AlfalfaGEDB | Msa1188860

M. sativa cultivar zhongmu-4 / Msa1188860

KEGG: K00799
GO: GO:0001101 GO:0003674 GO:0003824 GO:0004364 GO:0005488 GO:0005515 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005773 GO:0005774 GO:0005829 GO:0005886 GO:0006518 GO:0006575 GO:0006725 GO:0006749 GO:0006790 GO:0006807 GO:0006950 GO:0006979 GO:0007154 GO:0008150 GO:0008152 GO:0009056 GO:0009266 GO:0009404 GO:0009407 GO:0009409 GO:0009414 GO:0009415 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009628 GO:0009635 GO:0009636 GO:0009719 GO:0009725 GO:0009735 GO:0009987 GO:0009991 GO:0010033 GO:0010035 GO:0010038 GO:0016020 GO:0016740 GO:0016765 GO:0018973 GO:0018974 GO:0019326 GO:0019439 GO:0019748 GO:0019899 GO:0031090 GO:0031668 GO:0033218 GO:0033554 GO:0034641 GO:0042221 GO:0042277 GO:0042537 GO:0042631 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043295 GO:0043603 GO:0044237 GO:0044248 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046256 GO:0046260 GO:0046263 GO:0046686 GO:0048037 GO:0048046 GO:0048583 GO:0050789 GO:0050896 GO:0051186 GO:0051716 GO:0065007 GO:0070887 GO:0071214 GO:0071229 GO:0071462 GO:0071496 GO:0071704 GO:0071944 GO:0072341 GO:0072490 GO:0072491 GO:0080167 GO:0098588 GO:0098754 GO:0098805 GO:0104004 GO:1900750 GO:1901360 GO:1901361 GO:1901564 GO:1901575 GO:1901681 GO:1901700 GO:1901701 GO:2000030
PFAM: PF13410.9

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1188860	XP_039684350.1	92.000	75	6	0	4	78	117	191	5.96e-42	146

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1188860	sp\|Q03666\|GSTX4_TOBAC	65.333	75	26	0	4	78	119	193	4.08e-27	100

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

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0105420	Msa1188860	0.800749	1.245329e-48	-8.615850e-47
Msa0217400	Msa1188860	0.811500	6.787234e-51	-8.615850e-47
Msa0452960	Msa1188860	0.800677	1.288087e-48	-8.615850e-47
Msa0335040	Msa1188860	0.817054	4.022845e-52	-8.615850e-47
Msa0341910	Msa1188860	0.800724	1.260260e-48	-8.615850e-47
Msa1188860	Msa1283860	0.815211	1.038585e-51	-8.615850e-47
Msa1188860	Msa1322890	0.804842	1.779311e-49	-8.615850e-47
Msa0518610	Msa1188860	0.801935	7.120797e-49	-8.615850e-47
Msa0909120	Msa1188860	0.803736	3.024206e-49	-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
Msa1188860	MtrunA17_Chr8g0357211	92.000	75	6	0	4	78	117	191	5.48e-46	146
Msa1188860	MtrunA17_Chr8g0357241	92.000	75	6	0	4	78	117	191	1.15e-45	145
Msa1188860	MtrunA17_Chr3g0107741	65.753	73	25	0	4	76	122	194	4.59e-28	100
Msa1188860	MtrunA17_Chr3g0107731	63.014	73	27	0	4	76	122	194	2.27e-26	96.3
Msa1188860	MtrunA17_Chr2g0312771	61.333	75	29	0	4	78	117	191	7.19e-26	94.7
Msa1188860	MtrunA17_Chr2g0312751	58.667	75	31	0	4	78	117	191	9.87e-25	91.7
Msa1188860	MtrunA17_Chr2g0312791	60.000	75	30	0	4	78	118	192	1.78e-24	91.3
Msa1188860	MtrunA17_Chr2g0312691	64.516	62	22	0	15	76	128	189	3.21e-24	90.5
Msa1188860	MtrunA17_Chr2g0312681	57.534	73	31	0	4	76	117	189	5.73e-24	89.7
Msa1188860	MtrunA17_Chr2g0312781	57.333	75	32	0	4	78	134	208	1.09e-23	89.4
Msa1188860	MtrunA17_Chr2g0312811	57.534	73	31	0	6	78	121	193	3.35e-23	87.8
Msa1188860	MtrunA17_Chr2g0312711	59.375	64	26	0	15	78	127	190	1.32e-22	86.3
Msa1188860	MtrunA17_Chr5g0433801	52.055	73	35	0	6	78	121	193	6.98e-21	82.0
Msa1188860	MtrunA17_Chr2g0312731	55.882	68	30	0	9	76	122	189	1.21e-20	81.3
Msa1188860	MtrunA17_Chr2g0312721	52.000	75	36	0	4	78	117	191	1.75e-20	80.9
Msa1188860	MtrunA17_Chr4g0069471	57.576	66	26	1	4	69	139	202	2.87e-17	72.0

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1188860	AT1G78370.1	60.000	75	30	0	2	76	115	189	8.44e-26	94.7
Msa1188860	AT1G78340.1	62.667	75	28	0	4	78	117	191	5.13e-25	92.8
Msa1188860	AT1G78360.1	58.667	75	31	0	4	78	118	192	1.47e-24	91.7
Msa1188860	AT1G17170.1	66.667	66	22	0	11	76	123	188	2.46e-24	91.3
Msa1188860	AT1G17180.1	60.000	75	30	0	2	76	115	189	3.01e-24	90.9
Msa1188860	AT1G53680.1	58.904	73	30	0	4	76	122	194	3.80e-24	90.9
Msa1188860	AT1G78380.1	56.000	75	33	0	4	78	117	191	2.17e-23	88.6
Msa1188860	AT1G78320.2	55.882	68	30	0	9	76	95	162	4.47e-19	77.0
Msa1188860	AT1G78320.1	55.882	68	30	0	9	76	122	189	1.01e-18	76.6
Msa1188860	AT1G17190.1	47.887	71	37	0	6	76	120	190	2.20e-17	73.2
Msa1188860	AT3G43800.1	47.887	71	36	1	7	76	124	194	1.29e-14	65.9

Find 13 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTTGGAGACCAACCTTATTT+TGG	0.247910	8_1:-29607710	Msa1188860:CDS
GGAGTTGATTGAAGGCTTAA+AGG	0.261757	8_1:-29607747	Msa1188860:CDS
CTTTGATCCCTTCTCATAGT+TGG	0.321127	8_1:-29607658	Msa1188860:CDS
AATGTGTCACCACCAAAATA+AGG	0.439985	8_1:+29607698	None:intergenic
TGAGATTGAATTGGCAAAGA+AGG	0.443100	8_1:-29607768	Msa1188860:CDS
GAAGAGAGATGAGATTGAAT+TGG	0.453197	8_1:-29607777	Msa1188860:CDS
GCAAAGAAGGAGTTGATTGA+AGG	0.480756	8_1:-29607755	Msa1188860:CDS
AAGGAATTAGAGAATGTGCT+TGG	0.497037	8_1:-29607728	Msa1188860:CDS
TATAAAACCAACTATGAGAA+GGG	0.541792	8_1:+29607651	None:intergenic
TTTATGCAACTTCAAAGTTG+AGG	0.544531	8_1:-29607618	Msa1188860:CDS
GTTGGAGGAAGGATATGGGC+TGG	0.551186	8_1:-29607799	None:intergenic
GTATAAAACCAACTATGAGA+AGG	0.581803	8_1:+29607650	None:intergenic
TGTCACCACCAAAATAAGGT+TGG	0.621870	8_1:+29607702	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TATAAAACCAACTATGAGAA+GGG	+	chr8_1:29607708-29607727	None:intergenic	25.0%
	GTATAAAACCAACTATGAGA+AGG	+	chr8_1:29607709-29607728	None:intergenic	30.0%
	TTTATGCAACTTCAAAGTTG+AGG	-	chr8_1:29607738-29607757	Msa1188860:CDS	30.0%
	GAAGAGAGATGAGATTGAAT+TGG	-	chr8_1:29607579-29607598	Msa1188860:CDS	35.0%
	TGAGATTGAATTGGCAAAGA+AGG	-	chr8_1:29607588-29607607	Msa1188860:CDS	35.0%
	AAGGAATTAGAGAATGTGCT+TGG	-	chr8_1:29607628-29607647	Msa1188860:CDS	35.0%
	AATGTGTCACCACCAAAATA+AGG	+	chr8_1:29607661-29607680	None:intergenic	35.0%
!!!	TATTTTGGTGGTGACACATT+TGG	-	chr8_1:29607661-29607680	Msa1188860:CDS	35.0%
!!!	ATTTTGGTGGTGACACATTT+GGG	-	chr8_1:29607662-29607681	Msa1188860:CDS	35.0%
!	GCAAAGAAGGAGTTGATTGA+AGG	-	chr8_1:29607601-29607620	Msa1188860:CDS	40.0%
!	GGAGTTGATTGAAGGCTTAA+AGG	-	chr8_1:29607609-29607628	Msa1188860:CDS	40.0%
!!	CTTGGAGACCAACCTTATTT+TGG	-	chr8_1:29607646-29607665	Msa1188860:CDS	40.0%
	TGTCACCACCAAAATAAGGT+TGG	+	chr8_1:29607657-29607676	None:intergenic	40.0%
	CTTTGATCCCTTCTCATAGT+TGG	-	chr8_1:29607698-29607717	Msa1188860:CDS	40.0%
!	TGAGGAAGAGTGTGAAAAAC+TGG	-	chr8_1:29607756-29607775	Msa1188860:CDS	40.0%
	AGTGTGAAAAACTGGTTGCT+TGG	-	chr8_1:29607764-29607783	Msa1188860:CDS	40.0%
	GTGTGAAAAACTGGTTGCTT+GGG	-	chr8_1:29607765-29607784	Msa1188860:CDS	40.0%
!!!	GGAGACCAACCTTATTTTGG+TGG	-	chr8_1:29607649-29607668	Msa1188860:CDS	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	29607571	29607807	29607571	ID=Msa1188860;Name=Msa1188860
chr8_1	mRNA	29607571	29607807	29607571	ID=Msa1188860-mRNA-1;Parent=Msa1188860;Name=Msa1188860-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|78
chr8_1	exon	29607571	29607807	29607571	ID=Msa1188860-mRNA-1:exon:10432;Parent=Msa1188860-mRNA-1
chr8_1	CDS	29607571	29607807	29607571	ID=Msa1188860-mRNA-1:cds;Parent=Msa1188860-mRNA-1

Gene Sequence	>Msa1188860 ATGGGCTGGAAGAGAGATGAGATTGAATTGGCAAAGAAGGAGTTGATTGAAGGCTTAAAGGAATTAGAGAATGTGCTTGGAGACCAACCTTATTTTGGTGGTGACACATTTGGGTTTGTTGACATTGCTTTGATCCCTTCTCATAGTTGGTTTTATACTTATGAGAATTTATGCAACTTCAAAGTTGAGGAAGAGTGTGAAAAACTGGTTGCTTGGGCAAAAAGATGCAAGCAATGA
Protein sequence	>Msa1188860 MGWKRDEIELAKKELIEGLKELENVLGDQPYFGGDTFGFVDIALIPSHSWFYTYENLCNFKVEEECEKLVAWAKRCKQ*