AlfalfaGEDB | Msa1458490

M. sativa cultivar zhongmu-4 / Msa1458490

KEGG: -
GO: GO:0000976 GO:0000977 GO:0000981 GO:0001012 GO:0001067 GO:0001085 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0007275 GO:0007623 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009628 GO:0009791 GO:0009845 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048511 GO:0048518 GO:0048522 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090351 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141
PFAM: PF00320.30

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1458490	RHN82753.1	85.507	69	9	1	1	69	129	196	7.27e-34	125

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1458490	sp\|Q9SV30\|GATA8_ARATH	84.783	46	7	0	24	69	228	273	7.71e-24	94.0

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1458490	A0A396K4B7	85.507	69	9	1	1	69	129	196	3.47e-34	125

TFs/TRs:

Gene ID	Type	Classification
Msa1458490	TF	C2C2-GATA

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
Msa1458490	MtrunA17_Chr1g0213161	85.507	69	9	1	1	69	129	196	6.69e-38	125
Msa1458490	MtrunA17_Chr1g0199671	71.875	64	15	1	9	69	223	286	3.04e-25	94.7
Msa1458490	MtrunA17_Chr4g0028961	80.000	45	9	0	25	69	232	276	1.21e-22	87.8
Msa1458490	MtrunA17_Chr1g0146231	77.778	45	10	0	25	69	234	278	2.21e-22	87.4
Msa1458490	MtrunA17_Chr2g0326771	57.576	66	28	0	2	67	193	258	4.52e-22	86.3
Msa1458490	MtrunA17_Chr8g0340401	63.333	60	22	0	10	69	211	270	1.84e-21	84.7
Msa1458490	MtrunA17_Chr3g0140331	80.000	45	9	0	25	69	253	297	1.97e-21	85.1
Msa1458490	MtrunA17_Chr4g0035891	60.938	64	21	1	4	67	194	253	3.53e-21	83.6
Msa1458490	MtrunA17_Chr1g0169431	71.429	49	14	0	20	68	167	215	8.60e-21	81.6
Msa1458490	MtrunA17_Chr5g0395391	72.917	48	13	0	20	67	265	312	1.15e-20	82.8
Msa1458490	MtrunA17_Chr5g0395391	68.750	48	15	0	20	67	163	210	6.16e-19	77.8
Msa1458490	MtrunA17_Chr8g0372291	79.070	43	9	0	25	67	218	260	2.21e-20	81.3
Msa1458490	MtrunA17_Chr7g0253101	76.744	43	10	0	25	67	188	230	2.44e-20	80.9
Msa1458490	MtrunA17_Chr6g0461591	76.744	43	10	0	25	67	192	234	3.03e-20	80.5
Msa1458490	MtrunA17_Chr5g0404981	79.070	43	9	0	25	67	300	342	3.70e-20	81.6
Msa1458490	MtrunA17_Chr3g0145121	73.333	45	12	0	23	67	213	257	2.25e-19	78.6
Msa1458490	MtrunA17_Chr7g0232671	64.444	45	16	0	25	69	187	231	2.48e-16	70.1
Msa1458490	MtrunA17_Chr5g0404131	46.296	54	29	0	4	57	171	224	8.83e-15	66.2
Msa1458490	MtrunA17_Chr7g0271861	63.415	41	15	0	22	62	19	59	1.95e-13	60.1
Msa1458490	MtrunA17_Chr8g0373231	61.111	36	14	0	22	57	122	157	9.55e-13	60.1
Msa1458490	MtrunA17_Chr7g0232701	51.020	49	24	0	21	69	69	117	1.15e-12	58.5
Msa1458490	MtrunA17_Chr7g0232681	51.020	49	24	0	21	69	128	176	1.71e-12	58.9

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1458490	AT3G54810.1	84.783	46	7	0	24	69	228	273	7.84e-25	94.0
Msa1458490	AT3G54810.2	84.783	46	7	0	24	69	228	273	7.84e-25	94.0
Msa1458490	AT4G32890.1	75.556	45	11	0	25	69	197	241	3.68e-23	89.4
Msa1458490	AT3G24050.1	66.154	65	16	1	3	67	178	236	6.08e-23	88.2
Msa1458490	AT5G25830.1	77.778	45	10	0	25	69	219	263	3.26e-22	87.0
Msa1458490	AT1G08010.2	72.549	51	14	0	19	69	214	264	5.54e-22	86.3
Msa1458490	AT1G08010.1	72.549	51	14	0	19	69	214	264	5.54e-22	86.3
Msa1458490	AT1G08010.3	72.549	51	14	0	19	69	214	264	5.54e-22	86.3
Msa1458490	AT4G34680.1	74.468	47	12	0	21	67	176	222	6.71e-22	85.5
Msa1458490	AT4G34680.2	74.468	47	12	0	21	67	176	222	6.71e-22	85.5
Msa1458490	AT3G60530.1	75.556	45	11	0	25	69	158	202	5.82e-21	82.4
Msa1458490	AT2G45050.1	71.739	46	13	0	24	69	178	223	9.13e-21	82.4
Msa1458490	AT5G66320.2	60.000	65	26	0	3	67	227	291	4.19e-20	81.6
Msa1458490	AT5G66320.1	60.000	65	26	0	3	67	227	291	4.19e-20	81.6
Msa1458490	AT1G08000.2	72.340	47	13	0	23	69	216	262	1.07e-19	80.1
Msa1458490	AT1G08000.1	72.340	47	13	0	23	69	216	262	1.07e-19	80.1
Msa1458490	AT3G51080.1	76.744	43	10	0	25	67	221	263	5.17e-19	78.2
Msa1458490	AT2G28340.1	72.093	43	12	0	27	69	193	235	2.90e-18	75.9
Msa1458490	AT4G36240.1	73.333	45	12	0	23	67	162	206	1.52e-17	73.2
Msa1458490	AT3G45170.1	60.417	48	19	0	22	69	112	159	5.66e-17	71.2
Msa1458490	AT4G36620.1	57.500	40	15	1	18	57	70	107	3.19e-12	58.9
Msa1458490	AT2G18380.1	60.000	35	14	0	23	57	90	124	4.00e-12	58.5
Msa1458490	AT4G26150.1	57.895	38	16	0	18	55	192	229	6.58e-12	58.9
Msa1458490	AT3G50870.1	58.333	36	15	0	22	57	149	184	1.34e-11	57.8
Msa1458490	AT5G56860.1	54.762	42	19	0	16	57	221	262	2.82e-11	57.0
Msa1458490	AT5G26930.1	56.757	37	16	0	24	60	25	61	4.99e-11	54.3

Find 23 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTAGCAACAGGCCGGTATTC+AGG	0.202243	tig0039660:+31	Msa1458490:intergenic
GAAAATGTTGGGCTAGCAAC+AGG	0.436477	tig0039660:+19	Msa1458490:intergenic
TAGCAACAGGCCGGTATTCA+GGG	0.446393	tig0039660:+32	Msa1458490:intergenic
TCTGCAATGCTTGCGGCGTT+CGG	0.448102	tig0039660:-81	Msa1458490:CDS
GCGCCTCTTCTTGCTGCTCC+AGG	0.448261	tig0039660:-199	Msa1458490:CDS
CAATGGAGGTCAGGGCCAGA+GGG	0.460506	tig0039660:-115	Msa1458490:CDS
TGACCTCCATTGTGGTGTCT+TGG	0.470363	tig0039660:+120	Msa1458490:intergenic
TGCGGCGTTCGGTACAAGTC+AGG	0.475560	tig0039660:-70	Msa1458490:CDS
AAGACACCACAATGGAGGTC+AGG	0.476853	tig0039660:-124	Msa1458490:CDS
ACCAAAGTATTATGATCTCC+TGG	0.478922	tig0039660:+175	Msa1458490:intergenic
GCCGACTTTGCCCTGAATAC+CGG	0.496140	tig0039660:-48	Msa1458490:CDS
ACAATGGAGGTCAGGGCCAG+AGG	0.512229	tig0039660:-116	Msa1458490:CDS
TCCAGGAGATCATAATACTT+TGG	0.514433	tig0039660:-182	Msa1458490:CDS
TCTGGCCCTGACCTCCATTG+TGG	0.574213	tig0039660:+112	Msa1458490:intergenic
GCCGGTATTCAGGGCAAAGT+CGG	0.582975	tig0039660:+41	Msa1458490:intergenic
AGACACCACAATGGAGGTCA+GGG	0.625833	tig0039660:-123	Msa1458490:CDS
ATGTTGGGCTAGCAACAGGC+CGG	0.635385	tig0039660:+23	Msa1458490:intergenic
TCTCCTGGAGCAGCAAGAAG+AGG	0.648108	tig0039660:+190	Msa1458490:intergenic
AAAACACTCTGCAATGCTTG+CGG	0.650171	tig0039660:-88	Msa1458490:CDS
AATGGAGGTCAGGGCCAGAG+GGG	0.656879	tig0039660:-114	Msa1458490:CDS
CGACCAAGACACCACAATGG+AGG	0.657049	tig0039660:-129	Msa1458490:CDS
AGGCGACCAAGACACCACAA+TGG	0.710774	tig0039660:-132	Msa1458490:CDS
GAAGAAATGCATGCATTGTG+AGG	0.712899	tig0039660:-152	Msa1458490:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	CTTTGTTTTCTTTTTCTTCT+TGG	+	tig0039660:37-56	Msa1358050:intergenic	25.0%
!	CAAGAAGAAAAAGAAAACAA+AGG	-	tig0039660:35-54	Msa1458490:CDS	25.0%
	TCCAGGAGATCATAATACTT+TGG	-	tig0039660:74-93	Msa1458490:CDS	35.0%
!	ACCAAAGTATTATGATCTCC+TGG	+	tig0039660:78-97	Msa1458490:intergenic	35.0%
	GAAGAAATGCATGCATTGTG+AGG	-	tig0039660:104-123	Msa1458490:CDS	40.0%
!!	CAAGCATTGCAGAGTGTTTT+CGG	+	tig0039660:168-187	Msa1458490:intergenic	40.0%
	AAAACACTCTGCAATGCTTG+CGG	-	tig0039660:168-187	Msa1458490:CDS	40.0%
	TGACCTCCATTGTGGTGTCT+TGG	+	tig0039660:133-152	Msa1458490:intergenic	50.0%
	AAGACACCACAATGGAGGTC+AGG	-	tig0039660:132-151	Msa1458490:CDS	50.0%
	AGACACCACAATGGAGGTCA+GGG	-	tig0039660:133-152	Msa1458490:CDS	50.0%
	TCTCCTGGAGCAGCAAGAAG+AGG	+	tig0039660:63-82	Msa1458490:intergenic	55.0%
	AGGCGACCAAGACACCACAA+TGG	-	tig0039660:124-143	Msa1458490:CDS	55.0%
	CGACCAAGACACCACAATGG+AGG	-	tig0039660:127-146	Msa1458490:CDS	55.0%
	TCTGCAATGCTTGCGGCGTT+CGG	-	tig0039660:175-194	Msa1458490:CDS	55.0%
!	GCCGACTTTGCCCTGAATAC+CGG	-	tig0039660:208-227	Msa1458490:CDS	55.0%
	GCCGGTATTCAGGGCAAAGT+CGG	+	tig0039660:212-231	Msa1458490:intergenic	55.0%
	TCTGGCCCTGACCTCCATTG+TGG	+	tig0039660:141-160	Msa1458490:intergenic	60.0%
	ACAATGGAGGTCAGGGCCAG+AGG	-	tig0039660:140-159	Msa1458490:CDS	60.0%
	CAATGGAGGTCAGGGCCAGA+GGG	-	tig0039660:141-160	Msa1458490:CDS	60.0%
	AATGGAGGTCAGGGCCAGAG+GGG	-	tig0039660:142-161	Msa1458490:CDS	60.0%
!!	CAGAGTGTTTTCGGCCCCTC+TGG	+	tig0039660:159-178	Msa1458490:intergenic	60.0%
	TGCGGCGTTCGGTACAAGTC+AGG	-	tig0039660:186-205	Msa1458490:CDS	60.0%
	GCGCCTCTTCTTGCTGCTCC+AGG	-	tig0039660:57-76	Msa1458490:CDS	65.0%

Chromosome	Type	Strat	End	Strand	Name
tig0039660	gene	33	239	33	ID=Msa1458490;Name=Msa1458490
tig0039660	mRNA	33	239	33	ID=Msa1458490-mRNA-1;Parent=Msa1458490;Name=Msa1458490-mRNA-1;_AED=0.20;_eAED=0.20;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|69
tig0039660	exon	33	239	33	ID=Msa1458490-mRNA-1:exon:21776;Parent=Msa1458490-mRNA-1
tig0039660	CDS	33	239	33	ID=Msa1458490-mRNA-1:cds;Parent=Msa1458490-mRNA-1

Gene Sequence	>Msa1458490 TCCAAGAAGAAAAAGAAAACAAAGGCGCCTCTTCTTGCTGCTCCAGGAGATCATAATACTTTGGTACTTGTGAAGAAATGCATGCATTGTGAGGCGACCAAGACACCACAATGGAGGTCAGGGCCAGAGGGGCCGAAAACACTCTGCAATGCTTGCGGCGTTCGGTACAAGTCAGGCCGACTTTGCCCTGAATACCGGCCTGTTGCT
Protein sequence	>Msa1458490 SKKKKKTKAPLLAAPGDHNTLVLVKKCMHCEATKTPQWRSGPEGPKTLCNACGVRYKSGRLCPEYRPVA