AlfalfaGEDB | Msa0200990

M. sativa cultivar zhongmu-4 / Msa0200990

KEGG: K13356
GO: GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0006139 GO:0006163 GO:0006637 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009117 GO:0009150 GO:0009259 GO:0009698 GO:0009699 GO:0009987 GO:0010025 GO:0010166 GO:0010345 GO:0012505 GO:0016491 GO:0016620 GO:0016903 GO:0019438 GO:0019637 GO:0019693 GO:0019748 GO:0033865 GO:0033875 GO:0034032 GO:0034641 GO:0035336 GO:0035337 GO:0035383 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0044550 GO:0046483 GO:0051186 GO:0055086 GO:0055114 GO:0071704 GO:0072521 GO:0080019 GO:1901135 GO:1901360 GO:1901362 GO:1901564 GO:1901568 GO:1901570 GO:1901576
PFAM: PF03015.22

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0200990	XP_003596781.2	94.030	67	4	0	1	67	426	492	4.16e-36	136

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0200990	sp\|Q9XGY7\|FAR_SIMCH	60.000	65	26	0	1	65	428	492	5.74e-23	93.2

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0200990	G7IRD7	94.030	67	4	0	1	67	426	492	1.99e-36	136

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0011840	Msa0200990	0.801321	9.513480e-49	-8.615850e-47
Msa0200990	Msa1191180	0.816107	6.558681e-52	-8.615850e-47
Msa0200990	Msa1244500	0.807372	5.221162e-50	-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
Msa0200990	MtrunA17_Chr2g0321181	94.030	67	4	0	1	67	426	492	3.83e-40	136
Msa0200990	MtrunA17_Chr4g0026701	72.727	66	18	0	1	66	427	492	3.57e-31	112
Msa0200990	MtrunA17_Chr4g0026691	71.212	66	19	0	1	66	426	491	5.97e-30	109
Msa0200990	MtrunA17_Chr2g0321201	68.182	66	21	0	1	66	427	492	1.56e-28	105
Msa0200990	MtrunA17_Chr5g0419491	49.231	65	33	0	2	66	36	100	1.69e-18	72.4
Msa0200990	MtrunA17_Chr4g0026911	53.623	69	25	2	2	66	122	187	9.59e-18	72.4
Msa0200990	MtrunA17_Chr4g0026771	53.030	66	30	1	2	66	427	492	1.88e-17	74.3
Msa0200990	MtrunA17_Chr4g0026711	49.231	65	33	0	2	66	431	495	1.62e-16	71.6
Msa0200990	MtrunA17_Chr6g0465391	49.206	63	30	1	4	66	400	460	3.55e-15	67.8
Msa0200990	MtrunA17_Chr1g0176054	45.312	64	33	1	3	66	547	608	6.41e-15	67.0
Msa0200990	MtrunA17_Chr5g0431281	48.485	66	29	2	3	66	148	210	6.87e-14	62.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0200990	AT4G33790.2	64.516	62	22	0	2	63	317	378	1.94e-23	90.9
Msa0200990	AT4G33790.1	64.516	62	22	0	2	63	430	491	2.87e-23	90.9
Msa0200990	AT3G44540.1	65.672	67	22	1	1	66	426	492	1.03e-22	89.4
Msa0200990	AT5G22500.1	55.224	67	29	1	1	66	424	490	2.03e-19	80.1
Msa0200990	AT3G44560.1	53.623	69	29	1	1	66	427	495	1.24e-18	78.2
Msa0200990	AT3G44550.1	52.174	69	30	1	1	66	427	495	8.00e-17	72.8
Msa0200990	AT3G44550.2	52.174	69	30	1	1	66	318	386	9.49e-17	72.4
Msa0200990	AT5G22420.1	59.259	54	19	2	1	53	351	402	1.82e-13	63.2
Msa0200990	AT5G22420.3	59.259	54	19	2	1	53	299	350	5.25e-13	62.0
Msa0200990	AT5G22420.6	59.259	54	19	2	1	53	299	350	5.25e-13	62.0
Msa0200990	AT5G22420.4	59.259	54	19	2	1	53	315	366	5.58e-13	62.0
Msa0200990	AT5G22420.5	59.259	54	19	2	1	53	264	315	5.62e-13	61.6
Msa0200990	AT5G22420.2	59.259	54	19	2	1	53	245	296	5.73e-13	61.6
Msa0200990	AT5G22420.7	59.259	54	19	2	1	53	245	296	5.73e-13	61.6
Msa0200990	AT3G11980.1	40.625	64	36	1	3	66	552	613	5.80e-12	58.9
Msa0200990	AT3G56700.1	45.000	60	31	1	3	62	461	518	5.15e-11	56.2
Msa0200990	AT3G56700.2	45.000	60	31	1	3	62	482	539	5.58e-11	56.2

Find 15 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCTTCCCAATCAATAATTT+TGG	0.099596	2_1:+21746319	None:intergenic
TTGATCCCAAAATTATTGAT+TGG	0.345050	2_1:-21746325	Msa0200990:CDS
TATATATTCCCCGAAAATAT+TGG	0.357181	2_1:+21746588	None:intergenic
CTGCCTTACTTGTTCTTCAA+TGG	0.371170	2_1:-21746515	Msa0200990:CDS
GAATATATACTGACCTAAAC+CGG	0.406521	2_1:-21746574	Msa0200990:five_prime_UTR
TGATCCCAAAATTATTGATT+GGG	0.408779	2_1:-21746324	Msa0200990:CDS
ATGCCATTGAAGAACAAGTA+AGG	0.526421	2_1:+21746512	None:intergenic
AATGCATACTTGAAGATACC+AGG	0.527697	2_1:+21746275	None:intergenic
ACTTGAAGATACCAGGGATG+TGG	0.554747	2_1:+21746282	None:intergenic
CATTGAAGAACAAGTAAGGC+AGG	0.559598	2_1:+21746516	None:intergenic
TTCATGAATATCCACATCCC+TGG	0.572586	2_1:-21746293	Msa0200990:CDS
AATCAGTACAGTTATGCGGT+TGG	0.578216	2_1:-21746549	Msa0200990:exon
ATGCATACTTGAAGATACCA+GGG	0.639179	2_1:+21746276	None:intergenic
CTATTAGCCGTAAAACAAGA+AGG	0.639438	2_1:-21746371	Msa0200990:CDS
GGAAAATCAGTACAGTTATG+CGG	0.717584	2_1:-21746553	Msa0200990:exon

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTAATTAATGCATCTTTTT+TGG	+	chr2_1:21746493-21746512	None:intergenic	15.0%
!!!	AAATATCATACTAAAGCATT+TGG	-	chr2_1:21746269-21746288	Msa0200990:CDS	20.0%
!!	CAATTTTGTGCCAATATTTT+CGG	-	chr2_1:21746129-21746148	Msa0200990:three_prime_UTR	25.0%
!!	AATTTTGTGCCAATATTTTC+GGG	-	chr2_1:21746130-21746149	Msa0200990:three_prime_UTR	25.0%
!	TATATATTCCCCGAAAATAT+TGG	+	chr2_1:21746142-21746161	None:intergenic	25.0%
!	TTGATCCCAAAATTATTGAT+TGG	-	chr2_1:21746402-21746421	Msa0200990:CDS	25.0%
!!	TGATCCCAAAATTATTGATT+GGG	-	chr2_1:21746403-21746422	Msa0200990:intron	25.0%
!!	TCTTCCCAATCAATAATTTT+GGG	+	chr2_1:21746410-21746429	None:intergenic	25.0%
!!	ATCTTCCCAATCAATAATTT+TGG	+	chr2_1:21746411-21746430	None:intergenic	25.0%
!	ATTTTGTGCCAATATTTTCG+GGG	-	chr2_1:21746131-21746150	Msa0200990:three_prime_UTR	30.0%
	GAATATATACTGACCTAAAC+CGG	-	chr2_1:21746153-21746172	Msa0200990:three_prime_UTR	30.0%
!!!	GCATAACTGTACTGATTTTC+CGG	+	chr2_1:21746175-21746194	None:intergenic	35.0%
	GGAAAATCAGTACAGTTATG+CGG	-	chr2_1:21746174-21746193	Msa0200990:three_prime_UTR	35.0%
	ATGCCATTGAAGAACAAGTA+AGG	+	chr2_1:21746218-21746237	None:intergenic	35.0%
	CTATTAGCCGTAAAACAAGA+AGG	-	chr2_1:21746356-21746375	Msa0200990:CDS	35.0%
!!!	TTCTGCACCTTCTTGTTTTA+CGG	+	chr2_1:21746366-21746385	None:intergenic	35.0%
	ATGCATACTTGAAGATACCA+GGG	+	chr2_1:21746454-21746473	None:intergenic	35.0%
	AATGCATACTTGAAGATACC+AGG	+	chr2_1:21746455-21746474	None:intergenic	35.0%
!!!	CTGTACTGATTTTCCGGTTT+AGG	+	chr2_1:21746169-21746188	None:intergenic	40.0%
	AATCAGTACAGTTATGCGGT+TGG	-	chr2_1:21746178-21746197	Msa0200990:three_prime_UTR	40.0%
	CATTGAAGAACAAGTAAGGC+AGG	+	chr2_1:21746214-21746233	None:intergenic	40.0%
	CTGCCTTACTTGTTCTTCAA+TGG	-	chr2_1:21746212-21746231	Msa0200990:three_prime_UTR	40.0%
	TTCATGAATATCCACATCCC+TGG	-	chr2_1:21746434-21746453	Msa0200990:intron	40.0%
	ACTTGAAGATACCAGGGATG+TGG	+	chr2_1:21746448-21746467	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	21746121	21746628	21746121	ID=Msa0200990;Name=Msa0200990
chr2_1	mRNA	21746121	21746628	21746121	ID=Msa0200990-mRNA-1;Parent=Msa0200990;Name=Msa0200990-mRNA-1;_AED=0.03;_eAED=0.03;_QI=70\|1\|1\|1\|1\|1\|2\|144\|67
chr2_1	exon	21746121	21746421	21746121	ID=Msa0200990-mRNA-1:exon:8745;Parent=Msa0200990-mRNA-1
chr2_1	exon	21746512	21746628	21746512	ID=Msa0200990-mRNA-1:exon:8744;Parent=Msa0200990-mRNA-1
chr2_1	five_prime_UTR	21746559	21746628	21746559	ID=Msa0200990-mRNA-1:five_prime_utr;Parent=Msa0200990-mRNA-1
chr2_1	CDS	21746512	21746558	21746512	ID=Msa0200990-mRNA-1:cds;Parent=Msa0200990-mRNA-1
chr2_1	CDS	21746265	21746421	21746265	ID=Msa0200990-mRNA-1:cds;Parent=Msa0200990-mRNA-1
chr2_1	three_prime_UTR	21746121	21746264	21746121	ID=Msa0200990-mRNA-1:three_prime_utr;Parent=Msa0200990-mRNA-1

Gene Sequence	>Msa0200990 ATGCGGTTGGTTGATCTTTACCTGCCTTACTTGTTCTTCAATGGCATATTTGATGATATGAATACAGAAAAGTTGCTATTAGCCGTAAAACAAGAAGGTGCAGAAATGAATTTGTTTTACTTTGATCCCAAAATTATTGATTGGGAAGATTACTTCATGAATATCCACATCCCTGGTATCTTCAAGTATGCATTAAAGTTTTAA
Protein sequence	>Msa0200990 MRLVDLYLPYLFFNGIFDDMNTEKLLLAVKQEGAEMNLFYFDPKIIDWEDYFMNIHIPGIFKYALKF*