AlfalfaGEDB | Msa0030910

M. sativa cultivar zhongmu-4 / Msa0030910

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00319.21

Nr:

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

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0030910	sp\|Q9FJK3\|AGL80_ARATH	44.444	153	82	3	1	150	1	153	1.30e-28	110

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
Msa0030910	TF	MADS-M-type

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
Msa0030910	MtrunA17_Chr1g0188651	89.809	157	16	0	1	157	1	157	2.23e-92	265
Msa0030910	MtrunA17_Chr1g0188661	76.730	159	35	1	1	157	1	159	1.24e-79	233
Msa0030910	MtrunA17_Chr4g0012761	76.101	159	36	1	1	157	1	159	3.08e-77	226
Msa0030910	MtrunA17_Chr7g0218151	76.101	159	36	1	1	157	1	159	4.28e-77	226
Msa0030910	MtrunA17_Chr1g0188681	70.064	157	45	1	1	155	1	157	1.75e-73	217
Msa0030910	MtrunA17_Chr1g0193311	76.923	156	34	1	1	154	1	156	5.35e-73	216
Msa0030910	MtrunA17_Chr5g0420351	70.513	156	44	1	1	154	1	156	1.20e-72	215
Msa0030910	MtrunA17_Chr1g0197461	57.143	154	64	1	2	153	1	154	8.44e-56	172
Msa0030910	MtrunA17_Chr1g0197261	55.769	156	67	1	1	154	1	156	1.69e-54	169
Msa0030910	MtrunA17_Chr1g0197321	52.229	157	72	1	1	154	1	157	1.28e-51	161
Msa0030910	MtrunA17_Chr5g0432691	37.821	156	94	2	1	153	1	156	1.07e-35	121
Msa0030910	MtrunA17_Chr3g0107381	41.830	153	86	2	1	150	1	153	3.76e-34	119
Msa0030910	MtrunA17_Chr4g0014321	37.013	154	93	2	1	150	1	154	2.38e-33	117
Msa0030910	MtrunA17_Chr3g0110131	43.949	157	85	2	1	154	1	157	1.35e-31	113
Msa0030910	MtrunA17_Chr3g0107461	37.126	167	89	3	1	157	1	161	1.51e-31	110
Msa0030910	MtrunA17_Chr4g0013041	37.342	158	87	4	1	151	1	153	3.70e-31	111
Msa0030910	MtrunA17_Chr3g0107331	41.772	158	89	2	2	156	1	158	5.29e-31	109
Msa0030910	MtrunA17_Chr3g0107351	40.252	159	92	2	2	157	1	159	2.67e-29	105
Msa0030910	MtrunA17_Chr4g0014031	39.130	161	94	2	1	157	1	161	5.07e-29	106
Msa0030910	MtrunA17_Chr3g0107361	39.623	159	93	2	2	157	1	159	5.75e-29	104
Msa0030910	MtrunA17_Chr8g0351751	38.125	160	93	2	1	154	1	160	8.08e-29	106
Msa0030910	MtrunA17_Chr4g0014131	39.130	161	94	2	1	157	1	161	3.12e-27	101
Msa0030910	MtrunA17_Chr2g0283941	37.662	154	92	2	1	150	1	154	2.72e-26	99.8
Msa0030910	MtrunA17_Chr3g0107341	37.107	159	97	2	2	157	1	159	4.05e-26	97.1
Msa0030910	MtrunA17_Chr4g0014121	38.509	161	93	3	1	156	29	188	8.13e-26	97.1
Msa0030910	MtrunA17_Chr2g0296831	43.478	115	64	1	1	114	1	115	3.28e-25	93.6
Msa0030910	MtrunA17_Chr3g0105791	36.090	133	81	2	29	157	1	133	5.49e-23	88.6
Msa0030910	MtrunA17_Chr4g0031421	36.090	133	81	2	29	157	1	133	7.58e-23	88.2
Msa0030910	MtrunA17_Chr4g0008701	33.600	125	78	2	3	126	6	126	4.60e-20	85.9
Msa0030910	MtrunA17_Chr3g0106501	34.351	131	82	2	29	155	1	131	3.20e-19	79.0
Msa0030910	MtrunA17_Chr7g0267601	36.111	108	68	1	3	109	6	113	3.75e-19	83.2
Msa0030910	MtrunA17_Chr2g0296861	35.948	153	95	2	1	150	1	153	6.87e-19	78.2
Msa0030910	MtrunA17_Chr3g0106421	33.858	127	78	3	29	150	1	126	2.76e-18	78.2
Msa0030910	MtrunA17_Chr3g0128721	31.579	133	83	3	3	132	6	133	8.10e-16	73.6
Msa0030910	MtrunA17_Chr1g0162261	40.000	100	55	2	62	157	20	118	5.06e-13	62.0
Msa0030910	MtrunA17_Chr1g0162181	40.404	99	56	1	62	157	20	118	5.57e-13	62.0
Msa0030910	MtrunA17_Chr1g0161931	38.298	94	55	1	64	154	28	121	7.75e-13	61.6
Msa0030910	MtrunA17_Chr6g0449861	30.357	112	72	3	1	106	9	120	8.46e-11	58.9

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0030910	AT3G05860.2	46.491	114	60	1	1	113	1	114	1.55e-30	110
Msa0030910	AT3G05860.3	46.491	114	60	1	1	113	1	114	3.78e-30	110
Msa0030910	AT3G05860.1	46.491	114	60	1	1	113	1	114	5.29e-30	110
Msa0030910	AT5G26630.1	41.830	153	86	2	1	150	1	153	1.08e-29	108
Msa0030910	AT5G48670.1	44.444	153	82	3	1	150	1	153	1.32e-29	110
Msa0030910	AT1G65330.1	39.189	148	87	2	2	146	1	148	4.28e-28	105
Msa0030910	AT1G65300.1	36.184	152	94	2	2	150	1	152	1.09e-27	104
Msa0030910	AT5G26650.1	40.260	154	81	4	4	150	2	151	5.17e-27	104
Msa0030910	AT5G27960.1	45.045	111	60	1	4	113	2	112	1.84e-25	99.4
Msa0030910	AT1G22590.2	35.976	164	83	4	1	153	1	153	9.81e-24	91.3
Msa0030910	AT1G31630.1	31.847	157	99	4	2	153	1	154	1.57e-23	94.4
Msa0030910	AT1G31640.1	42.478	113	63	2	2	113	1	112	1.09e-21	90.5
Msa0030910	AT2G28700.1	38.596	114	69	1	1	113	1	114	6.37e-21	87.4
Msa0030910	AT5G27810.1	43.529	85	47	1	29	112	1	85	7.13e-19	77.4
Msa0030910	AT5G26580.1	38.938	113	56	1	1	113	1	100	3.08e-18	80.1
Msa0030910	AT2G40210.1	37.864	103	59	2	1	100	1	101	1.25e-11	61.6

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GCTGCAAGAGAAAAGTTTCT+TGG	0.265401	1_1:+57412710	None:intergenic
GAGCTAAAGATTCGTATAAA+TGG	0.316885	1_1:-57412631	Msa0030910:CDS
CTCCTTTCTTCTTGAAGCAT+TGG	0.353516	1_1:+57412927	None:intergenic
AAATCTGAAGGAAGCAAAAC+AGG	0.418438	1_1:-57412785	Msa0030910:CDS
TCTGAAACAGTCAAATCATC+TGG	0.455315	1_1:+57412592	None:intergenic
CTCCAATGCTTCAAGAAGAA+AGG	0.468651	1_1:-57412929	Msa0030910:CDS
CAAGGCCATGGTTCGGAAGA+AGG	0.471800	1_1:-57412968	None:intergenic
TACATTGCAAGGCCATGGTT+CGG	0.507534	1_1:-57412975	None:intergenic
GACATACAGAAAGAGAAAGA+AGG	0.512113	1_1:-57412905	Msa0030910:CDS
AGAGAACTCACTATTCTTTG+TGG	0.526508	1_1:-57412865	Msa0030910:CDS
ACATACAGAAAGAGAAAGAA+GGG	0.541098	1_1:-57412904	Msa0030910:CDS
TGCAGCAGATTACTAAAGCT+AGG	0.546331	1_1:-57412693	Msa0030910:CDS
AAACAGTCAAATCATCTGGC+AGG	0.548613	1_1:+57412596	None:intergenic
AGGATCGGAAATTATAGCAC+AGG	0.559456	1_1:+57412834	None:intergenic
AGAGGTGTGGCCAAATCTGA+AGG	0.570010	1_1:-57412797	Msa0030910:CDS
TCGGAAATTATAGCACAGGC+TGG	0.570119	1_1:+57412838	None:intergenic
AAAGAAGGGTATCATCAAGA+AGG	0.577075	1_1:-57412890	Msa0030910:CDS
CTTCACCTTCTTCCGAACCA+TGG	0.581108	1_1:+57412963	None:intergenic
GCAGCAGATTACTAAAGCTA+GGG	0.592338	1_1:-57412692	Msa0030910:CDS
AAGCAAAACAGGTGATTGAG+AGG	0.611042	1_1:-57412774	Msa0030910:CDS
GAAACAAGACAATCGTGAGA+AGG	0.628912	1_1:-57412653	Msa0030910:CDS
TTGATTCTAAAACAGAGGTG+TGG	0.633348	1_1:-57412810	Msa0030910:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	GATAATTGAGAAAAATATGA+AGG	-	chr1_1:57412920-57412939	Msa0030910:CDS	20.0%
!!!	TGTTTTAGAATCAAAAGGAT+CGG	+	chr1_1:57412655-57412674	None:intergenic	25.0%
	ACATACAGAAAGAGAAAGAA+GGG	-	chr1_1:57412567-57412586	Msa0030910:CDS	30.0%
!!!	TCCTTTTGATTCTAAAACAG+AGG	-	chr1_1:57412656-57412675	Msa0030910:CDS	30.0%
!!!	ACCTCTGTTTTAGAATCAAA+AGG	+	chr1_1:57412660-57412679	None:intergenic	30.0%
	GAGCTAAAGATTCGTATAAA+TGG	-	chr1_1:57412840-57412859	Msa0030910:CDS	30.0%
	GACATACAGAAAGAGAAAGA+AGG	-	chr1_1:57412566-57412585	Msa0030910:CDS	35.0%
!!	AAAGAAGGGTATCATCAAGA+AGG	-	chr1_1:57412581-57412600	Msa0030910:CDS	35.0%
	AGAGAACTCACTATTCTTTG+TGG	-	chr1_1:57412606-57412625	Msa0030910:CDS	35.0%
!!	TTGATTCTAAAACAGAGGTG+TGG	-	chr1_1:57412661-57412680	Msa0030910:CDS	35.0%
!	TGTTTTGCTTCCTTCAGATT+TGG	+	chr1_1:57412687-57412706	None:intergenic	35.0%
	AAATCTGAAGGAAGCAAAAC+AGG	-	chr1_1:57412686-57412705	Msa0030910:CDS	35.0%
!	TCTGAAACAGTCAAATCATC+TGG	+	chr1_1:57412882-57412901	None:intergenic	35.0%
	CTCCAATGCTTCAAGAAGAA+AGG	-	chr1_1:57412542-57412561	Msa0030910:CDS	40.0%
	CTCCTTTCTTCTTGAAGCAT+TGG	+	chr1_1:57412547-57412566	None:intergenic	40.0%
	AGGATCGGAAATTATAGCAC+AGG	+	chr1_1:57412640-57412659	None:intergenic	40.0%
	AAGCAAAACAGGTGATTGAG+AGG	-	chr1_1:57412697-57412716	Msa0030910:CDS	40.0%
	GCTGCAAGAGAAAAGTTTCT+TGG	+	chr1_1:57412764-57412783	None:intergenic	40.0%
	TGCAGCAGATTACTAAAGCT+AGG	-	chr1_1:57412778-57412797	Msa0030910:CDS	40.0%
	GCAGCAGATTACTAAAGCTA+GGG	-	chr1_1:57412779-57412798	Msa0030910:CDS	40.0%
	GAAACAAGACAATCGTGAGA+AGG	-	chr1_1:57412818-57412837	Msa0030910:CDS	40.0%
	AAACAGTCAAATCATCTGGC+AGG	+	chr1_1:57412878-57412897	None:intergenic	40.0%
	TCGGAAATTATAGCACAGGC+TGG	+	chr1_1:57412636-57412655	None:intergenic	45.0%
!	AGAGGTGTGGCCAAATCTGA+AGG	-	chr1_1:57412674-57412693	Msa0030910:CDS	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	57412510	57412983	57412510	ID=Msa0030910;Name=Msa0030910
chr1_1	mRNA	57412510	57412983	57412510	ID=Msa0030910-mRNA-1;Parent=Msa0030910;Name=Msa0030910-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|157
chr1_1	exon	57412510	57412983	57412510	ID=Msa0030910-mRNA-1:exon:17382;Parent=Msa0030910-mRNA-1
chr1_1	CDS	57412510	57412983	57412510	ID=Msa0030910-mRNA-1:cds;Parent=Msa0030910-mRNA-1

Gene Sequence

>Msa0030910

ATGGTTCGGAAGAAGGTGAAGCTTGCTTTTATCTCCAATGCTTCAAGAAGAAAGGAGACATACAGAAAGAGAAAGAAGGGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTCCAGCCTGTGCTATAATTTCCGATCCTTTTGATTCTAAAACAGAGGTGTGGCCAAATCTGAAGGAAGCAAAACAGGTGATTGAGAGGTATCAGAACTCATATATGAAAGATGATAAAAAGAATGTGAACCAAGAAACTTTTCTCTTGCAGCAGATTACTAAAGCTAGGGAACAACTGAAAAAGCTGAAACAAGACAATCGTGAGAAGGAGCTAAAGATTCGTATAAATGGATACATGCAAAACCTGCCAGATGATTTGACTGTTTCAGATTTGAAAGAACTTGATACGATAATTGAGAAAAATATGAAGGAAATTGATGAAAAGATTGTCGCACTCAATTTATCAGATTGA

Protein sequence

>Msa0030910

MVRKKVKLAFISNASRRKETYRKRKKGIIKKVRELTILCGIPACAIISDPFDSKTEVWPNLKEAKQVIERYQNSYMKDDKKNVNQETFLLQQITKAREQLKKLKQDNREKELKIRINGYMQNLPDDLTVSDLKELDTIIEKNMKEIDEKIVALNLSD*