AlfalfaGEDB | Msa1407450

M. sativa cultivar zhongmu-4 / Msa1407450

KEGG: -
GO: GO:0000976 GO:0000977 GO:0000981 GO:0001012 GO:0001067 GO:0001085 GO:0001101 GO:0001228 GO:0001678 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0007568 GO:0007623 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009628 GO:0009639 GO:0009657 GO:0009658 GO:0009719 GO:0009725 GO:0009735 GO:0009736 GO:0009739 GO:0009740 GO:0009743 GO:0009746 GO:0009749 GO:0009755 GO:0009756 GO:0009757 GO:0009889 GO:0009891 GO:0009893 GO:0009909 GO:0009910 GO:0009937 GO:0009938 GO:0009966 GO:0009968 GO:0009987 GO:0010029 GO:0010033 GO:0010035 GO:0010114 GO:0010151 GO:0010167 GO:0010182 GO:0010187 GO:0010255 GO:0010380 GO:0010467 GO:0010468 GO:0010476 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0010646 GO:0010648 GO:0016043 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019725 GO:0023051 GO:0023052 GO:0023057 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0032870 GO:0032991 GO:0033500 GO:0033993 GO:0034284 GO:0034641 GO:0034645 GO:0034654 GO:0042221 GO:0042592 GO:0042593 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0043610 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:0048511 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048580 GO:0048581 GO:0048583 GO:0048585 GO:0048731 GO:0048831 GO:0048856 GO:0048869 GO:0048878 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051173 GO:0051193 GO:0051194 GO:0051239 GO:0051241 GO:0051252 GO:0051254 GO:0051716 GO:0055082 GO:0060255 GO:0065007 GO:0065008 GO:0070887 GO:0071229 GO:0071310 GO:0071322 GO:0071326 GO:0071331 GO:0071333 GO:0071368 GO:0071370 GO:0071396 GO:0071495 GO:0071704 GO:0071840 GO:0080050 GO:0080090 GO:0090056 GO:0090304 GO:0090693 GO:0097159 GO:0097659 GO:0099402 GO:0140110 GO:1900140 GO:1901360 GO:1901362 GO:1901363 GO:1901401 GO:1901403 GO:1901463 GO:1901465 GO:1901576 GO:1901698 GO:1901700 GO:1901701 GO:1902326 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000026 GO:2000028 GO:2000112 GO:2000241 GO:2000242 GO:2001141
PFAM: PF00320.30

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1407450	AES59248.1	55.340	103	35	3	9	100	2	104	7.71e-20	88.2

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1407450	sp\|Q5HZ36\|GAT21_ARATH	49.231	65	29	1	25	89	203	263	9.07e-12	63.9

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1407450	G7I9Y7	55.340	103	35	3	9	100	2	104	3.68e-20	88.2

TFs/TRs:

Gene ID	Type	Classification
Msa1407450	TF	C2C2-GATA

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
Msa1407450	MtrunA17_Chr1g0151471	55.340	103	35	3	9	100	2	104	7.09e-24	88.2
Msa1407450	MtrunA17_Chr1g0151461	60.417	48	16	1	56	100	187	234	1.54e-12	62.4
Msa1407450	MtrunA17_Chr7g0271861	42.373	59	34	0	56	114	22	80	1.40e-11	57.4
Msa1407450	MtrunA17_Chr4g0068031	50.909	55	22	2	54	108	28	77	4.15e-11	56.6

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1407450	AT5G56860.1	49.231	65	29	1	25	89	203	263	9.22e-13	63.9
Msa1407450	AT4G26150.1	71.875	32	9	0	56	87	199	230	5.32e-11	58.5
Msa1407450	AT3G16870.1	45.000	60	32	1	56	115	42	100	9.45e-11	56.6

Find 26 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCTTCTTTGTGGCTGGAAC+TGG	0.239072	tig0023312:+17922	Msa1407450:intergenic
AGTATTCGCCATTGCCCTTT+TGG	0.253039	tig0023312:+17811	Msa1407450:intergenic
ATGAGTATCAAGACCCTTAT+CGG	0.303482	tig0023312:+17520	Msa1407450:intergenic
ATACAAACACTACTCCTCTT+TGG	0.387924	tig0023312:-17759	Msa1407450:CDS
GGAAGAGACAAAAGCCGATA+AGG	0.446474	tig0023312:-17534	Msa1407450:CDS
CAATCGAAACAAACCCTAGT+TGG	0.460017	tig0023312:+17784	Msa1407450:intergenic
TCTTGATACTCATAAGGAAA+AGG	0.465163	tig0023312:-17510	Msa1407450:CDS
TTGTCTCTTCCCTTCTTCGT+CGG	0.477939	tig0023312:+17546	Msa1407450:intergenic
CTTGATACTCATAAGGAAAA+GGG	0.489428	tig0023312:-17509	Msa1407450:CDS
TAAGGGTCTTGATACTCATA+AGG	0.492473	tig0023312:-17516	Msa1407450:CDS
GAAGAGACAAAAGCCGATAA+GGG	0.509802	tig0023312:-17533	Msa1407450:CDS
ACTGAATACGAATACCCAAA+AGG	0.516751	tig0023312:-17826	Msa1407450:CDS
CTGAATACGAATACCCAAAA+GGG	0.528839	tig0023312:-17825	Msa1407450:CDS
ATGTGGACTCCGACGAAGAA+GGG	0.540307	tig0023312:-17555	Msa1407450:CDS
CTTTGGAGGAGTGATCCTAC+AGG	0.546346	tig0023312:-17742	Msa1407450:CDS
GGCGAATACTATATCCAACT+AGG	0.572160	tig0023312:-17798	Msa1407450:CDS
CATGTGGACTCCGACGAAGA+AGG	0.573346	tig0023312:-17556	Msa1407450:CDS
GAGTGATCCTACAGGTTCCA+AGG	0.583772	tig0023312:-17734	Msa1407450:intron
CAAACACTACTCCTCTTTGG+AGG	0.592172	tig0023312:-17756	Msa1407450:CDS
GCGAATACTATATCCAACTA+GGG	0.606852	tig0023312:-17797	Msa1407450:CDS
CAGTCGTTGTGCAATGCATG+TGG	0.610062	tig0023312:-17572	Msa1407450:CDS
ACGAATACCCAAAAGGGCAA+TGG	0.610371	tig0023312:-17819	Msa1407450:CDS
ACTCATAAGGAAAAGGGCAA+TGG	0.616678	tig0023312:-17503	Msa1407450:CDS
CTAATTACCTTGGAACCTGT+AGG	0.621221	tig0023312:+17727	Msa1407450:intergenic
TGGCGAAAGCTCATCATCTG+AGG	0.622295	tig0023312:-17483	Msa1407450:CDS
GTAGGATCACTCCTCCAAAG+AGG	0.666474	tig0023312:+17745	Msa1407440:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TCCAGTTTTTATTTTCTTTT+TGG	+	tig0023312:17551-17570	Msa1407450:intergenic	20.0%
!!	ATAGTTAACAAGAAATATGT+TGG	-	tig0023312:17800-17819	Msa1407450:CDS	20.0%
!	GCCAAAAAGAAAATAAAAAC+TGG	-	tig0023312:17547-17566	Msa1407450:CDS	25.0%
!	TAGAGATTAACTAATTACCT+TGG	+	tig0023312:17683-17702	Msa1407450:intergenic	25.0%
	TCTTGATACTCATAAGGAAA+AGG	-	tig0023312:17887-17906	Msa1407450:CDS	30.0%
	CTTGATACTCATAAGGAAAA+GGG	-	tig0023312:17888-17907	Msa1407450:CDS	30.0%
!!!	AGCAGCTTTTTTCTTCTTTG+TGG	+	tig0023312:17488-17507	None:intergenic	35.0%
	ACTGAATACGAATACCCAAA+AGG	-	tig0023312:17571-17590	Msa1407450:CDS	35.0%
	CTGAATACGAATACCCAAAA+GGG	-	tig0023312:17572-17591	Msa1407450:CDS	35.0%
	GCGAATACTATATCCAACTA+GGG	-	tig0023312:17600-17619	Msa1407450:intron	35.0%
	ATACAAACACTACTCCTCTT+TGG	-	tig0023312:17638-17657	Msa1407450:intron	35.0%
	ATGAACCAAGAGTGAAAGTT+GGG	+	tig0023312:17711-17730	Msa1407450:intergenic	35.0%
	ATGAGTATCAAGACCCTTAT+CGG	+	tig0023312:17880-17899	Msa1407450:intergenic	35.0%
	TAAGGGTCTTGATACTCATA+AGG	-	tig0023312:17881-17900	Msa1407450:CDS	35.0%
!!!	GCTTTTTTCTTCTTTGTGGC+TGG	+	tig0023312:17484-17503	None:intergenic	40.0%
	AGAAGAAAAAAGCTGCTGCT+AGG	-	tig0023312:17491-17510	Msa1407450:CDS	40.0%
	GAAGAAAAAAGCTGCTGCTA+GGG	-	tig0023312:17492-17511	Msa1407450:CDS	40.0%
	GGCGAATACTATATCCAACT+AGG	-	tig0023312:17599-17618	Msa1407450:intron	40.0%
	CAATCGAAACAAACCCTAGT+TGG	+	tig0023312:17616-17635	Msa1407450:intergenic	40.0%
	CTAATTACCTTGGAACCTGT+AGG	+	tig0023312:17673-17692	Msa1407450:intergenic	40.0%
	TGAACCAAGAGTGAAAGTTG+GGG	+	tig0023312:17710-17729	Msa1407450:intergenic	40.0%
	CATGAACCAAGAGTGAAAGT+TGG	+	tig0023312:17712-17731	Msa1407450:intergenic	40.0%
	ACTCTTGGTTCATGCAAAAG+TGG	-	tig0023312:17718-17737	Msa1407450:intron	40.0%
	GAAGAGACAAAAGCCGATAA+GGG	-	tig0023312:17864-17883	Msa1407450:CDS	40.0%
	ACTCATAAGGAAAAGGGCAA+TGG	-	tig0023312:17894-17913	Msa1407450:CDS	40.0%
	TTCTTCTTTGTGGCTGGAAC+TGG	+	tig0023312:17478-17497	None:intergenic	45.0%
	ACGAATACCCAAAAGGGCAA+TGG	-	tig0023312:17578-17597	Msa1407450:intron	45.0%
!	GTATTCGCCATTGCCCTTTT+GGG	+	tig0023312:17588-17607	Msa1407450:intergenic	45.0%
!	AGTATTCGCCATTGCCCTTT+TGG	+	tig0023312:17589-17608	Msa1407450:intergenic	45.0%
	CAAACACTACTCCTCTTTGG+AGG	-	tig0023312:17641-17660	Msa1407450:intron	45.0%
	TTCTCCCCAACTTTCACTCT+TGG	-	tig0023312:17703-17722	Msa1407450:intron	45.0%
	TTGTCTCTTCCCTTCTTCGT+CGG	+	tig0023312:17854-17873	Msa1407450:intergenic	45.0%
	GGAAGAGACAAAAGCCGATA+AGG	-	tig0023312:17863-17882	Msa1407450:CDS	45.0%
	GTAGGATCACTCCTCCAAAG+AGG	+	tig0023312:17655-17674	Msa1407450:intergenic	50.0%
!	CTTTGGAGGAGTGATCCTAC+AGG	-	tig0023312:17655-17674	Msa1407450:intron	50.0%
	GAGTGATCCTACAGGTTCCA+AGG	-	tig0023312:17663-17682	Msa1407450:intron	50.0%
	CACATGCATTGCACAACGAC+TGG	+	tig0023312:17827-17846	Msa1407450:intergenic	50.0%
	CAGTCGTTGTGCAATGCATG+TGG	-	tig0023312:17825-17844	Msa1407450:CDS	50.0%
	ATGTGGACTCCGACGAAGAA+GGG	-	tig0023312:17842-17861	Msa1407450:CDS	50.0%
	TGGCGAAAGCTCATCATCTG+AGG	-	tig0023312:17914-17933	Msa1407450:CDS	50.0%
	CATGTGGACTCCGACGAAGA+AGG	-	tig0023312:17841-17860	Msa1407450:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
tig0023312	gene	17454	17965	17454	ID=Msa1407450;Name=Msa1407450
tig0023312	mRNA	17454	17965	17454	ID=Msa1407450-mRNA-1;Parent=Msa1407450;Name=Msa1407450-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0\|0\|0\|1\|1\|1\|2\|0\|122
tig0023312	exon	17735	17965	17735	ID=Msa1407450-mRNA-1:exon:25090;Parent=Msa1407450-mRNA-1
tig0023312	exon	17454	17591	17454	ID=Msa1407450-mRNA-1:exon:25089;Parent=Msa1407450-mRNA-1
tig0023312	CDS	17735	17965	17735	ID=Msa1407450-mRNA-1:cds;Parent=Msa1407450-mRNA-1
tig0023312	CDS	17454	17591	17454	ID=Msa1407450-mRNA-1:cds;Parent=Msa1407450-mRNA-1

Gene Sequence	>Msa1407450 ATGAGAGTAAGTAACGATGATCCAGTTCCAGCCACAAAGAAGAAAAAAGCTGCTGCTAGGGCTACAAAAAAGAAGAAAACAGCTGCTAGTGCTGCCAAAAAGAAAATAAAAACTGGAACTGAATACGAATACCCAAAAGGGCAATGGCGAATACTATATCCAACTAGGGTTTGTTTCGATTGCAATACAAACACTACTCCTCTTTGGAGGAGTGATCCTACAGGTTCCAAGTCGTTGTGCAATGCATGTGGACTCCGACGAAGAAGGGAAGAGACAAAAGCCGATAAGGGTCTTGATACTCATAAGGAAAAGGGCAATGGCGAAAGCTCATCATCTGAGGATGTGAAGAATGTTTTATTGTTCATTTGA
Protein sequence	>Msa1407450 MRVSNDDPVPATKKKKAAARATKKKKTAASAAKKKIKTGTEYEYPKGQWRILYPTRVCFDCNTNTTPLWRSDPTGSKSLCNACGLRRRREETKADKGLDTHKEKGNGESSSSEDVKNVLLFI*