AlfalfaGEDB | Msa0342490

M. sativa cultivar zhongmu-4 / Msa0342490

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006417 GO:0006446 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032268 GO:0032270 GO:0034248 GO:0034250 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045727 GO:0045948 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0065007 GO:0070129 GO:0070131 GO:0070132 GO:0070134 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:2000112
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
Msa0342490	XP_013467427.1	80.894	246	24	1	1	223	153	398	3.99e-140	408

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342490	sp\|Q9M2A1\|PP263_ARATH	56.911	246	82	2	1	223	171	415	1.44e-92	280

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342490	A0A072VHH2	80.894	246	24	1	1	223	153	398	1.91e-140	408

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0342490	Msa0495330	0.802093	6.606640e-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
Msa0342490	MtrunA17_Chr1g0171891	80.894	246	24	1	1	223	153	398	3.67e-144	408
Msa0342490	MtrunA17_Chr4g0020931	81.301	246	23	1	1	223	154	399	9.41e-144	407
Msa0342490	MtrunA17_Chr5g0428491	79.452	146	7	1	1	123	176	321	4.27e-77	234
Msa0342490	MtrunA17_Chr5g0428501	87.302	63	8	0	160	222	1	63	5.56e-35	119

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0342490	AT3G42630.1	56.911	246	82	2	1	223	171	415	1.46e-93	280
Msa0342490	AT4G14190.1	26.939	245	144	5	1	213	256	497	3.42e-13	68.6

Find 50 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAGAATTTCATTACCTGTTT+TGG	0.192464	3_1:-363144	None:intergenic
ATCGGAGAGACCAAATATTT+TGG	0.194762	3_1:+363804	Msa0342490:CDS
TTTCGAGAATGGCGCTGTTT+TGG	0.201918	3_1:+363489	Msa0342490:CDS
TAGAAGGCTTGGAAGGAATT+TGG	0.229388	3_1:+363601	Msa0342490:CDS
GTTCCTGATTTGGTTACTTA+TGG	0.229795	3_1:+363554	Msa0342490:CDS
GAAGAGAAAATTCTATGAAT+TGG	0.243285	3_1:+363286	Msa0342490:CDS
TTTGTTAGAATGGTTGAATT+AGG	0.246590	3_1:+363422	Msa0342490:CDS
GCTAGTAGTTCCAAAATATT+TGG	0.248724	3_1:-363814	None:intergenic
TGAGAAGGTGGTTCCTGATT+TGG	0.298398	3_1:+363544	Msa0342490:CDS
TCATCTTAGTATTGAACATA+TGG	0.306539	3_1:+363517	Msa0342490:CDS
AATGAAATGGAAAATGCTTA+TGG	0.317533	3_1:+363194	Msa0342490:CDS
GTGATTAGGGCTATGGCTTA+TGG	0.328397	3_1:+363254	Msa0342490:CDS
GGTTGATGAAAATGTGATTA+GGG	0.349585	3_1:+363241	Msa0342490:CDS
TTGTTAGAATGGTTGAATTA+GGG	0.352168	3_1:+363423	Msa0342490:CDS
AACAACATGAGTGGAGTTAT+AGG	0.352629	3_1:+363750	Msa0342490:CDS
TTTCAAATAGATTCCAAAAC+AGG	0.356714	3_1:+363131	Msa0342490:CDS
ACAACATGAGTGGAGTTATA+GGG	0.358612	3_1:+363751	Msa0342490:CDS
AGGTGACTTTCACTTGAGTT+TGG	0.366550	3_1:+363703	Msa0342490:CDS
GGTCAGTTTGTTAGAGATGT+TGG	0.368673	3_1:+363308	Msa0342490:CDS
ATGGAAGGTTTAAGAGATCT+AGG	0.371453	3_1:+363213	Msa0342490:CDS
GCAGAGAGAGTTTGTTAGAA+TGG	0.371832	3_1:+363412	Msa0342490:intron
TGGTTGATGAAAATGTGATT+AGG	0.384199	3_1:+363240	Msa0342490:CDS
TTTGTTAGAGATGTTGGTTT+AGG	0.396561	3_1:+363314	Msa0342490:CDS
GACGTTTAATATCCGTGCTT+TGG	0.397875	3_1:+363463	Msa0342490:CDS
CTCTCCGATAACGTTTCTTA+AGG	0.398707	3_1:-363790	None:intergenic
TGGATGCTTACTTGGATAGA+AGG	0.398737	3_1:+363585	Msa0342490:CDS
CAACCATAAGTAACCAAATC+AGG	0.419881	3_1:-363557	None:intergenic
AAGAGAAAATTCTATGAATT+GGG	0.420495	3_1:+363287	Msa0342490:CDS
ATCAATGAAATGATTTCAAA+GGG	0.437570	3_1:+363107	Msa0342490:CDS
TTGCGTTGTGGATGCTTACT+TGG	0.440242	3_1:+363577	Msa0342490:CDS
ATATTAAACGTCGTAACATC+AGG	0.448111	3_1:-363452	None:intergenic
AATACCTTAAGAAACGTTAT+CGG	0.450437	3_1:+363786	Msa0342490:CDS
GACGGATCCGTTTGTGTTTG+AGG	0.453067	3_1:+363670	Msa0342490:CDS
AATCAATGAAATGATTTCAA+AGG	0.463491	3_1:+363106	Msa0342490:CDS
TGTTTGTCCGCGGTTGTTGA+CGG	0.464307	3_1:+363652	Msa0342490:CDS
GCTTACTTGGATAGAAGGCT+TGG	0.482566	3_1:+363590	Msa0342490:CDS
CATCTTAGTATTGAACATAT+GGG	0.485443	3_1:+363518	Msa0342490:CDS
TGACTTTCACTTGAGTTTGG+AGG	0.497428	3_1:+363706	Msa0342490:CDS
TTAGAGATGTTGGTTTAGGT+AGG	0.503038	3_1:+363318	Msa0342490:CDS
CCTAAAACCTCAAACACAAA+CGG	0.528045	3_1:-363677	None:intergenic
TGAAAATGTGATTAGGGCTA+TGG	0.528263	3_1:+363247	Msa0342490:CDS
TTCTCGAAAACGCCAAAGCA+CGG	0.530023	3_1:-363475	None:intergenic
AAATGGAAAATGCTTATGGA+AGG	0.541034	3_1:+363198	Msa0342490:CDS
ACTTGGATAGAAGGCTTGGA+AGG	0.547884	3_1:+363594	Msa0342490:CDS
TGAACATATGGGAATTGAGA+AGG	0.593588	3_1:+363529	Msa0342490:CDS
ACAAGACACAACAACATGAG+TGG	0.626523	3_1:+363741	Msa0342490:CDS
GGTTACTTATGGTTGCGTTG+TGG	0.646200	3_1:+363565	Msa0342490:CDS
ACATATGGGAATTGAGAAGG+TGG	0.658498	3_1:+363532	Msa0342490:CDS
AACGGATCCGTCAACAACCG+CGG	0.664779	3_1:-363659	None:intergenic
TGGATGTGGATGTTTGTCCG+CGG	0.740396	3_1:+363642	Msa0342490:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AATCAATGAAATGATTTCAA+AGG	+	chr3_1:363106-363125	Msa0342490:CDS	20.0%
!!	ATCAATGAAATGATTTCAAA+GGG	+	chr3_1:363107-363126	Msa0342490:CDS	20.0%
!!	AAGAGAAAATTCTATGAATT+GGG	+	chr3_1:363287-363306	Msa0342490:CDS	20.0%
!	TTTCAAATAGATTCCAAAAC+AGG	+	chr3_1:363131-363150	Msa0342490:CDS	25.0%
!!	AAGAATTTCATTACCTGTTT+TGG	-	chr3_1:363147-363166	None:intergenic	25.0%
!!!	TTTTGGTAGTTTGAATGAAA+TGG	+	chr3_1:363181-363200	Msa0342490:CDS	25.0%
!	AATGAAATGGAAAATGCTTA+TGG	+	chr3_1:363194-363213	Msa0342490:CDS	25.0%
!	GAAGAGAAAATTCTATGAAT+TGG	+	chr3_1:363286-363305	Msa0342490:CDS	25.0%
!	TTTGTTAGAATGGTTGAATT+AGG	+	chr3_1:363422-363441	Msa0342490:CDS	25.0%
!	TTGTTAGAATGGTTGAATTA+GGG	+	chr3_1:363423-363442	Msa0342490:CDS	25.0%
!!	TCATCTTAGTATTGAACATA+TGG	+	chr3_1:363517-363536	Msa0342490:CDS	25.0%
!!	CATCTTAGTATTGAACATAT+GGG	+	chr3_1:363518-363537	Msa0342490:CDS	25.0%
!!!	GGAGTTTGTTTTGAATAAAA+TGG	+	chr3_1:363622-363641	Msa0342490:CDS	25.0%
!!!	TGTTTTGAATAAAATGGATG+TGG	+	chr3_1:363628-363647	Msa0342490:CDS	25.0%
!	AATACCTTAAGAAACGTTAT+CGG	+	chr3_1:363786-363805	Msa0342490:CDS	25.0%
!	CTTCTGTGTTATAGTGTTTT+TGG	+	chr3_1:363164-363183	Msa0342490:CDS	30.0%
	AAATGGAAAATGCTTATGGA+AGG	+	chr3_1:363198-363217	Msa0342490:CDS	30.0%
!	GTTTAAGAGATCTAGGTTTT+TGG	+	chr3_1:363220-363239	Msa0342490:CDS	30.0%
!!	TGGTTGATGAAAATGTGATT+AGG	+	chr3_1:363240-363259	Msa0342490:CDS	30.0%
!!	GGTTGATGAAAATGTGATTA+GGG	+	chr3_1:363241-363260	Msa0342490:CDS	30.0%
!!	TTTGTTAGAGATGTTGGTTT+AGG	+	chr3_1:363314-363333	Msa0342490:CDS	30.0%
	ATATTAAACGTCGTAACATC+AGG	-	chr3_1:363455-363474	None:intergenic	30.0%
	ATGGAAGGTTTAAGAGATCT+AGG	+	chr3_1:363213-363232	Msa0342490:CDS	35.0%
	TGAAAATGTGATTAGGGCTA+TGG	+	chr3_1:363247-363266	Msa0342490:CDS	35.0%
!!	TTAGAGATGTTGGTTTAGGT+AGG	+	chr3_1:363318-363337	Msa0342490:CDS	35.0%
	GTTTAGGTAGGAGAAATGTA+GGG	+	chr3_1:363330-363349	Msa0342490:intron	35.0%
	TGAACATATGGGAATTGAGA+AGG	+	chr3_1:363529-363548	Msa0342490:CDS	35.0%
!!	GTTCCTGATTTGGTTACTTA+TGG	+	chr3_1:363554-363573	Msa0342490:CDS	35.0%
	CAACCATAAGTAACCAAATC+AGG	-	chr3_1:363560-363579	None:intergenic	35.0%
	CCTAAAACCTCAAACACAAA+CGG	-	chr3_1:363680-363699	None:intergenic	35.0%
!!!	GTGTTTGAGGTTTTAGGTAA+AGG	+	chr3_1:363683-363702	Msa0342490:CDS	35.0%
	AACAACATGAGTGGAGTTAT+AGG	+	chr3_1:363750-363769	Msa0342490:CDS	35.0%
	ACAACATGAGTGGAGTTATA+GGG	+	chr3_1:363751-363770	Msa0342490:CDS	35.0%
!	ATCGGAGAGACCAAATATTT+TGG	+	chr3_1:363804-363823	Msa0342490:CDS	35.0%
!!	GGTCAGTTTGTTAGAGATGT+TGG	+	chr3_1:363308-363327	Msa0342490:CDS	40.0%
	GGTTTAGGTAGGAGAAATGT+AGG	+	chr3_1:363329-363348	Msa0342490:intron	40.0%
!!	GCAGAGAGAGTTTGTTAGAA+TGG	+	chr3_1:363412-363431	Msa0342490:intron	40.0%
	GACGTTTAATATCCGTGCTT+TGG	+	chr3_1:363463-363482	Msa0342490:CDS	40.0%
	ACATATGGGAATTGAGAAGG+TGG	+	chr3_1:363532-363551	Msa0342490:CDS	40.0%
	TGGATGCTTACTTGGATAGA+AGG	+	chr3_1:363585-363604	Msa0342490:CDS	40.0%
	TAGAAGGCTTGGAAGGAATT+TGG	+	chr3_1:363601-363620	Msa0342490:CDS	40.0%
!!	CCGTTTGTGTTTGAGGTTTT+AGG	+	chr3_1:363677-363696	Msa0342490:CDS	40.0%
	AGGTGACTTTCACTTGAGTT+TGG	+	chr3_1:363703-363722	Msa0342490:CDS	40.0%
	TGACTTTCACTTGAGTTTGG+AGG	+	chr3_1:363706-363725	Msa0342490:CDS	40.0%
!!!	CTTGAGTTTGGAGGCATTTT+TGG	+	chr3_1:363715-363734	Msa0342490:CDS	40.0%
	ACAAGACACAACAACATGAG+TGG	+	chr3_1:363741-363760	Msa0342490:CDS	40.0%
	CTCTCCGATAACGTTTCTTA+AGG	-	chr3_1:363793-363812	None:intergenic	40.0%
	GTGATTAGGGCTATGGCTTA+TGG	+	chr3_1:363254-363273	Msa0342490:CDS	45.0%
	TTCTCGAAAACGCCAAAGCA+CGG	-	chr3_1:363478-363497	None:intergenic	45.0%
!!	TGCTTTGGCGTTTTCGAGAA+TGG	+	chr3_1:363478-363497	Msa0342490:CDS	45.0%
!	TTTCGAGAATGGCGCTGTTT+TGG	+	chr3_1:363489-363508	Msa0342490:CDS	45.0%
!!	TTCGAGAATGGCGCTGTTTT+GGG	+	chr3_1:363490-363509	Msa0342490:CDS	45.0%
	TGAGAAGGTGGTTCCTGATT+TGG	+	chr3_1:363544-363563	Msa0342490:CDS	45.0%
	GGTTACTTATGGTTGCGTTG+TGG	+	chr3_1:363565-363584	Msa0342490:CDS	45.0%
	TTGCGTTGTGGATGCTTACT+TGG	+	chr3_1:363577-363596	Msa0342490:CDS	45.0%
	GCTTACTTGGATAGAAGGCT+TGG	+	chr3_1:363590-363609	Msa0342490:CDS	45.0%
	ACTTGGATAGAAGGCTTGGA+AGG	+	chr3_1:363594-363613	Msa0342490:CDS	45.0%
	TGGATGTGGATGTTTGTCCG+CGG	+	chr3_1:363642-363661	Msa0342490:CDS	50.0%
	TGTTTGTCCGCGGTTGTTGA+CGG	+	chr3_1:363652-363671	Msa0342490:CDS	50.0%
	GACGGATCCGTTTGTGTTTG+AGG	+	chr3_1:363670-363689	Msa0342490:CDS	50.0%
	AACGGATCCGTCAACAACCG+CGG	-	chr3_1:363662-363681	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	363095	363835	363095	ID=Msa0342490;Name=Msa0342490
chr3_1	mRNA	363095	363835	363095	ID=Msa0342490-mRNA-1;Parent=Msa0342490;Name=Msa0342490-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0\|0\|0\|1\|1\|1\|2\|0\|223
chr3_1	exon	363095	363346	363095	ID=Msa0342490-mRNA-1:exon:30;Parent=Msa0342490-mRNA-1
chr3_1	exon	363416	363835	363416	ID=Msa0342490-mRNA-1:exon:31;Parent=Msa0342490-mRNA-1
chr3_1	CDS	363095	363346	363095	ID=Msa0342490-mRNA-1:cds;Parent=Msa0342490-mRNA-1
chr3_1	CDS	363416	363835	363416	ID=Msa0342490-mRNA-1:cds;Parent=Msa0342490-mRNA-1

Gene Sequence

>Msa0342490

ATGGAAGAAACAATCAATGAAATGATTTCAAAGGGTTTTCAAATAGATTCCAAAACAGGTAATGAAATTCTTCTGTGTTATAGTGTTTTTGGTAGTTTGAATGAAATGGAAAATGCTTATGGAAGGTTTAAGAGATCTAGGTTTTTGGTTGATGAAAATGTGATTAGGGCTATGGCTTATGGTTATATAAAGAAGAGAAAATTCTATGAATTGGGTCAGTTTGTTAGAGATGTTGGTTTAGGTAGGAGAAATAGAGAGTTTGTTAGAATGGTTGAATTAGGGTTTCGTCCTGATGTTACGACGTTTAATATCCGTGCTTTGGCGTTTTCGAGAATGGCGCTGTTTTGGGATCTTCATCTTAGTATTGAACATATGGGAATTGAGAAGGTGGTTCCTGATTTGGTTACTTATGGTTGCGTTGTGGATGCTTACTTGGATAGAAGGCTTGGAAGGAATTTGGAGTTTGTTTTGAATAAAATGGATGTGGATGTTTGTCCGCGGTTGTTGACGGATCCGTTTGTGTTTGAGGTTTTAGGTAAAGGTGACTTTCACTTGAGTTTGGAGGCATTTTTGGAATACAAGACACAACAACATGAGTGGAGTTATAGGGTTTTGATAAAGAAATACCTTAAGAAACGTTATCGGAGAGACCAAATATTTTGGAACTACTAG

Protein sequence

>Msa0342490

MEETINEMISKGFQIDSKTGNEILLCYSVFGSLNEMENAYGRFKRSRFLVDENVIRAMAYGYIKKRKFYELGQFVRDVGLGRRNREFVRMVELGFRPDVTTFNIRALAFSRMALFWDLHLSIEHMGIEKVVPDLVTYGCVVDAYLDRRLGRNLEFVLNKMDVDVCPRLLTDPFVFEVLGKGDFHLSLEAFLEYKTQQHEWSYRVLIKKYLKKRYRRDQIFWNY*