AlfalfaGEDB | Msa1201230

M. sativa cultivar zhongmu-4 / Msa1201230

KEGG: -
GO: GO:0000724 GO:0000725 GO:0003674 GO:0003676 GO:0003677 GO:0003678 GO:0003824 GO:0004003 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005737 GO:0006109 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0008026 GO:0008094 GO:0008150 GO:0008152 GO:0009378 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010565 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0030656 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032392 GO:0032508 GO:0033554 GO:0034641 GO:0042623 GO:0043138 GO:0043140 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043255 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0045912 GO:0046137 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051193 GO:0051195 GO:0051196 GO:0051198 GO:0051276 GO:0051716 GO:0062012 GO:0062014 GO:0065007 GO:0070035 GO:0071103 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0140097 GO:1901360 GO:1901363 GO:2000082 GO:2000083
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

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
Msa1201230	G7LA96	96.667	120	4	0	1	120	1	120	1.83e-74	236

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0131420	Msa1201230	0.816902	4.353342e-52	-8.615850e-47
Msa0419670	Msa1201230	0.817012	4.110881e-52	-8.615850e-47
Msa0464710	Msa1201230	0.804891	1.737343e-49	-8.615850e-47
Msa1201200	Msa1201230	0.949322	1.610115e-107	-8.615850e-47
Msa1201230	Msa1238330	0.801717	7.894328e-49	-8.615850e-47
Msa1201230	Msa1252960	0.960071	3.815139e-118	-8.615850e-47
Msa1201230	Msa1328940	0.812086	5.059950e-51	-8.615850e-47
Msa1201230	Msa1458510	0.811946	5.429501e-51	-8.615850e-47
Msa0936530	Msa1201230	0.830170	3.415221e-55	-8.615850e-47
Msa0936550	Msa1201230	0.819807	9.566205e-53	-8.615850e-47
Msa0972770	Msa1201230	0.827490	1.519968e-54	-8.615850e-47
Msa0973520	Msa1201230	0.816804	4.577275e-52	-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
Msa1201230	MtrunA17_Chr8g0371031	96.667	120	4	0	1	120	1	120	3.52e-78	236
Msa1201230	MtrunA17_Chr8g0371101	79.208	101	20	1	20	120	1	100	2.21e-51	167
Msa1201230	MtrunA17_Chr2g0300541	80.165	121	15	3	1	120	1	113	1.38e-48	160
Msa1201230	MtrunA17_Chr8g0378641	36.111	108	56	2	21	128	9	103	6.00e-14	67.4
Msa1201230	MtrunA17_Chr5g0435201	39.604	101	51	3	20	120	1	91	7.34e-13	64.3
Msa1201230	MtrunA17_Chr1g0170781	33.645	107	58	2	19	125	13	106	1.78e-11	60.5
Msa1201230	MtrunA17_Chr6g0488491	40.952	105	44	4	21	123	4	92	3.32e-11	59.7
Msa1201230	MtrunA17_Chr3g0088591	31.618	136	64	5	7	125	8	131	8.42e-11	56.6
Msa1201230	MtrunA17_Chr3g0088621	36.283	113	61	5	10	122	4	105	9.48e-11	58.2

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

Find 41 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCCAAAGGTTGGCTGATTA+AGG	0.291497	8_1:-54421963	Msa1201230:intron
CGGAGGACGGCGGCGGAGGG+AGG	0.300126	8_1:-54421782	Msa1201230:CDS
AATGGAAAAGAAGGAGAGTT+TGG	0.332443	8_1:+54422106	None:intergenic
GAGGACGGCGGCGGAGGGAG+GGG	0.334895	8_1:-54421780	Msa1201230:CDS
AGGACGGCGGCGGAGGGAGG+GGG	0.343286	8_1:-54421779	Msa1201230:CDS
TCGCCGGAGGACGGCGGCGG+AGG	0.350010	8_1:-54421786	Msa1201230:CDS
AGGTGCTAAAGGTTCTAAAT+TGG	0.350268	8_1:+54421991	None:intergenic
GAAGGAGAGTTTGGATGAGA+TGG	0.382409	8_1:+54422115	None:intergenic
CTCAACTTCCTATAGAACTA+TGG	0.385206	8_1:-54422222	Msa1201230:CDS
CAATGATATAAACGGTTGAT+TGG	0.387856	8_1:+54422038	None:intergenic
TACCTTAATCAGCCAACCTT+TGG	0.397147	8_1:+54421961	None:intergenic
CACCTTCTTCTTCCAAAGGT+TGG	0.399560	8_1:-54421973	Msa1201230:CDS
GGAGGACGGCGGCGGAGGGA+GGG	0.420211	8_1:-54421781	Msa1201230:CDS
ATCTTAGGCCATAGTTCTAT+AGG	0.430698	8_1:+54422214	None:intergenic
AGTTGGTTCAATGATATAAA+CGG	0.439030	8_1:+54422030	None:intergenic
CTCCCTCCGCCGCCGTCCTC+CGG	0.450004	8_1:+54421783	None:intergenic
ATCTGATTCTTCTTCATCCA+TGG	0.450631	8_1:-54422263	Msa1201230:CDS
ATAGAACTATGGCCTAAGAT+AGG	0.452927	8_1:-54422211	Msa1201230:CDS
TTGTTTAGCGAGTCGTAGAC+AGG	0.454181	8_1:+54422070	None:intergenic
GGCGACGACGGTGACCCTTT+CGG	0.462866	8_1:+54421804	None:intergenic
TCGTCGCCGGAGGACGGCGG+CGG	0.477620	8_1:-54421789	Msa1201230:CDS
CGCCGGAGGACGGCGGCGGA+GGG	0.478344	8_1:-54421785	Msa1201230:CDS
GGAGAGTTTGGATGAGATGG+AGG	0.480906	8_1:+54422118	None:intergenic
CCGCCGTCCTCCGGCGACGA+CGG	0.484081	8_1:+54421792	None:intergenic
TTGGAAGAAGAAGGTGCTAA+AGG	0.501406	8_1:+54421980	None:intergenic
ACAGGGTGAGGTATTTGTAA+TGG	0.505888	8_1:+54422088	None:intergenic
GGTATTTGTAATGGAAAAGA+AGG	0.516150	8_1:+54422097	None:intergenic
GAAAGGGTCACCGTCGTCGC+CGG	0.520402	8_1:-54421802	Msa1201230:CDS
TAAAGGTTCTAAATTGGAGT+TGG	0.521984	8_1:+54421997	None:intergenic
TGCCATACCAGAGGCCGAAA+GGG	0.528313	8_1:-54421818	Msa1201230:intron
GTTTGGATGAGATGGAGGAA+TGG	0.540037	8_1:+54422123	None:intergenic
TCACCGTCGTCGCCGGAGGA+CGG	0.541137	8_1:-54421795	Msa1201230:CDS
CCAATCAACTATCTCATCCA+TGG	0.548037	8_1:+54422246	None:intergenic
CCATGGATGAGATAGTTGAT+TGG	0.548664	8_1:-54422246	Msa1201230:CDS
TTAGCACCTTCTTCTTCCAA+AGG	0.559083	8_1:-54421977	Msa1201230:CDS
AGCCAACCTTTGGAAGAAGA+AGG	0.565959	8_1:+54421971	None:intergenic
AGCGAGTCGTAGACAGGGTG+AGG	0.572671	8_1:+54422076	None:intergenic
GAGTTGGAACTTGCATCAGT+TGG	0.584443	8_1:+54422013	None:intergenic
AGGGTCACCGTCGTCGCCGG+AGG	0.604633	8_1:-54421799	Msa1201230:CDS
CCGTCGTCGCCGGAGGACGG+CGG	0.616334	8_1:-54421792	Msa1201230:CDS
TGTTTAGCGAGTCGTAGACA+GGG	0.623455	8_1:+54422071	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TCAAGATATTTTCCTATCTT+AGG	+	chr8_1:54421872-54421891	None:intergenic	25.0%
!!	AGTTGGTTCAATGATATAAA+CGG	+	chr8_1:54422041-54422060	None:intergenic	25.0%
!	GGTATTTGTAATGGAAAAGA+AGG	+	chr8_1:54421974-54421993	None:intergenic	30.0%
	CAATGATATAAACGGTTGAT+TGG	+	chr8_1:54422033-54422052	None:intergenic	30.0%
!!	TAAAGGTTCTAAATTGGAGT+TGG	+	chr8_1:54422074-54422093	None:intergenic	30.0%
	ATCTGATTCTTCTTCATCCA+TGG	-	chr8_1:54421805-54421824	Msa1201230:CDS	35.0%
	CTCAACTTCCTATAGAACTA+TGG	-	chr8_1:54421846-54421865	Msa1201230:intron	35.0%
!	ATCTTAGGCCATAGTTCTAT+AGG	+	chr8_1:54421857-54421876	None:intergenic	35.0%
	ATAGAACTATGGCCTAAGAT+AGG	-	chr8_1:54421857-54421876	Msa1201230:intron	35.0%
	AATGGAAAAGAAGGAGAGTT+TGG	+	chr8_1:54421965-54421984	None:intergenic	35.0%
!!	AGGTGCTAAAGGTTCTAAAT+TGG	+	chr8_1:54422080-54422099	None:intergenic	35.0%
	CCAATCAACTATCTCATCCA+TGG	+	chr8_1:54421825-54421844	None:intergenic	40.0%
	CCATGGATGAGATAGTTGAT+TGG	-	chr8_1:54421822-54421841	Msa1201230:intron	40.0%
!	ACAGGGTGAGGTATTTGTAA+TGG	+	chr8_1:54421983-54422002	None:intergenic	40.0%
!!	TTGGAAGAAGAAGGTGCTAA+AGG	+	chr8_1:54422091-54422110	None:intergenic	40.0%
	TTAGCACCTTCTTCTTCCAA+AGG	-	chr8_1:54422091-54422110	Msa1201230:CDS	40.0%
!	TTCCAAAGGTTGGCTGATTA+AGG	-	chr8_1:54422105-54422124	Msa1201230:CDS	40.0%
	TACCTTAATCAGCCAACCTT+TGG	+	chr8_1:54422110-54422129	None:intergenic	40.0%
	GTTTGGATGAGATGGAGGAA+TGG	+	chr8_1:54421948-54421967	None:intergenic	45.0%
	GAAGGAGAGTTTGGATGAGA+TGG	+	chr8_1:54421956-54421975	None:intergenic	45.0%
	TGTTTAGCGAGTCGTAGACA+GGG	+	chr8_1:54422000-54422019	None:intergenic	45.0%
	TTGTTTAGCGAGTCGTAGAC+AGG	+	chr8_1:54422001-54422020	None:intergenic	45.0%
	GAGTTGGAACTTGCATCAGT+TGG	+	chr8_1:54422058-54422077	None:intergenic	45.0%
	CACCTTCTTCTTCCAAAGGT+TGG	-	chr8_1:54422095-54422114	Msa1201230:CDS	45.0%
!	AGCCAACCTTTGGAAGAAGA+AGG	+	chr8_1:54422100-54422119	None:intergenic	45.0%
	GGAGAGTTTGGATGAGATGG+AGG	+	chr8_1:54421953-54421972	None:intergenic	50.0%
	TTGCCATACCAGAGGCCGAA+AGG	-	chr8_1:54422249-54422268	Msa1201230:CDS	55.0%
	TGCCATACCAGAGGCCGAAA+GGG	-	chr8_1:54422250-54422269	Msa1201230:CDS	55.0%
	AGCGAGTCGTAGACAGGGTG+AGG	+	chr8_1:54421995-54422014	None:intergenic	60.0%
	GACCCTTTCGGCCTCTGGTA+TGG	+	chr8_1:54422255-54422274	None:intergenic	60.0%
	ACGGTGACCCTTTCGGCCTC+TGG	+	chr8_1:54422260-54422279	None:intergenic	65.0%
	GGCGACGACGGTGACCCTTT+CGG	+	chr8_1:54422267-54422286	None:intergenic	65.0%
	GAAAGGGTCACCGTCGTCGC+CGG	-	chr8_1:54422266-54422285	Msa1201230:CDS	65.0%
	TCACCGTCGTCGCCGGAGGA+CGG	-	chr8_1:54422273-54422292	Msa1201230:CDS	70.0%
	AGGGTCACCGTCGTCGCCGG+AGG	-	chr8_1:54422269-54422288	Msa1201230:CDS	75.0%
	CGGAGGGAGGGGGTCTCGCA+TGG	-	chr8_1:54422299-54422318	Msa1201230:CDS	75.0%
!	CCGCCGTCCTCCGGCGACGA+CGG	+	chr8_1:54422279-54422298	None:intergenic	80.0%
!	CCGTCGTCGCCGGAGGACGG+CGG	-	chr8_1:54422276-54422295	Msa1201230:CDS	80.0%
!	TCGTCGCCGGAGGACGGCGG+CGG	-	chr8_1:54422279-54422298	Msa1201230:CDS	80.0%
!	CTCCCTCCGCCGCCGTCCTC+CGG	+	chr8_1:54422288-54422307	None:intergenic	80.0%
!	GGAGGACGGCGGCGGAGGGA+GGG	-	chr8_1:54422287-54422306	Msa1201230:CDS	80.0%
!	GAGGACGGCGGCGGAGGGAG+GGG	-	chr8_1:54422288-54422307	Msa1201230:CDS	80.0%
!	AGGACGGCGGCGGAGGGAGG+GGG	-	chr8_1:54422289-54422308	Msa1201230:CDS	80.0%
!	TCGCCGGAGGACGGCGGCGG+AGG	-	chr8_1:54422282-54422301	Msa1201230:CDS	85.0%
!	CGCCGGAGGACGGCGGCGGA+GGG	-	chr8_1:54422283-54422302	Msa1201230:CDS	85.0%
!	CGGAGGACGGCGGCGGAGGG+AGG	-	chr8_1:54422286-54422305	Msa1201230:CDS	85.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	54421767	54422323	54421767	ID=Msa1201230;Name=Msa1201230
chr8_1	mRNA	54421767	54422323	54421767	ID=Msa1201230-mRNA-1;Parent=Msa1201230;Name=Msa1201230-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0\|0\|0\|0.5\|1\|0.5\|2\|0\|141
chr8_1	exon	54421964	54422323	54421964	ID=Msa1201230-mRNA-1:exon:17476;Parent=Msa1201230-mRNA-1
chr8_1	exon	54421767	54421829	54421767	ID=Msa1201230-mRNA-1:exon:17475;Parent=Msa1201230-mRNA-1
chr8_1	CDS	54421964	54422323	54421964	ID=Msa1201230-mRNA-1:cds;Parent=Msa1201230-mRNA-1
chr8_1	CDS	54421767	54421829	54421767	ID=Msa1201230-mRNA-1:cds;Parent=Msa1201230-mRNA-1

Gene Sequence

>Msa1201230

ATGATATCACTCTTCAGCAAAATCAACAAATCTTTGAGATCTGATTCTTCTTCATCCATGGATGAGATAGTTGATTGGTCTCAACTTCCTATAGAACTATGGCCTAAGATAGGAAAATATCTTGATAAACACATAGATGTTCTCAGATTTCGCAGTGTCTGCGAATCATTTCGTTCTTCCATTCCTCCATCTCATCCAAACTCTCCTTCTTTTCCATTACAAATACCTCACCCTGTCTACGACTCGCTAAACAACTACATCAACCAATCAACCGTTTATATCATTGAACCAACTGATGCAAGTTCCAACTCCAATTTAGAACCTTTAGCACCTTCTTCTTCCAAAGGTTGGCTGATTAAGAGGCCGAAAGGGTCACCGTCGTCGCCGGAGGACGGCGGCGGAGGGAGGGGGTCTCGCATGGAG

Protein sequence

>Msa1201230

MISLFSKINKSLRSDSSSSMDEIVDWSQLPIELWPKIGKYLDKHIDVLRFRSVCESFRSSIPPSHPNSPSFPLQIPHPVYDSLNNYINQSTVYIIEPTDASSNSNLEPLAPSSSKGWLIKRPKGSPSSPEDGGGGRGSRME