AlfalfaGEDB | Msa0053330

M. sativa cultivar zhongmu-4 / Msa0053330

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
Msa0053330	AES59248.1	55.340	103	35	3	9	100	2	104	1.93e-20	89.7

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053330	sp\|Q5HZ36\|GAT21_ARATH	47.692	65	30	1	25	89	203	263	3.06e-11	62.4

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053330	G7I9Y7	55.340	103	35	3	9	100	2	104	9.24e-21	89.7

TFs/TRs:

Gene ID	Type	Classification
Msa0053330	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
Msa0053330	MtrunA17_Chr1g0151471	55.340	103	35	3	9	100	2	104	1.78e-24	89.7
Msa0053330	MtrunA17_Chr1g0151461	62.500	48	15	1	56	100	187	234	3.73e-13	64.3
Msa0053330	MtrunA17_Chr7g0271861	44.068	59	33	0	56	114	22	80	4.01e-12	58.9
Msa0053330	MtrunA17_Chr4g0068031	48.276	58	25	2	54	111	28	80	4.11e-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
Msa0053330	AT5G56860.1	47.692	65	30	1	25	89	203	263	3.11e-12	62.4
Msa0053330	AT5G49300.1	43.662	71	34	2	56	122	36	104	1.06e-11	58.2
Msa0053330	AT4G26150.1	71.875	32	9	0	56	87	199	230	5.32e-11	58.5

Find 27 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCTTCTTTGTGGCTGGAAC+TGG	0.239072	1_2:-7738997	None:intergenic
AGTATTCGCCATTGCCCTTT+TGG	0.253039	1_2:-7739108	None:intergenic
ATGAGTATCAAGACCCTTAT+CGG	0.303482	1_2:-7739395	None:intergenic
ATACAAACACCACTCCTCTT+TGG	0.362852	1_2:+7739160	Msa0053330:CDS
GGAAGAGGCAAAAGCCGATA+AGG	0.448770	1_2:+7739381	Msa0053330:CDS
CAATCGAAACAAACCCTAGT+TGG	0.460017	1_2:-7739135	None:intergenic
TCTTGATACTCATAAGGAAA+AGG	0.465163	1_2:+7739405	Msa0053330:CDS
TTGCCTCTTCCCTTCTTCGT+CGG	0.477939	1_2:-7739369	None:intergenic
CTTGATACTCATAAGGAAAA+GGG	0.489428	1_2:+7739406	Msa0053330:CDS
TAAGGGTCTTGATACTCATA+AGG	0.492473	1_2:+7739399	Msa0053330:CDS
ACTGAATACCAATACCCAAA+AGG	0.495831	1_2:+7739093	Msa0053330:CDS
CTGAATACCAATACCCAAAA+GGG	0.520921	1_2:+7739094	Msa0053330:CDS
GAAGAGGCAAAAGCCGATAA+GGG	0.529120	1_2:+7739382	Msa0053330:CDS
ATGTGGACTCCGACGAAGAA+GGG	0.540307	1_2:+7739360	Msa0053330:CDS
CTTTGGAGGAGTGATCCTAC+AGG	0.546346	1_2:+7739177	Msa0053330:CDS
CAAACACCACTCCTCTTTGG+AGG	0.570834	1_2:+7739163	Msa0053330:CDS
GGCGAATACTATATCCAACT+AGG	0.572160	1_2:+7739121	Msa0053330:CDS
CATGTGGACTCCGACGAAGA+AGG	0.573346	1_2:+7739359	Msa0053330:CDS
GAGTGATCCTACAGGTTCCA+AGG	0.583772	1_2:+7739185	Msa0053330:CDS
ACCAATACCCAAAAGGGCAA+TGG	0.585152	1_2:+7739100	Msa0053330:CDS
ACTCCGACGAAGAAGGGAAG+AGG	0.589069	1_2:+7739366	Msa0053330:CDS
GCGAATACTATATCCAACTA+GGG	0.606852	1_2:+7739122	Msa0053330:CDS
CAGTCGTTGTGCAATGCATG+TGG	0.610062	1_2:+7739343	Msa0053330:intron
ACTCATAAGGAAAAGGGCAA+TGG	0.616678	1_2:+7739412	Msa0053330:CDS
CTAATTACCTTGGAACCTGT+AGG	0.621221	1_2:-7739192	None:intergenic
ATCACTCCTCCAAAGAGGAG+TGG	0.650785	1_2:-7739169	None:intergenic
GTAGGATCACTCCTCCAAAG+AGG	0.666474	1_2:-7739174	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ACCAGTTTTTATTTTCTTTT+TGG	-	chr1_2:7739073-7739092	None:intergenic	20.0%
!!	ATAGTTAACAAGAAATATGT+TGG	+	chr1_2:7739318-7739337	Msa0053330:intron	20.0%
!	GCCAAAAAGAAAATAAAAAC+TGG	+	chr1_2:7739069-7739088	Msa0053330:CDS	25.0%
!	TAGAGATTAACTAATTACCT+TGG	-	chr1_2:7739205-7739224	None:intergenic	25.0%
!!!	AGCAGTTTTTTTCTTCTTTG+TGG	-	chr1_2:7739010-7739029	None:intergenic	30.0%
	ATGAACCAAGAGTAAAAGTT+GGG	-	chr1_2:7739233-7739252	None:intergenic	30.0%
	TCTTGATACTCATAAGGAAA+AGG	+	chr1_2:7739405-7739424	Msa0053330:CDS	30.0%
	CTTGATACTCATAAGGAAAA+GGG	+	chr1_2:7739406-7739425	Msa0053330:CDS	30.0%
!!!	GTTTTTTTCTTCTTTGTGGC+TGG	-	chr1_2:7739006-7739025	None:intergenic	35.0%
!!	AGCAGCTGATTTCTTCTTTT+TGG	-	chr1_2:7739043-7739062	None:intergenic	35.0%
	ACTGAATACCAATACCCAAA+AGG	+	chr1_2:7739093-7739112	Msa0053330:CDS	35.0%
	CTGAATACCAATACCCAAAA+GGG	+	chr1_2:7739094-7739113	Msa0053330:CDS	35.0%
	GCGAATACTATATCCAACTA+GGG	+	chr1_2:7739122-7739141	Msa0053330:CDS	35.0%
	TGAACCAAGAGTAAAAGTTG+GGG	-	chr1_2:7739232-7739251	None:intergenic	35.0%
	CATGAACCAAGAGTAAAAGT+TGG	-	chr1_2:7739234-7739253	None:intergenic	35.0%
	ATGAGTATCAAGACCCTTAT+CGG	-	chr1_2:7739398-7739417	None:intergenic	35.0%
	TAAGGGTCTTGATACTCATA+AGG	+	chr1_2:7739399-7739418	Msa0053330:CDS	35.0%
	GGCGAATACTATATCCAACT+AGG	+	chr1_2:7739121-7739140	Msa0053330:CDS	40.0%
	CAATCGAAACAAACCCTAGT+TGG	-	chr1_2:7739138-7739157	None:intergenic	40.0%
	ATACAAACACCACTCCTCTT+TGG	+	chr1_2:7739160-7739179	Msa0053330:CDS	40.0%
	CTAATTACCTTGGAACCTGT+AGG	-	chr1_2:7739195-7739214	None:intergenic	40.0%
!	TTCTCCCCAACTTTTACTCT+TGG	+	chr1_2:7739225-7739244	Msa0053330:intron	40.0%
	ACTCATAAGGAAAAGGGCAA+TGG	+	chr1_2:7739412-7739431	Msa0053330:CDS	40.0%
	TTCTTCTTTGTGGCTGGAAC+TGG	-	chr1_2:7739000-7739019	None:intergenic	45.0%
	ACCAATACCCAAAAGGGCAA+TGG	+	chr1_2:7739100-7739119	Msa0053330:CDS	45.0%
!	GTATTCGCCATTGCCCTTTT+GGG	-	chr1_2:7739110-7739129	None:intergenic	45.0%
!	AGTATTCGCCATTGCCCTTT+TGG	-	chr1_2:7739111-7739130	None:intergenic	45.0%
	GAAGAGGCAAAAGCCGATAA+GGG	+	chr1_2:7739382-7739401	Msa0053330:CDS	45.0%
!!	GCCATTGCCCTTTTGGGTAT+TGG	-	chr1_2:7739104-7739123	None:intergenic	50.0%
	CAAACACCACTCCTCTTTGG+AGG	+	chr1_2:7739163-7739182	Msa0053330:CDS	50.0%
	ATCACTCCTCCAAAGAGGAG+TGG	-	chr1_2:7739172-7739191	None:intergenic	50.0%
	GTAGGATCACTCCTCCAAAG+AGG	-	chr1_2:7739177-7739196	None:intergenic	50.0%
!	CTTTGGAGGAGTGATCCTAC+AGG	+	chr1_2:7739177-7739196	Msa0053330:CDS	50.0%
	GAGTGATCCTACAGGTTCCA+AGG	+	chr1_2:7739185-7739204	Msa0053330:CDS	50.0%
	CAGTCGTTGTGCAATGCATG+TGG	+	chr1_2:7739343-7739362	Msa0053330:intron	50.0%
	ATGTGGACTCCGACGAAGAA+GGG	+	chr1_2:7739360-7739379	Msa0053330:CDS	50.0%
	TTGCCTCTTCCCTTCTTCGT+CGG	-	chr1_2:7739372-7739391	None:intergenic	50.0%
	GGAAGAGGCAAAAGCCGATA+AGG	+	chr1_2:7739381-7739400	Msa0053330:CDS	50.0%
	CATGTGGACTCCGACGAAGA+AGG	+	chr1_2:7739359-7739378	Msa0053330:CDS	55.0%
	ACTCCGACGAAGAAGGGAAG+AGG	+	chr1_2:7739366-7739385	Msa0053330:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	7738976	7739483	7738976	ID=Msa0053330;Name=Msa0053330
chr1_2	mRNA	7738976	7739483	7738976	ID=Msa0053330-mRNA-1;Parent=Msa0053330;Name=Msa0053330-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0\|0\|0\|1\|1\|1\|2\|0\|122
chr1_2	exon	7738976	7739206	7738976	ID=Msa0053330-mRNA-1:exon:2681;Parent=Msa0053330-mRNA-1
chr1_2	exon	7739346	7739483	7739346	ID=Msa0053330-mRNA-1:exon:2682;Parent=Msa0053330-mRNA-1
chr1_2	CDS	7738976	7739206	7738976	ID=Msa0053330-mRNA-1:cds;Parent=Msa0053330-mRNA-1
chr1_2	CDS	7739346	7739483	7739346	ID=Msa0053330-mRNA-1:cds;Parent=Msa0053330-mRNA-1

Gene Sequence	>Msa0053330 ATGAGAGTAAGTAACGATGATCCAGTTCCAGCCACAAAGAAGAAAAAAACTGCTGCTAGTGCTGCCAAAAAGAAGAAATCAGCTGCTAGTGCTGCCAAAAAGAAAATAAAAACTGGTACTGAATACCAATACCCAAAAGGGCAATGGCGAATACTATATCCAACTAGGGTTTGTTTCGATTGCAATACAAACACCACTCCTCTTTGGAGGAGTGATCCTACAGGTTCCAAGTCGTTGTGCAATGCATGTGGACTCCGACGAAGAAGGGAAGAGGCAAAAGCCGATAAGGGTCTTGATACTCATAAGGAAAAGGGCAATGGCGAACGCTCTTCATCTGAAAATGTGAAGAATGTTTTAATGTTCATCTGA
Protein sequence	>Msa0053330 MRVSNDDPVPATKKKKTAASAAKKKKSAASAAKKKIKTGTEYQYPKGQWRILYPTRVCFDCNTNTTPLWRSDPTGSKSLCNACGLRRRREEAKADKGLDTHKEKGNGERSSSENVKNVLMFI*