AlfalfaGEDB | Msa0329170

M. sativa cultivar zhongmu-4 / Msa0329170

KEGG: -
GO: GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141
PFAM: PF00010.29

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0329170	KEH42071.1	89.602	327	20	8	3	322	168	487	0.0	562

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0329170	sp\|Q9SA82\|BH052_ARATH	38.596	228	123	6	99	315	41	262	3.83e-32	123

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
Msa0329170	TF	bHLH

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

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
Msa0329170	MtrunA17_Chr2g0311101	85.976	328	22	6	1	322	1	310	0.0	519
Msa0329170	MtrunA17_Chr1g0179061	88.618	246	15	7	13	251	1	240	1.71e-148	417
Msa0329170	MtrunA17_Chr8g0384141	58.491	53	22	0	192	244	125	177	7.65e-13	67.4
Msa0329170	MtrunA17_Chr3g0134001	58.491	53	22	0	192	244	182	234	3.39e-12	65.9

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0329170	AT1G30670.1	38.596	228	123	6	99	315	41	262	3.89e-33	123
Msa0329170	AT2G34820.1	40.336	238	107	8	99	315	66	289	1.34e-27	109
Msa0329170	AT3G21330.1	60.377	53	21	0	192	244	280	332	5.62e-13	69.3
Msa0329170	AT5G01305.1	50.000	58	29	0	192	249	48	105	7.30e-12	63.5

Find 47 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCATTATGATTGCTCAATT+TGG	0.191234	2_4:+42294389	None:intergenic
AGTTGGAATGCTTCAACTTA+TGG	0.195386	2_4:-42295347	Msa0329170:CDS
ATCTCTGCTGTGTTCATCTT+TGG	0.238213	2_4:+42295412	None:intergenic
AAAATGAAATCTTCCTCATT+TGG	0.263570	2_4:+42295739	None:intergenic
AATTTGGTGACAAACTCTTT+TGG	0.289383	2_4:+42294405	None:intergenic
CCTCATAATATAGCAGCTTT+TGG	0.311729	2_4:+42295686	None:intergenic
GTTCAATGTGAGAAGAAAAT+TGG	0.315720	2_4:-42295532	Msa0329170:CDS
AAATGAAATCTTCCTCATTT+GGG	0.325640	2_4:+42295740	None:intergenic
TACAATTTCTCTTGAACAAA+TGG	0.348402	2_4:+42294450	None:intergenic
GAGAAGCTTCATTGAAATAG+TGG	0.359894	2_4:+42295902	None:intergenic
ATCAAAACCTACCATCCTTA+AGG	0.361760	2_4:-42294361	Msa0329170:CDS
AAATAACACTATTCTTGCTT+TGG	0.365183	2_4:+42294300	None:intergenic
TCAAAGGAAGCAAAAGGGTT+AGG	0.369513	2_4:+42295592	None:intergenic
GCAGTTTGAATAGGTTGATA+AGG	0.385279	2_4:+42295988	None:intergenic
GAGCTTGGGAAGTTGGTTCC+TGG	0.392352	2_4:-42295439	Msa0329170:CDS
GACACAAGAGCTTGGGAAGT+TGG	0.397999	2_4:-42295446	Msa0329170:CDS
TTGATTATTTCAGGAAGAAA+AGG	0.418378	2_4:-42294514	Msa0329170:intron
CAAGCTGTTTCAGACCCTTA+AGG	0.427556	2_4:+42294346	None:intergenic
CCAAAAGCTGCTATATTATG+AGG	0.434506	2_4:-42295686	Msa0329170:CDS
TCTGCCTCAAAGGAAGCAAA+AGG	0.449981	2_4:+42295586	None:intergenic
TCAAAACCTACCATCCTTAA+GGG	0.456430	2_4:-42294360	Msa0329170:CDS
AAGGGTCTGAAACAGCTTGT+TGG	0.460418	2_4:-42294342	Msa0329170:CDS
CAAAGGAAGCAAAAGGGTTA+GGG	0.461232	2_4:+42295593	None:intergenic
TTGTGTAGATCTTCACTTGG+AGG	0.465635	2_4:+42294486	None:intergenic
AGAGTATCGCGGCGAGAGAA+AGG	0.466876	2_4:-42295489	Msa0329170:CDS
AGTGGTGATTTCTGAGTTGT+TGG	0.472171	2_4:+42295963	None:intergenic
CAGTTTGAATAGGTTGATAA+GGG	0.475268	2_4:+42295989	None:intergenic
TTGTTGGTAGCAGTTTGAAT+AGG	0.476845	2_4:+42295979	None:intergenic
TGTAGATCTTCACTTGGAGG+AGG	0.494574	2_4:+42294489	None:intergenic
GTGTTCATCTTTGGTCCACC+AGG	0.499817	2_4:+42295421	None:intergenic
ACTGAGAAGACACAAGAGCT+TGG	0.499993	2_4:-42295454	Msa0329170:CDS
CTGAGAAGACACAAGAGCTT+GGG	0.500383	2_4:-42295453	Msa0329170:CDS
AGCAAAGGTTTCTGCCTCAA+AGG	0.518713	2_4:+42295576	None:intergenic
CTTGGGAAGTTGGTTCCTGG+TGG	0.551828	2_4:-42295436	Msa0329170:CDS
AGTTTGTGTAGATCTTCACT+TGG	0.558027	2_4:+42294483	None:intergenic
TTGTTCATGATGTTGAAAAG+TGG	0.560071	2_4:+42295945	None:intergenic
GTGAGAAGAAAATTGGTGAA+AGG	0.563717	2_4:-42295525	Msa0329170:CDS
AAGTTTCTTCAAGCTCAAGT+TGG	0.567049	2_4:-42295364	Msa0329170:CDS
GAGTTCAAAAGCTCTTGTTG+TGG	0.567814	2_4:+42295649	None:intergenic
ACTTATGGAAACATTTAGCA+AGG	0.569731	2_4:-42295332	Msa0329170:intron
TTCAGACCCTTAAGGATGGT+AGG	0.578594	2_4:+42294354	None:intergenic
CTGCCTCAAAGGAAGCAAAA+GGG	0.580071	2_4:+42295587	None:intergenic
TCGCGGCGAGAGAAAGGAGA+AGG	0.587504	2_4:-42295483	Msa0329170:CDS
CTGTTTCAGACCCTTAAGGA+TGG	0.616344	2_4:+42294350	None:intergenic
AGTAGTTGATCATCTTGACA+AGG	0.655107	2_4:+42295820	None:intergenic
TATCTCGTCGCAGAGTATCG+CGG	0.686396	2_4:-42295500	Msa0329170:CDS
GTAGTTGATCATCTTGACAA+GGG	0.704443	2_4:+42295821	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ATTTTGTTTTTTTGTTAACA+TGG	-	chr2_4:42294325-42294344	Msa0329170:CDS	15.0%
!!!	TTTTGTTTTTTTGTTAACAT+GGG	-	chr2_4:42294326-42294345	Msa0329170:CDS	15.0%
!!	ATCTTTGTAAATATCTAAAA+TGG	-	chr2_4:42295240-42295259	Msa0329170:intron	15.0%
!!!	CACTATTAATTTTATTTTCT+AGG	+	chr2_4:42295739-42295758	None:intergenic	15.0%
!!	TCATTTGAGTAAAAACAATT+AGG	+	chr2_4:42294524-42294543	None:intergenic	20.0%
!!	ACTAACTAAATCTACAATAA+TGG	+	chr2_4:42295275-42295294	None:intergenic	20.0%
!!!	AATATTTTCAGAGTAAAAGT+AGG	+	chr2_4:42295369-42295388	None:intergenic	20.0%
!!!	CTTTTACTCTGAAAATATTT+AGG	-	chr2_4:42295370-42295389	Msa0329170:CDS	20.0%
!!	GAATATTTAAAAACAAAGAG+TGG	+	chr2_4:42295629-42295648	None:intergenic	20.0%
!!	TTATTGTATAAAGTTACACT+AGG	+	chr2_4:42295786-42295805	None:intergenic	20.0%
!!!	ATATGATCATTGATTATTTC+AGG	-	chr2_4:42295848-42295867	Msa0329170:CDS	20.0%
!	AAATGAAATCTTCCTCATTT+GGG	+	chr2_4:42294634-42294653	None:intergenic	25.0%
!	AAAATGAAATCTTCCTCATT+TGG	+	chr2_4:42294635-42294654	None:intergenic	25.0%
!	AAACTCATCCACAAAAAAAT+TGG	+	chr2_4:42294750-42294769	None:intergenic	25.0%
!!	TTTTATCAACATAAGACCTA+AGG	+	chr2_4:42295177-42295196	None:intergenic	25.0%
!!!	CAATAAACAAGAGAGTATTT+AGG	-	chr2_4:42295548-42295567	Msa0329170:CDS	25.0%
!	TTAGGAACAACAATTGTATA+TGG	-	chr2_4:42295566-42295585	Msa0329170:CDS	25.0%
!	TTGATTATTTCAGGAAGAAA+AGG	-	chr2_4:42295857-42295876	Msa0329170:CDS	25.0%
!	TACAATTTCTCTTGAACAAA+TGG	+	chr2_4:42295924-42295943	None:intergenic	25.0%
!	ATCATTATGATTGCTCAATT+TGG	+	chr2_4:42295985-42296004	None:intergenic	25.0%
!!	CAGTTTGAATAGGTTGATAA+GGG	+	chr2_4:42294385-42294404	None:intergenic	30.0%
	TTGTTCATGATGTTGAAAAG+TGG	+	chr2_4:42294429-42294448	None:intergenic	30.0%
!!!	ATCGTTTTGAGAAGAAAAAG+TGG	+	chr2_4:42294585-42294604	None:intergenic	30.0%
!!	ACTTTTTCTTCTCAAAACGA+TGG	-	chr2_4:42294584-42294603	Msa0329170:intron	30.0%
!	GAATGAAATTTTCCCAAATG+AGG	-	chr2_4:42294619-42294638	Msa0329170:intron	30.0%
!!!	GAACTCAACCAATTTTTTTG+TGG	-	chr2_4:42294739-42294758	Msa0329170:intron	30.0%
!!!	AACAATTTTTGAAGCAGCAA+AGG	+	chr2_4:42294813-42294832	None:intergenic	30.0%
	GTTCAATGTGAGAAGAAAAT+TGG	-	chr2_4:42294839-42294858	Msa0329170:intron	30.0%
	ACTTATGGAAACATTTAGCA+AGG	-	chr2_4:42295039-42295058	Msa0329170:intron	30.0%
!	TATTTAGTTTCCCAAACACT+TGG	-	chr2_4:42295671-42295690	Msa0329170:CDS	30.0%
	TAATATCCTTCCAAGTGTTT+GGG	+	chr2_4:42295684-42295703	None:intergenic	30.0%
	TTAATATCCTTCCAAGTGTT+TGG	+	chr2_4:42295685-42295704	None:intergenic	30.0%
!!	AATTTGGTGACAAACTCTTT+TGG	+	chr2_4:42295969-42295988	None:intergenic	30.0%
!!	GCAGTTTGAATAGGTTGATA+AGG	+	chr2_4:42294386-42294405	None:intergenic	35.0%
!!	TTGTTGGTAGCAGTTTGAAT+AGG	+	chr2_4:42294395-42294414	None:intergenic	35.0%
	GAGAAGCTTCATTGAAATAG+TGG	+	chr2_4:42294472-42294491	None:intergenic	35.0%
	GTAGTTGATCATCTTGACAA+GGG	+	chr2_4:42294553-42294572	None:intergenic	35.0%
	AGTAGTTGATCATCTTGACA+AGG	+	chr2_4:42294554-42294573	None:intergenic	35.0%
!	CCTCATAATATAGCAGCTTT+TGG	+	chr2_4:42294688-42294707	None:intergenic	35.0%
	CCAAAAGCTGCTATATTATG+AGG	-	chr2_4:42294685-42294704	Msa0329170:intron	35.0%
	GTGAGAAGAAAATTGGTGAA+AGG	-	chr2_4:42294846-42294865	Msa0329170:intron	35.0%
	AAGTTTCTTCAAGCTCAAGT+TGG	-	chr2_4:42295007-42295026	Msa0329170:intron	35.0%
	AGTTGGAATGCTTCAACTTA+TGG	-	chr2_4:42295024-42295043	Msa0329170:intron	35.0%
	ATCAACATAAGACCTAAGGA+AGG	+	chr2_4:42295173-42295192	None:intergenic	35.0%
!	TTTTCAGAGTAAAAGTAGGC+AGG	+	chr2_4:42295365-42295384	None:intergenic	35.0%
	CGGTTAATAAGAAGAGGAAA+TGG	-	chr2_4:42295524-42295543	Msa0329170:CDS	35.0%
	CAATTGTATATGGAATGAGC+TGG	-	chr2_4:42295576-42295595	Msa0329170:CDS	35.0%
	AGTTTGTGTAGATCTTCACT+TGG	+	chr2_4:42295891-42295910	None:intergenic	35.0%
	ATCAAAACCTACCATCCTTA+AGG	-	chr2_4:42296010-42296029	Msa0329170:CDS	35.0%
	TCAAAACCTACCATCCTTAA+GGG	-	chr2_4:42296011-42296030	Msa0329170:CDS	35.0%
	AGTGGTGATTTCTGAGTTGT+TGG	+	chr2_4:42294411-42294430	None:intergenic	40.0%
!	TATAGCAGCTTTTGGCGTTT+TGG	+	chr2_4:42294680-42294699	None:intergenic	40.0%
	GAGTTCAAAAGCTCTTGTTG+TGG	+	chr2_4:42294725-42294744	None:intergenic	40.0%
	CAAAGGAAGCAAAAGGGTTA+GGG	+	chr2_4:42294781-42294800	None:intergenic	40.0%
	TCAAAGGAAGCAAAAGGGTT+AGG	+	chr2_4:42294782-42294801	None:intergenic	40.0%
!	TAACCCTTTTGCTTCCTTTG+AGG	-	chr2_4:42294781-42294800	Msa0329170:intron	40.0%
	ATCTCTGCTGTGTTCATCTT+TGG	+	chr2_4:42294962-42294981	None:intergenic	40.0%
!	ACTGTTTTGTGTCCTTCCTT+AGG	-	chr2_4:42295158-42295177	Msa0329170:intron	40.0%
	GGGAAACGGTTAATAAGAAG+AGG	-	chr2_4:42295518-42295537	Msa0329170:CDS	40.0%
	GGCTATGTAACTGTTCAACA+AGG	-	chr2_4:42295597-42295616	Msa0329170:CDS	40.0%
	TAGTTTCCCAAACACTTGGA+AGG	-	chr2_4:42295675-42295694	Msa0329170:CDS	40.0%
!!	TAGGTGCTGAATCATGTCAT+GGG	+	chr2_4:42295720-42295739	None:intergenic	40.0%
	TTGTGTAGATCTTCACTTGG+AGG	+	chr2_4:42295888-42295907	None:intergenic	40.0%
	CTGCCTCAAAGGAAGCAAAA+GGG	+	chr2_4:42294787-42294806	None:intergenic	45.0%
	TCTGCCTCAAAGGAAGCAAA+AGG	+	chr2_4:42294788-42294807	None:intergenic	45.0%
	AGCAAAGGTTTCTGCCTCAA+AGG	+	chr2_4:42294798-42294817	None:intergenic	45.0%
	ACTGAGAAGACACAAGAGCT+TGG	-	chr2_4:42294917-42294936	Msa0329170:intron	45.0%
	CTGAGAAGACACAAGAGCTT+GGG	-	chr2_4:42294918-42294937	Msa0329170:intron	45.0%
	AGAGAGAGAGAGAGAGAGAA+GGG	-	chr2_4:42295492-42295511	Msa0329170:CDS	45.0%
	AGAGAGAGAGAGAAGGGTTA+GGG	-	chr2_4:42295498-42295517	Msa0329170:CDS	45.0%
	AGAGAGAAGGGTTAGGGAAA+CGG	-	chr2_4:42295504-42295523	Msa0329170:CDS	45.0%
!!	CTAGGTGCTGAATCATGTCA+TGG	+	chr2_4:42295721-42295740	None:intergenic	45.0%
	TGTAGATCTTCACTTGGAGG+AGG	+	chr2_4:42295885-42295904	None:intergenic	45.0%
	TTCAGACCCTTAAGGATGGT+AGG	+	chr2_4:42296020-42296039	None:intergenic	45.0%
	CTGTTTCAGACCCTTAAGGA+TGG	+	chr2_4:42296024-42296043	None:intergenic	45.0%
!	CAAGCTGTTTCAGACCCTTA+AGG	+	chr2_4:42296028-42296047	None:intergenic	45.0%
!	AAGGGTCTGAAACAGCTTGT+TGG	-	chr2_4:42296029-42296048	Msa0329170:CDS	45.0%
!!	GGCGTTTTGGACAATGAAGC+TGG	+	chr2_4:42294667-42294686	None:intergenic	50.0%
!!	TATCTCGTCGCAGAGTATCG+CGG	-	chr2_4:42294871-42294890	Msa0329170:intron	50.0%
	GACACAAGAGCTTGGGAAGT+TGG	-	chr2_4:42294925-42294944	Msa0329170:intron	50.0%
	GTGTTCATCTTTGGTCCACC+AGG	+	chr2_4:42294953-42294972	None:intergenic	50.0%
	GAGAGAGAGAGAGAGAGAGA+AGG	-	chr2_4:42295425-42295444	Msa0329170:CDS	50.0%
	GAGAGAGAGAGAGAAGGGTT+AGG	-	chr2_4:42295497-42295516	Msa0329170:CDS	50.0%
!!	AGAGTATCGCGGCGAGAGAA+AGG	-	chr2_4:42294882-42294901	Msa0329170:intron	55.0%
!	GAGCTTGGGAAGTTGGTTCC+TGG	-	chr2_4:42294932-42294951	Msa0329170:intron	55.0%
!	CTTGGGAAGTTGGTTCCTGG+TGG	-	chr2_4:42294935-42294954	Msa0329170:intron	55.0%
	TCGCGGCGAGAGAAAGGAGA+AGG	-	chr2_4:42294888-42294907	Msa0329170:intron	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	42294308	42296085	42294308	ID=Msa0329170;Name=Msa0329170
chr2_4	mRNA	42294308	42296085	42294308	ID=Msa0329170-mRNA-1;Parent=Msa0329170;Name=Msa0329170-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0\|0\|0\|1\|1\|1\|2\|0\|322
chr2_4	exon	42295333	42296085	42295333	ID=Msa0329170-mRNA-1:exon:13077;Parent=Msa0329170-mRNA-1
chr2_4	exon	42294308	42294523	42294308	ID=Msa0329170-mRNA-1:exon:13076;Parent=Msa0329170-mRNA-1
chr2_4	CDS	42295333	42296085	42295333	ID=Msa0329170-mRNA-1:cds;Parent=Msa0329170-mRNA-1
chr2_4	CDS	42294308	42294523	42294308	ID=Msa0329170-mRNA-1:cds;Parent=Msa0329170-mRNA-1

Gene Sequence

>Msa0329170

ATGTTTTTTTCTTGCAGATTTTGTTTTTTTGTTAACATGGGAGCACTTAGCACATACTTTAACTATAATTGTTACCCTTATCAACCTATTCAAACTGCTACCAACAACTCAGAAATCACCACTTTTCAACATCATGAACAAGAACAACTTGTGCAACAAAACCACTATTTCAATGAAGCTTCTCTTTTAGATGAAAGCTTCATTTTTCAAACTCCTAATTGTTTTTACTCAAATGAGACTTACCCTTGTCAAGATGATCAACTACTTGTTGACTCCACTTTTTCTTCTCAAAACGATGGCTTCGTTTCGATGAATGAAATTTTCCCAAATGAGGAAGATTTCATTTTCAACAACTACCAGCTTCATTGTCCAAAACGCCAAAAGCTGCTATATTATGAGGAGAAAAGAGAAGAGCCACAACAAGAGCTTTTGAACTCAACCAATTTTTTTGTGGATGAGTTTATGACTAACCCTAACCCTTTTGCTTCCTTTGAGGCAGAAACCTTTGCTGCTTCAAAAATTGTTGATGTTGTTCAATGTGAGAAGAAAATTGGTGAAAGGACTATCTCGTCGCAGAGTATCGCGGCGAGAGAAAGGAGAAGGAAGATAACTGAGAAGACACAAGAGCTTGGGAAGTTGGTTCCTGGTGGACCAAAGATGAACACAGCAGAGATGCTTCATGCTGCTGCTAATTATGTCAAGTTTCTTCAAGCTCAAGTTGGAATGCTTCAACTTATGGAAACATTTAGCAAGGAAGAAAAGGAACCTCCTCCAAGTGAAGATCTACACAAACTAGTTGTTTCTCCATTTGTTCAAGAGAAATTGTATTCAGAAGAAAAGTGCTTTGTTCCAAAAGAGTTTGTCACCAAATTGAGCAATCATAATGATGTTCAATCAAAACCTACCATCCTTAAGGGTCTGAAACAGCTTGTTGGAACTGAGATTGAGAAGAAACCAAAGCAAGAATAG

Protein sequence

>Msa0329170

MFFSCRFCFFVNMGALSTYFNYNCYPYQPIQTATNNSEITTFQHHEQEQLVQQNHYFNEASLLDESFIFQTPNCFYSNETYPCQDDQLLVDSTFSSQNDGFVSMNEIFPNEEDFIFNNYQLHCPKRQKLLYYEEKREEPQQELLNSTNFFVDEFMTNPNPFASFEAETFAASKIVDVVQCEKKIGERTISSQSIAARERRRKITEKTQELGKLVPGGPKMNTAEMLHAAANYVKFLQAQVGMLQLMETFSKEEKEPPPSEDLHKLVVSPFVQEKLYSEEKCFVPKEFVTKLSNHNDVQSKPTILKGLKQLVGTEIEKKPKQE*