AlfalfaGEDB | Msa1355060

M. sativa cultivar zhongmu-4 / Msa1355060

KEGG: K02710|K02712
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
PFAM: PF02533.18

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1355060	RDY14692.1	90.722	97	9	0	1	97	4	100	7.75e-56	178

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1355060	sp\|Q49L15\|PSBK_EUCGG	91.667	60	5	0	1	60	1	60	1.80e-32	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
Msa1355060	A0A371II05	90.722	97	9	0	1	97	4	100	3.70e-56	178

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0035090	Msa1355060	0.803712	3.058358e-49	-8.615850e-47
Msa0095140	Msa1355060	0.863069	3.237231e-64	-8.615850e-47
Msa0095180	Msa1355060	0.813707	2.233021e-51	-8.615850e-47
Msa0095200	Msa1355060	0.868036	8.795176e-66	-8.615850e-47
Msa0095240	Msa1355060	0.823846	1.111845e-53	-8.615850e-47
Msa0095270	Msa1355060	0.847064	1.464986e-59	-8.615850e-47
Msa0095300	Msa1355060	0.805581	1.246101e-49	-8.615850e-47
Msa1354850	Msa1355060	0.848675	5.269677e-60	-8.615850e-47
Msa1354890	Msa1355060	0.917640	4.150017e-86	-8.615850e-47
Msa1355020	Msa1355060	0.830117	3.518017e-55	-8.615850e-47
Msa1355060	Msa1380540	0.844910	5.640012e-59	-8.615850e-47
Msa1355060	Msa1380580	0.821899	3.158633e-53	-8.615850e-47
Msa1355060	Msa1385940	0.805653	1.203029e-49	-8.615850e-47
Msa1355060	Msa1394050	0.855066	8.092028e-62	-8.615850e-47
Msa1355060	Msa1394090	0.834100	3.642976e-56	-8.615850e-47
Msa1355060	Msa1394100	0.833860	4.184675e-56	-8.615850e-47
Msa1355060	Msa1394140	0.902288	1.130115e-78	-8.615850e-47
Msa1355060	Msa1394240	0.852131	5.645967e-61	-8.615850e-47
Msa1355060	Msa1394280	0.820403	6.985782e-53	-8.615850e-47
Msa1355060	Msa1422750	0.807799	4.236882e-50	-8.615850e-47
Msa0640880	Msa1355060	0.804492	2.104802e-49	-8.615850e-47
Msa0727020	Msa1355060	0.838200	3.312786e-57	-8.615850e-47
Msa0766880	Msa1355060	0.819410	1.178502e-52	-8.615850e-47
Msa0772210	Msa1355060	0.813050	3.114136e-51	-8.615850e-47
Msa0782330	Msa1355060	0.804079	2.566213e-49	-8.615850e-47
Msa0141670	Msa1355060	0.806953	6.401967e-50	-8.615850e-47
Msa0175900	Msa1355060	0.811817	5.789650e-51	-8.615850e-47
Msa0221860	Msa1355060	0.813592	2.367379e-51	-8.615850e-47
Msa0222070	Msa1355060	0.800722	1.261603e-48	-8.615850e-47
Msa0227290	Msa1355060	0.800110	1.680619e-48	-8.615850e-47
Msa1342030	Msa1355060	0.815671	8.204802e-52	-8.615850e-47
Msa0449930	Msa1355060	0.813122	3.003286e-51	-8.615850e-47
Msa0983670	Msa1355060	0.820114	8.138560e-53	-8.615850e-47
Msa0983710	Msa1355060	0.831723	1.420252e-55	-8.615850e-47
Msa0992570	Msa1355060	0.830289	3.194295e-55	-8.615850e-47
Msa0992590	Msa1355060	0.813020	3.161695e-51	-8.615850e-47
Msa1002040	Msa1355060	0.811458	6.932624e-51	-8.615850e-47
Msa1024580	Msa1355060	0.813510	2.468392e-51	-8.615850e-47
Msa1030280	Msa1355060	0.821565	3.773447e-53	-8.615850e-47
Msa1040770	Msa1355060	0.804521	2.076251e-49	-8.615850e-47
Msa1049440	Msa1355060	0.805399	1.360403e-49	-8.615850e-47
Msa1086020	Msa1355060	0.848366	6.416204e-60	-8.615850e-47
Msa1086060	Msa1355060	0.881004	3.439001e-70	-8.615850e-47
Msa1086160	Msa1355060	0.855044	8.213908e-62	-8.615850e-47
Msa1086170	Msa1355060	0.868589	5.836109e-66	-8.615850e-47
Msa1086260	Msa1355060	0.815677	8.178777e-52	-8.615850e-47
Msa1086290	Msa1355060	0.867503	1.304568e-65	-8.615850e-47
Msa1086330	Msa1355060	0.817359	3.435368e-52	-8.615850e-47
Msa1086340	Msa1355060	0.813289	2.759978e-51	-8.615850e-47
Msa1086370	Msa1355060	0.875708	2.490485e-68	-8.615850e-47
Msa1086440	Msa1355060	0.840300	9.447225e-58	-8.615850e-47
Msa1086480	Msa1355060	0.864142	1.503968e-64	-8.615850e-47
Msa1086520	Msa1355060	0.824418	8.159208e-54	-8.615850e-47
Msa1086630	Msa1355060	0.840745	7.227876e-58	-8.615850e-47
Msa1086690	Msa1355060	0.830456	2.906909e-55	-8.615850e-47
Msa1086830	Msa1355060	0.830990	2.150464e-55	-8.615850e-47
Msa1086870	Msa1355060	0.880107	7.206282e-70	-8.615850e-47
Msa1091690	Msa1355060	0.835849	1.320728e-56	-8.615850e-47
Msa0268180	Msa1355060	0.883767	3.393647e-71	-8.615850e-47
Msa0268220	Msa1355060	0.815628	8.388211e-52	-8.615850e-47
Msa0268340	Msa1355060	0.838422	2.903846e-57	-8.615850e-47
Msa0268380	Msa1355060	0.894530	2.262335e-75	-8.615850e-47
Msa0268420	Msa1355060	0.906167	1.980389e-80	-8.615850e-47
Msa0268460	Msa1355060	0.831443	1.664094e-55	-8.615850e-47
Msa0268500	Msa1355060	0.837459	5.132774e-57	-8.615850e-47
Msa0268540	Msa1355060	0.900924	4.500216e-78	-8.615850e-47
Msa0268650	Msa1355060	0.882268	1.201486e-70	-8.615850e-47
Msa0268690	Msa1355060	0.824231	9.029042e-54	-8.615850e-47
Msa0268730	Msa1355060	0.893262	7.406373e-75	-8.615850e-47
Msa0268760	Msa1355060	0.800776	1.229538e-48	-8.615850e-47
Msa0268850	Msa1355060	0.882095	1.388245e-70	-8.615850e-47
Msa0268900	Msa1355060	0.836965	6.868860e-57	-8.615850e-47
Msa0268930	Msa1355060	0.877503	5.965758e-69	-8.615850e-47
Msa0269060	Msa1355060	0.882470	1.014267e-70	-8.615850e-47
Msa0269100	Msa1355060	0.827449	1.554951e-54	-8.615850e-47
Msa0306130	Msa1355060	0.809472	1.860654e-50	-8.615850e-47
Msa0344200	Msa1355060	0.853667	2.053364e-61	-8.615850e-47
Msa0344240	Msa1355060	0.809869	1.528764e-50	-8.615850e-47
Msa0344250	Msa1355060	0.810308	1.229636e-50	-8.615850e-47
Msa1143140	Msa1355060	0.851202	1.034533e-60	-8.615850e-47
Msa1143150	Msa1355060	0.830483	2.863265e-55	-8.615850e-47
Msa1157160	Msa1355060	0.815452	9.177349e-52	-8.615850e-47
Msa0582530	Msa1355060	0.872301	3.532496e-67	-8.615850e-47
Msa0582570	Msa1355060	0.824683	7.069298e-54	-8.615850e-47
Msa0582580	Msa1355060	0.848402	6.270360e-60	-8.615850e-47
Msa0582620	Msa1355060	0.886581	3.020013e-72	-8.615850e-47
Msa0582710	Msa1355060	0.869386	3.219642e-66	-8.615850e-47
Msa0582740	Msa1355060	0.913572	5.266407e-84	-8.615850e-47
Msa0582830	Msa1355060	0.864103	1.547090e-64	-8.615850e-47
Msa0582900	Msa1355060	0.881944	1.574633e-70	-8.615850e-47
Msa0591370	Msa1355060	0.802754	4.828562e-49	-8.615850e-47
Msa0855490	Msa1355060	0.802427	5.640533e-49	-8.615850e-47
Msa0860270	Msa1355060	0.802074	6.665910e-49	-8.615850e-47
Msa0924860	Msa1355060	0.846734	1.803651e-59	-8.615850e-47
Msa0925020	Msa1355060	0.812680	3.753985e-51	-8.615850e-47
Msa0931090	Msa1355060	0.889416	2.469917e-73	-8.615850e-47
Msa0931150	Msa1355060	0.881373	2.533343e-70	-8.615850e-47
Msa0931200	Msa1355060	0.861009	1.386452e-63	-8.615850e-47
Msa0931280	Msa1355060	0.856438	3.216779e-62	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa1355060	MtrunA17_Chr4g0015681	96.667	60	2	1	60	1	60	7.64e-35	113
Msa1355060	MtrunA17_CPg0492901	96.667	60	2	1	60	1	60	7.64e-35	113
Msa1355060	MtrunA17_Chr4g0016771	96.667	60	2	1	60	1	60	7.64e-35	113

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1355060	ATCG00070.1	76.667	60	14	0	1	60	1	60	3.76e-26	92.0
Msa1355060	ATCG00080.1	97.222	36	1	0	62	97	1	36	2.92e-19	73.9

Find 6 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TATGCTTAATATCTTTAGCT+TGG	0.440922	tig0014543:+706021	None:intergenic
ACTGGCATAAAATCTACAAT+TGG	0.453871	tig0014543:-706124	None:intergenic
AATGATCCAGGACGTAATCC+TGG	0.474800	tig0014543:+706671	Msa1355060:CDS
GGATTCCTATCTAATGATCC+AGG	0.536202	tig0014543:+706659	Msa1355060:CDS
TCACGTCCAGGATTACGTCC+TGG	0.548081	tig0014543:-706677	None:intergenic
TACGTCCTGGATCATTAGAT+AGG	0.581605	tig0014543:-706664	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ATTCCAAATATTAAAATTTT+TGG	+	tig0014543:706311-706330	Msa1355060:intron	10.0%
!!!	TATCCAAAAATTTTAATATT+TGG	-	tig0014543:706317-706336	None:intergenic	10.0%
!!	ATTTCAAAAAAAAAAAACTT+AGG	-	tig0014543:706468-706487	None:intergenic	10.0%
!!!	AATTTTAATATTTGGAATCA+AGG	-	tig0014543:706309-706328	None:intergenic	15.0%
!!!	CGTTTTTTTTTTAATTATCT+TGG	+	tig0014543:706563-706582	Msa1355060:intron	15.0%
!!	GAAAAAACTACTTGAATAAA+GGG	-	tig0014543:706068-706087	None:intergenic	20.0%
!!	AGAAAAAACTACTTGAATAA+AGG	-	tig0014543:706069-706088	None:intergenic	20.0%
!!!	TTATTCAAGTAGTTTTTTCT+TGG	+	tig0014543:706069-706088	Msa1355060:CDS	20.0%
!!	TGAAAATTCTATTATTCGAT+TGG	+	tig0014543:706355-706374	Msa1355060:intron	20.0%
!!!	TGTGGATATGAAAAAAATTT+TGG	+	tig0014543:706406-706425	Msa1355060:intron	20.0%
!!	TCTTATAAACTTAGTATCAA+AGG	+	tig0014543:706497-706516	Msa1355060:intron	20.0%
!!!	TTTTTCTCTTAGCTTTTGTT+TGG	+	tig0014543:706161-706180	Msa1355060:CDS	25.0%
!!!	TTTGTTTCTCTTTTCATCTT+CGG	+	tig0014543:706638-706657	Msa1355060:CDS	25.0%
!	AATTGGATTCAAAAAAGCGT+AGG	-	tig0014543:706110-706129	None:intergenic	30.0%
	ACTGGCATAAAATCTACAAT+TGG	-	tig0014543:706127-706146	None:intergenic	30.0%
!!	AAAAAGAGTAAGGGTATTAC+TGG	-	tig0014543:706145-706164	None:intergenic	30.0%
	GCTAAGAGAAAAAAGAGTAA+GGG	-	tig0014543:706154-706173	None:intergenic	30.0%
	AGCTAAGAGAAAAAAGAGTA+AGG	-	tig0014543:706155-706174	None:intergenic	30.0%
!!	AATCAAGATCTAGGTATTGG+TGG	-	tig0014543:706387-706406	None:intergenic	35.0%
	CACAATCAAGATCTAGGTAT+TGG	-	tig0014543:706390-706409	None:intergenic	35.0%
	CAATACCTAGATCTTGATTG+TGG	+	tig0014543:706388-706407	Msa1355060:intron	35.0%
	CATATCCACAATCAAGATCT+AGG	-	tig0014543:706396-706415	None:intergenic	35.0%
	GAGAATCTATTCTCTTTCTC+TGG	+	tig0014543:706540-706559	Msa1355060:intron	35.0%
!	TTCAAAAAAGCGTAGGCTTC+AGG	-	tig0014543:706103-706122	None:intergenic	40.0%
	GGATTCCTATCTAATGATCC+AGG	+	tig0014543:706659-706678	Msa1355060:CDS	40.0%
	TACGTCCTGGATCATTAGAT+AGG	-	tig0014543:706667-706686	None:intergenic	40.0%
!!	CAAGATCTAGGTATTGGTGG+TGG	-	tig0014543:706384-706403	None:intergenic	45.0%
	AATGATCCAGGACGTAATCC+TGG	+	tig0014543:706671-706690	Msa1355060:CDS	45.0%
!!!	AATAAATTCTTAATTTTTTT+CGG	-	tig0014543:706232-706251	None:intergenic	5.0%
	TCACGTCCAGGATTACGTCC+TGG	-	tig0014543:706680-706699	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
tig0014543	gene	706022	706706	706022	ID=Msa1355060;Name=Msa1355060
tig0014543	mRNA	706022	706706	706022	ID=Msa1355060-mRNA-1;Parent=Msa1355060;Name=Msa1355060-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0\|0\|0\|1\|0\|0\|2\|0\|97
tig0014543	exon	706022	706196	706022	ID=Msa1355060-mRNA-1:exon:9320;Parent=Msa1355060-mRNA-1
tig0014543	exon	706588	706706	706588	ID=Msa1355060-mRNA-1:exon:9321;Parent=Msa1355060-mRNA-1
tig0014543	CDS	706022	706196	706022	ID=Msa1355060-mRNA-1:cds;Parent=Msa1355060-mRNA-1
tig0014543	CDS	706588	706706	706588	ID=Msa1355060-mRNA-1:cds;Parent=Msa1355060-mRNA-1

Gene Sequence	>Msa1355060 ATGCTTAATATCTTTAGCTTGGTCTGTATTTGTATTGACTCTGCCCTTTATTCAAGTAGTTTTTTCTTGGCAAAATTACCTGAAGCCTACGCTTTTTTGAATCCAATTGTAGATTTTATGCCAGTAATACCCTTACTCTTTTTTCTCTTAGCTTTTGTTTGGCAAGCTGCTGTAAATTTTGTAATGCTTACTCTAAAACTATTTGTTTACACGATAGTGATATTCTTTGTTTCTCTTTTCATCTTCGGATTCCTATCTAATGATCCAGGACGTAATCCTGGACGTGAAGAATAA
Protein sequence	>Msa1355060 MLNIFSLVCICIDSALYSSSFFLAKLPEAYAFLNPIVDFMPVIPLLFFLLAFVWQAAVNFVMLTLKLFVYTIVIFFVSLFIFGFLSNDPGRNPGREE*