AlfalfaGEDB | Msa0316090

M. sativa cultivar zhongmu-4 / Msa0316090

KEGG: -
GO: GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001101 GO:0001134 GO:0001135 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0007275 GO:0008150 GO:0008544 GO:0009653 GO:0009719 GO:0009725 GO:0009751 GO:0009753 GO:0009791 GO:0009888 GO:0009889 GO:0009913 GO:0009987 GO:0010016 GO:0010033 GO:0010061 GO:0010063 GO:0010103 GO:0010374 GO:0010376 GO:0010453 GO:0010455 GO:0010468 GO:0010556 GO:0014070 GO:0019219 GO:0019222 GO:0022603 GO:0030154 GO:0030855 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0042221 GO:0042493 GO:0042659 GO:0042660 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045595 GO:0045597 GO:0046677 GO:0048367 GO:0048518 GO:0048522 GO:0048646 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0060255 GO:0060429 GO:0065007 GO:0080090 GO:0090558 GO:0090626 GO:0090698 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1903506 GO:1903888 GO:1903890 GO:1905421 GO:1905423 GO:2000026 GO:2000067 GO:2000112 GO:2000280 GO:2001141
PFAM: PF00249.34

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0316090	QSD99622.1	93.548	62	4	0	9	70	16	77	9.49e-35	122

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0316090	sp\|O22059\|CPC_ARATH	63.636	44	16	0	20	63	36	79	1.63e-15	67.4

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

TFs/TRs:

Gene ID	Type	Classification
Msa0316090	TF	MYB-related

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0316090	MtrunA17_Chr2g0288361	91.935	62	5	0	9	70	16	77	3.64e-38	121
Msa0316090	MtrunA17_Chr4g0024181	55.000	60	26	1	9	67	14	73	1.54e-18	71.6
Msa0316090	MtrunA17_Chr2g0322831	55.769	52	23	0	17	68	29	80	1.54e-17	69.3
Msa0316090	MtrunA17_Chr5g0396771	58.537	41	17	0	20	60	37	77	1.11e-13	60.1
Msa0316090	MtrunA17_Chr3g0121241	51.111	45	22	0	21	65	99	143	3.30e-13	62.0
Msa0316090	MtrunA17_Chr7g0275911	50.000	44	22	0	22	65	70	113	3.20e-12	58.9
Msa0316090	MtrunA17_Chr7g0228991	44.828	58	29	1	3	60	71	125	7.67e-12	58.2
Msa0316090	MtrunA17_Chr8g0360111	47.727	44	23	0	22	65	83	126	1.69e-11	57.0
Msa0316090	MtrunA17_Chr4g0055981	55.000	40	18	0	23	62	114	153	2.45e-11	56.6
Msa0316090	MtrunA17_Chr5g0434901	38.710	62	35	1	3	64	15	73	3.71e-11	54.3
Msa0316090	MtrunA17_Chr4g0070641	44.444	45	25	0	21	65	69	113	4.82e-11	54.7
Msa0316090	MtrunA17_Chr5g0435101	48.837	43	22	0	22	64	69	111	8.08e-11	54.7
Msa0316090	MtrunA17_Chr7g0229101	45.455	44	24	0	21	64	29	72	9.56e-11	54.7

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0316090	AT2G46410.1	63.636	44	16	20	63	36	79	1.65e-16	67.4
Msa0316090	AT1G01380.1	56.818	44	19	20	63	32	75	1.01e-14	62.8
Msa0316090	AT5G53200.1	52.000	50	24	20	69	31	80	1.82e-14	62.8
Msa0316090	AT4G01060.2	56.818	44	19	20	63	30	73	7.71e-14	60.1
Msa0316090	AT4G01060.3	56.818	44	19	20	63	31	74	8.63e-14	60.1
Msa0316090	AT4G01060.1	56.818	44	19	20	63	33	76	8.87e-14	60.1
Msa0316090	AT2G30420.1	47.826	46	24	20	65	38	83	6.29e-12	56.2
Msa0316090	AT2G30424.1	53.659	41	19	20	60	34	74	2.83e-11	54.3
Msa0316090	AT5G52600.1	45.455	44	24	22	65	70	113	3.34e-11	56.2
Msa0316090	AT3G13540.1	52.500	40	19	23	62	82	121	5.32e-11	56.2

Find 10 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATATCTTCTGGGGTTCTTCC+TGG	0.250868	2_4:-12925152	None:intergenic
GCAAAGATATCTTCCTCTTC+TGG	0.290884	2_4:-12924891	None:intergenic
TGTTTAGATTGGTTGGAAAA+AGG	0.291636	2_4:+12924919	Msa0316090:CDS
CTCATTGCTGGAAGAATTCC+AGG	0.344017	2_4:+12925134	Msa0316090:CDS
GATGAAACGTGAGGCTGAAT+TGG	0.367460	2_4:+12924860	Msa0316090:CDS
CTTTGCGAAAATGTTTAGAT+TGG	0.386231	2_4:+12924908	Msa0316090:CDS
TGTAGATGGCATCTCATTGC+TGG	0.394303	2_4:+12925122	Msa0316090:intron
GCGAAAATGTTTAGATTGGT+TGG	0.398939	2_4:+12924912	Msa0316090:CDS
CAGAAGATATTGAAAAGTAT+TGG	0.446559	2_4:+12925165	Msa0316090:CDS
TTCAGATCAGATGAAACGTG+AGG	0.676121	2_4:+12924851	Msa0316090:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AATACTTTTCAATATCTTCT+GGG	-	chr2_4:12925166-12925185	None:intergenic	20.0%
!!	ATACTTTTCAATATCTTCTG+GGG	-	chr2_4:12925165-12925184	None:intergenic	25.0%
!!	CAATACTTTTCAATATCTTC+TGG	-	chr2_4:12925167-12925186	None:intergenic	25.0%
!!	CAGAAGATATTGAAAAGTAT+TGG	+	chr2_4:12925165-12925184	Msa0316090:CDS	25.0%
	CTTTGCGAAAATGTTTAGAT+TGG	+	chr2_4:12924908-12924927	Msa0316090:CDS	30.0%
!	TGTTTAGATTGGTTGGAAAA+AGG	+	chr2_4:12924919-12924938	Msa0316090:CDS	30.0%
	CGTACATTGTTAATTGTAGA+TGG	+	chr2_4:12925108-12925127	Msa0316090:intron	30.0%
!	ATTGGAATTTTCACCAGAAG+AGG	+	chr2_4:12924878-12924897	Msa0316090:CDS	35.0%
	GCGAAAATGTTTAGATTGGT+TGG	+	chr2_4:12924912-12924931	Msa0316090:CDS	35.0%
	TTCAGATCAGATGAAACGTG+AGG	+	chr2_4:12924851-12924870	Msa0316090:CDS	40.0%
	GCAAAGATATCTTCCTCTTC+TGG	-	chr2_4:12924894-12924913	None:intergenic	40.0%
	ATCAAGTGTGTGCATATGCA+AGG	-	chr2_4:12925040-12925059	None:intergenic	40.0%
	GATGAAACGTGAGGCTGAAT+TGG	+	chr2_4:12924860-12924879	Msa0316090:CDS	45.0%
	GCATATGCACACACTTGATG+AGG	+	chr2_4:12925041-12925060	Msa0316090:intron	45.0%
	AGGCAATTAGCATCATGTGC+TGG	+	chr2_4:12925061-12925080	Msa0316090:intron	45.0%
	TGTAGATGGCATCTCATTGC+TGG	+	chr2_4:12925122-12925141	Msa0316090:intron	45.0%
	CTCATTGCTGGAAGAATTCC+AGG	+	chr2_4:12925134-12925153	Msa0316090:CDS	45.0%
!!	ATATCTTCTGGGGTTCTTCC+TGG	-	chr2_4:12925155-12925174	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	12924822	12925220	12924822	ID=Msa0316090;Name=Msa0316090
chr2_4	mRNA	12924822	12925220	12924822	ID=Msa0316090-mRNA-1;Parent=Msa0316090;Name=Msa0316090-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0\|0\|0\|1\|1\|1\|2\|0\|70
chr2_4	exon	12924822	12924940	12924822	ID=Msa0316090-mRNA-1:exon:4909;Parent=Msa0316090-mRNA-1
chr2_4	exon	12925127	12925220	12925127	ID=Msa0316090-mRNA-1:exon:4910;Parent=Msa0316090-mRNA-1
chr2_4	CDS	12924822	12924940	12924822	ID=Msa0316090-mRNA-1:cds;Parent=Msa0316090-mRNA-1
chr2_4	CDS	12925127	12925220	12925127	ID=Msa0316090-mRNA-1:cds;Parent=Msa0316090-mRNA-1

Gene Sequence	>Msa0316090 ATGATAAGGCTGTATTTGTTACTTGTTGTTTCAGATCAGATGAAACGTGAGGCTGAATTGGAATTTTCACCAGAAGAGGAAGATATCTTTGCGAAAATGTTTAGATTGGTTGGAAAAAGATGGCATCTCATTGCTGGAAGAATTCCAGGAAGAACCCCAGAAGATATTGAAAAGTATTGGACATCAAAATTCTCTTCATCAACTGCATGTTAA
Protein sequence	>Msa0316090 MIRLYLLLVVSDQMKREAELEFSPEEEDIFAKMFRLVGKRWHLIAGRIPGRTPEDIEKYWTSKFSSSTAC*