AlfalfaGEDB | Msa0236250

M. sativa cultivar zhongmu-4 / Msa0236250

KEGG: -
GO: GO:0000003 GO:0001871 GO:0003006 GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0006950 GO:0006970 GO:0007155 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009628 GO:0009651 GO:0009791 GO:0009825 GO:0009897 GO:0009986 GO:0009987 GO:0010154 GO:0010191 GO:0010192 GO:0010214 GO:0016020 GO:0016049 GO:0022414 GO:0022610 GO:0030246 GO:0030247 GO:0031224 GO:0031225 GO:0031226 GO:0032501 GO:0032502 GO:0040007 GO:0044237 GO:0044249 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0048316 GO:0048354 GO:0048359 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071944 GO:0098552
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0236250	AES64093.2	63.393	112	32	2	1	110	1	105	1.69e-24	102

Swissprot:

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

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0236250	G7ILW6	63.393	112	32	2	1	110	1	105	8.07e-25	102

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0016570	Msa0236250	0.815673	8.194012e-52	-8.615850e-47
Msa0142220	Msa0236250	0.811019	8.629446e-51	-8.615850e-47
Msa0236250	Msa0537500	0.816850	4.470108e-52	-8.615850e-47
Msa0236250	Msa0678930	0.805730	1.159510e-49	-8.615850e-47
Msa0236250	Msa0887990	0.828661	7.940216e-55	-8.615850e-47
Msa0236250	Msa1077870	0.823886	1.088096e-53	-8.615850e-47
Msa0236250	Msa1146110	0.819903	9.096381e-53	-8.615850e-47
Msa0236250	Msa1160670	0.829323	5.488580e-55	-8.615850e-47
Msa0236250	Msa1187940	0.825550	4.410486e-54	-8.615850e-47
Msa0236250	Msa1187950	0.807016	6.208645e-50	-8.615850e-47
Msa0236250	Msa1438250	0.827241	1.744208e-54	-8.615850e-47

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
Msa0236250	MtrunA17_Chr2g0285201	63.393	112	32	2	1	110	25	129	6.13e-28	102
Msa0236250	MtrunA17_Chr2g0285241	61.607	112	33	3	1	110	25	128	1.44e-26	97.4

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

Find 18 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GCTAAGCGACTTATATCTTT+TGG	0.226803	2_2:-9187537	None:intergenic
ACGATATTTGTTCCTTAGTT+AGG	0.292233	2_2:-9187279	None:intergenic
TCGTTCTCAATTGTCCATAA+TGG	0.331059	2_2:+9187576	Msa0236250:CDS
GGTGGCGATGATGATGTTAT+TGG	0.350993	2_2:-9187241	None:intergenic
GTCATCAGGAACAAATATCT+TGG	0.381495	2_2:-9187489	None:intergenic
GTGGCGATGATGATGTTATT+GGG	0.393478	2_2:-9187240	None:intergenic
TGATGATGATGAGTAGTAAA+TGG	0.395156	2_2:-9187168	None:intergenic
TCTGTGAATGCTTTGTCATC+AGG	0.402731	2_2:-9187503	None:intergenic
CACTTTCTTTAAAGCAGCCT+CGG	0.472327	2_2:+9187327	Msa0236250:CDS
ATCATTCCTCAACCTAACTA+AGG	0.497817	2_2:+9187267	Msa0236250:CDS
TCAGGAACAAATATCTTGGT+TGG	0.508386	2_2:-9187485	None:intergenic
TAAGGAACAAATATCGTGGT+TGG	0.536400	2_2:+9187285	Msa0236250:CDS
TTTGTTCCTTAGTTAGGTTG+AGG	0.541691	2_2:-9187273	None:intergenic
GTTAGGTTGAGGAATGATGA+TGG	0.579166	2_2:-9187262	None:intergenic
TGGCGATGATGATGTTATTG+GGG	0.612338	2_2:-9187239	None:intergenic
TAACTAAGGAACAAATATCG+TGG	0.678465	2_2:+9187281	Msa0236250:CDS
AGGTTGAGGAATGATGATGG+TGG	0.724729	2_2:-9187259	None:intergenic
ACTCGTTATATGAAACTCCG+AGG	0.771966	2_2:-9187344	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TGATGATGATGAGTAGTAAA+TGG	-	chr2_2:9187171-9187190	None:intergenic	30.0%
	ACGATATTTGTTCCTTAGTT+AGG	-	chr2_2:9187282-9187301	None:intergenic	30.0%
	TAACTAAGGAACAAATATCG+TGG	+	chr2_2:9187281-9187300	Msa0236250:CDS	30.0%
!	AGTGATGATGATGATGATGA+TGG	-	chr2_2:9187208-9187227	None:intergenic	35.0%
	ATCATTCCTCAACCTAACTA+AGG	+	chr2_2:9187267-9187286	Msa0236250:CDS	35.0%
!	TTTGTTCCTTAGTTAGGTTG+AGG	-	chr2_2:9187276-9187295	None:intergenic	35.0%
	TAAGGAACAAATATCGTGGT+TGG	+	chr2_2:9187285-9187304	Msa0236250:CDS	35.0%
	TCAGGAACAAATATCTTGGT+TGG	-	chr2_2:9187488-9187507	None:intergenic	35.0%
	GTCATCAGGAACAAATATCT+TGG	-	chr2_2:9187492-9187511	None:intergenic	35.0%
!	GCTAAGCGACTTATATCTTT+TGG	-	chr2_2:9187540-9187559	None:intergenic	35.0%
!	TGGCGATGATGATGTTATTG+GGG	-	chr2_2:9187242-9187261	None:intergenic	40.0%
!	GTGGCGATGATGATGTTATT+GGG	-	chr2_2:9187243-9187262	None:intergenic	40.0%
!!	GTTAGGTTGAGGAATGATGA+TGG	-	chr2_2:9187265-9187284	None:intergenic	40.0%
!!	CACTTTCTTTAAAGCAGCCT+CGG	+	chr2_2:9187327-9187346	Msa0236250:CDS	40.0%
	ACTCGTTATATGAAACTCCG+AGG	-	chr2_2:9187347-9187366	None:intergenic	40.0%
	TCTGTGAATGCTTTGTCATC+AGG	-	chr2_2:9187506-9187525	None:intergenic	40.0%
!	GGTGGCGATGATGATGTTAT+TGG	-	chr2_2:9187244-9187263	None:intergenic	45.0%
!!	AGGTTGAGGAATGATGATGG+TGG	-	chr2_2:9187262-9187281	None:intergenic	45.0%
	GCCTCAGAGTTTCATTCTCT+CGG	-	chr2_2:9187389-9187408	None:intergenic	45.0%
	GCCTCAGAGTTTCATTCTCT+CGG	-	chr2_2:9187389-9187408	None:intergenic	45.0%
	GCCGAGAGAATGAAACTCTG+AGG	+	chr2_2:9187385-9187404	Msa0236250:intron	50.0%
	GCCGAGAGAATGAAACTCTG+AGG	+	chr2_2:9187385-9187404	Msa0236250:intron	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_2	gene	9187163	9187595	9187163	ID=Msa0236250;Name=Msa0236250
chr2_2	mRNA	9187163	9187595	9187163	ID=Msa0236250-mRNA-1;Parent=Msa0236250;Name=Msa0236250-mRNA-1;_AED=0.03;_eAED=0.09;_QI=0\|0\|0\|1\|0\|0\|2\|0\|111
chr2_2	exon	9187163	9187366	9187163	ID=Msa0236250-mRNA-1:exon:3969;Parent=Msa0236250-mRNA-1
chr2_2	exon	9187464	9187595	9187464	ID=Msa0236250-mRNA-1:exon:3970;Parent=Msa0236250-mRNA-1
chr2_2	CDS	9187163	9187366	9187163	ID=Msa0236250-mRNA-1:cds;Parent=Msa0236250-mRNA-1
chr2_2	CDS	9187464	9187595	9187464	ID=Msa0236250-mRNA-1:cds;Parent=Msa0236250-mRNA-1

Gene Sequence	>Msa0236250 ATGTTCCATTTACTACTCATCATCATCATTATCTTATCATCACCATCATCATCATCATCATCACTCAACTTATCATCCCCAATAACATCATCATCGCCACCATCATCATTCCTCAACCTAACTAAGGAACAAATATCGTGGTTGGACAACGAGTGTCAATCTCACACTTTCTTTAAAGCAGCCTCGGAGTTTCATATAACGAGTTGTGAGATTGACACTCGTTATCCAACCAAGATATTTGTTCCTGATGACAAAGCATTCACAGATGCTTCTGTTTCCAAAAGATATAAGTCGCTTAGCGACGATAACAAGTATTTCGTTCTCAATTGTCCATAA
Protein sequence	>Msa0236250 MFHLLLIIIIILSSPSSSSSSLNLSSPITSSSPPSSFLNLTKEQISWLDNECQSHTFFKAASEFHITSCEIDTRYPTKIFVPDDKAFTDASVSKRYKSLSDDNKYFVLNCP*