46	4	30	229	17	213	6.39e-104	300
Msa1197660	AT1G32700.1	71.495	214	51	5	24	232	2	210	7.31e-102	294
Msa1197660	AT1G32700.2	71.023	176	42	4	61	232	1	171	2.53e-78	233
Msa1197660	AT5G46710.1	52.521	238	90	8	1	228	1	225	6.94e-78	234
Msa1197660	AT1G21000.2	50.209	239	82	4	26	228	6	243	6.90e-77	232
Msa1197660	AT1G21000.1	50.209	239	82	4	26	228	9	246	8.38e-77	232
Msa1197660	AT1G76590.1	50.877	228	80	4	33	228	18	245	2.11e-74	226
Msa1197660	AT5G46710.3	52.830	212	84	6	26	228	5	209	3.23e-72	219
Msa1197660	AT5G46710.2	59.627	161	57	3	1	159	1	155	1.71e-66	203

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Find 88 sgRNAs with CRISPR-Local

Find 209 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACGACAGCACTTCCCGCAC+TGG	0.520737	8_1:+48340286	None:intergenic
AACTATGAATTCTAGATTGT+TGG	0.377091	8_1:-48340818	Msa1197660:intron
AAGAAACAGTTAATAATCAT+AGG	0.470126	8_1:-48340577	Msa1197660:three_prime_UTR
AAGAAACGCTCTTTGAGAAG+AGG	0.515700	8_1:+48342323	None:intergenic
AATCGGATTCCCTTCAGTCA+AGG	0.575945	8_1:+48340399	None:intergenic
AATTCCTCATCGTGCCCCAA+TGG	0.532814	8_1:-48340615	Msa1197660:CDS
ACCAACAGTCAATTACAGAT+CGG	0.643222	8_1:-48340654	Msa1197660:CDS
ACTGTTGGTGGTGGTGTCGA+AGG	0.600407	8_1:+48340668	None:intergenic
AGAAGAGGTTTCAACCATGG+TGG	0.644229	8_1:+48342338	None:intergenic
AGAATCGAAAGGAATCGAGA+AGG	0.635045	8_1:+48341499	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TGAGTGCAATATGTATTGTT+TGG	-	chr8_1:48341085-48341104	Msa1197660:intron	30.0%
CACAACTTTGATGAATTCAA+TGG	+	chr8_1:48341194-48341213	None:intergenic	30.0%
ATGGGAATTTATGGGATAAT+TGG	+	chr8_1:48341351-48341370	None:intergenic	30.0%
ATTATTGTCATTGTTGTGTC+TGG	-	chr8_1:48341540-48341559	Msa1197660:CDS	30.0%
AACAACAGAGATCATTAGAA+AGG	+	chr8_1:48341636-48341655	None:intergenic	30.0%
TTCATACCATGATGTGATTA+GGG	-	chr8_1:48341685-48341704	Msa1197660:intron	30.0%
CTATATTATCAACAGTGCAA+GGG	-	chr8_1:48341751-48341770	Msa1197660:intron	30.0%
CTTATTCAAATGGTTAGAAG+GGG	+	chr8_1:48341923-48341942	None:intergenic	30.0%
GGGAGTTAATCTTATTCAAA+TGG	+	chr8_1:48341933-48341952	None:intergenic	30.0%
GTATATAGGAAAAATCCAAC+AGG	-	chr8_1:48343102-48343121	Msa1197660:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	48339965	48343406	48339965	ID=Msa1197660;Name=Msa1197660
chr8_1	mRNA	48339965	48343406	48339965	ID=Msa1197660-mRNA-1;Parent=Msa1197660;Name=Msa1197660-mRNA-1;_AED=0.05;_eAED=0.05;_QI=168\|1\|1\|1\|0.75\|0.6\|5\|633\|233
chr8_1	exon	48339965	48340825	48339965	ID=Msa1197660-mRNA-1:exon:15285;Parent=Msa1197660-mRNA-1
chr8_1	exon	48341482	48341697	48341482	ID=Msa1197660-mRNA-1:exon:15284;Parent=Msa1197660-mRNA-1
chr8_1	exon	48342199	48342396	48342199	ID=Msa1197660-mRNA-1:exon:15283;Parent=Msa1197660-mRNA-1
chr8_1	exon	48343076	48343283	48343076	ID=Msa1197660-mRNA-1:exon:15282;Parent=Msa1197660-mRNA-1
chr8_1	exon	48343387	48343406	48343387	ID=Msa1197660-mRNA-1:exon:15281;Parent=Msa1197660-mRNA-1
chr8_1	five_prime_UTR	48343387	48343406	48343387	ID=Msa1197660-mRNA-1:five_prime_utr;Parent=Msa1197660-mRNA-1
chr8_1	five_prime_UTR	48343136	48343283	48343136	ID=Msa1197660-mRNA-1:five_prime_utr;Parent=Msa1197660-mRNA-1
chr8_1	CDS	48343076	48343135	48343076	ID=Msa1197660-mRNA-1:cds;Parent=Msa1197660-mRNA-1
chr8_1	CDS	48342199	48342396	48342199	ID=Msa1197660-mRNA-1:cds;Parent=Msa1197660-mRNA-1
chr8_1	CDS	48341482	48341697	48341482	ID=Msa1197660-mRNA-1:cds;Parent=Msa1197660-mRNA-1
chr8_1	CDS	48340598	48340825	48340598	ID=Msa1197660-mRNA-1:cds;Parent=Msa1197660-mRNA-1
chr8_1	three_prime_UTR	48339965	48340597	48339965	ID=Msa1197660-mRNA-1:three_prime_utr;Parent=Msa1197660-mRNA-1

Gene Sequence

>Msa1197660

ATGGCGTTTGAAAATCAAGACACTGTCCGTGAAATTAAGCCCAAAAACAGGAGAATCATGGGTGCTGGAGGTCCTGATGATGAGGAAAACAGGTGGCCACCATGGTTGAAACCTCTTCTCAAAGAGCGTTTCTTTGTTCAATGCAAGTTGCATGCTGATTCACACAAGAGTGAGTGCAATATGTATTGTTTGGATTGTATGAATGGTGCTCTTTGCTCACTCTGTCTCAATTACCACAAAGATCATCGTGCTATTCAGATAAGGAGGTCTTCATACCATGATGTGATTAGGGTGAATGAGATTCAGAAAGTGTTGGACATAACAGGTGTTCAAACCTATATTATCAACAGTGCAAGGGTTGTGTTCTTGAATGAGAGGCCTCAGCCAAGGCCCGGAAAAGGTGTCACCAACACTTGTGAAGTCTGCGAGCGTAGCCTTCTCGATTCCTTTCGATTCTGTTCTCTTGGCTGCAAGATTGTTGGAACTTCAATGAATTTCCAGAAGAAGAACAAGTCAGCTCGTGCTTCAATGATATCAGACTCAGAGGATTCACACAGCAGCAGTTGCAGCCATGGAAGACTCAAGAACATTAAGGTGCAAAGTTTCACTCCTTCGACACCACCACCAACAGTCAATTACAGATCGGCCAAAAGAAGAAAGGGAATTCCTCATCGTGCCCCAATGGGAGGACTAGTATACTAA

Protein sequence

>Msa1197660

MAFENQDTVREIKPKNRRIMGAGGPDDEENRWPPWLKPLLKERFFVQCKLHADSHKSECNMYCLDCMNGALCSLCLNYHKDHRAIQIRRSSYHDVIRVNEIQKVLDITGVQTYIINSARVVFLNERPQPRPGKGVTNTCEVCERSLLDSFRFCSLGCKIVGTSMNFQKKNKSARASMISDSEDSHSSSCSHGRLKNIKVQSFTPSTPPPTVNYRSAKRRKGIPHRAPMGGLVY*