AlfalfaGEDB | Msa0053310

M. sativa cultivar zhongmu-4 / Msa0053310

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
Msa0053310	AES59248.1	55.340	103	35	3	9	100	2	104	6.80e-21	90.9

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053310	sp\|Q5HZ36\|GAT21_ARATH	46.154	65	31	1	25	89	203	263	4.84e-11	61.6

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053310	G7I9Y7	55.340	103	35	3	9	100	2	104	3.25e-21	90.9

TFs/TRs:

Gene ID	Type	Classification
Msa0053310	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
Msa0053310	MtrunA17_Chr1g0151471	55.340	103	35	3	9	100	2	104	6.25e-25	90.9
Msa0053310	MtrunA17_Chr1g0151461	62.500	48	15	1	56	100	187	234	3.55e-13	64.3
Msa0053310	MtrunA17_Chr7g0271861	42.373	59	34	0	56	114	22	80	1.54e-11	57.4
Msa0053310	MtrunA17_Chr4g0068031	48.276	58	25	2	54	111	28	80	3.16e-11	57.0

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053310	AT5G56860.1	46.154	65	31	1	25	89	203	263	4.92e-12	61.6
Msa0053310	AT5G49300.1	44.928	69	32	2	56	120	36	102	8.05e-12	58.5
Msa0053310	AT4G26150.1	71.875	32	9	0	56	87	199	230	4.42e-11	58.9
Msa0053310	AT5G26930.1	60.000	35	14	0	56	90	26	60	9.10e-11	55.5

Find 27 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCTTCTTTGTGGCTGGAAC+TGG	0.239072	1_2:-7726653	None:intergenic
AGTATTCGCCATTGCCCTTT+TGG	0.253039	1_2:-7726764	None:intergenic
ATGAGTATCAAGACCCTTAT+CGG	0.303482	1_2:-7727052	None:intergenic
ATACAAACACTACTCCTCTT+TGG	0.387924	1_2:+7726816	Msa0053310:CDS
GGAAGAGGCAAAAGCCGATA+AGG	0.448770	1_2:+7727038	Msa0053310:CDS
CAATCGAAACAAACCCTAGT+TGG	0.460017	1_2:-7726791	None:intergenic
TCTTGATACTCATAAGGAAA+AGG	0.465163	1_2:+7727062	Msa0053310:CDS
TTGCCTCTTCCCTTCTTCGT+CGG	0.477939	1_2:-7727026	None:intergenic
CTTGATACTCATAAGGAAAA+GGG	0.489428	1_2:+7727063	Msa0053310:CDS
TAAGGGTCTTGATACTCATA+AGG	0.492473	1_2:+7727056	Msa0053310:CDS
ACCGAATACGAATACCCAAA+AGG	0.493067	1_2:+7726749	Msa0053310:CDS
CCGAATACGAATACCCAAAA+GGG	0.528839	1_2:+7726750	Msa0053310:CDS
GAAGAGGCAAAAGCCGATAA+GGG	0.529120	1_2:+7727039	Msa0053310:CDS
ATGTGGACTCCGACGAAGAA+GGG	0.540307	1_2:+7727017	Msa0053310:CDS
CTTTGGAGGAGTGATCCTAC+AGG	0.546346	1_2:+7726833	Msa0053310:CDS
GGCGAATACTATATCCAACT+AGG	0.572160	1_2:+7726777	Msa0053310:CDS
CATGTGGACTCCGACGAAGA+AGG	0.573346	1_2:+7727016	Msa0053310:CDS
GAGTGATCCTACAGGTTCCA+AGG	0.583772	1_2:+7726841	Msa0053310:CDS
ACTCCGACGAAGAAGGGAAG+AGG	0.589069	1_2:+7727023	Msa0053310:CDS
CAAACACTACTCCTCTTTGG+AGG	0.592172	1_2:+7726819	Msa0053310:CDS
GCGAATACTATATCCAACTA+GGG	0.606852	1_2:+7726778	Msa0053310:CDS
CAGTCGCTGTGCAATGCATG+TGG	0.607580	1_2:+7727000	Msa0053310:intron
ACGAATACCCAAAAGGGCAA+TGG	0.610371	1_2:+7726756	Msa0053310:CDS
ACTCATAAGGAAAAGGGCAA+TGG	0.616678	1_2:+7727069	Msa0053310:CDS
TGGCGAACGCTCATCATCTG+AGG	0.618644	1_2:+7727089	Msa0053310:CDS
CTAATTACCTTGGAACCTGT+AGG	0.621221	1_2:-7726848	None:intergenic
GTAGGATCACTCCTCCAAAG+AGG	0.666474	1_2:-7726830	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AGCAATTTTTATTTTCTTTT+TGG	-	chr1_2:7726729-7726748	None:intergenic	15.0%
!!!	AGCAATTTTTATTTTCTTTT+TGG	-	chr1_2:7726729-7726748	None:intergenic	15.0%
!!	ATAGTTAACAAGAAATATGT+TGG	+	chr1_2:7726975-7726994	Msa0053310:intron	20.0%
!!	ATAGTTAACAAGAAATATGT+TGG	+	chr1_2:7726975-7726994	Msa0053310:intron	20.0%
!	TAGAGATTAACTAATTACCT+TGG	-	chr1_2:7726861-7726880	None:intergenic	25.0%
!	TAGAGATTAACTAATTACCT+TGG	-	chr1_2:7726861-7726880	None:intergenic	25.0%
!!!	AGCAGTTTTTTTCTTCTTTG+TGG	-	chr1_2:7726666-7726685	None:intergenic	30.0%
	TCTTGATACTCATAAGGAAA+AGG	+	chr1_2:7727062-7727081	Msa0053310:CDS	30.0%
	CTTGATACTCATAAGGAAAA+GGG	+	chr1_2:7727063-7727082	Msa0053310:CDS	30.0%
!!!	AGCAGTTTTTTTCTTCTTTG+TGG	-	chr1_2:7726666-7726685	None:intergenic	30.0%
	TCTTGATACTCATAAGGAAA+AGG	+	chr1_2:7727062-7727081	Msa0053310:CDS	30.0%
	CTTGATACTCATAAGGAAAA+GGG	+	chr1_2:7727063-7727082	Msa0053310:CDS	30.0%
!!!	GTTTTTTTCTTCTTTGTGGC+TGG	-	chr1_2:7726662-7726681	None:intergenic	35.0%
!!	AGCAGCTGATTTCTTCTTTT+TGG	-	chr1_2:7726699-7726718	None:intergenic	35.0%
	GCGAATACTATATCCAACTA+GGG	+	chr1_2:7726778-7726797	Msa0053310:CDS	35.0%
	ATACAAACACTACTCCTCTT+TGG	+	chr1_2:7726816-7726835	Msa0053310:CDS	35.0%
	ATGAGTATCAAGACCCTTAT+CGG	-	chr1_2:7727055-7727074	None:intergenic	35.0%
	TAAGGGTCTTGATACTCATA+AGG	+	chr1_2:7727056-7727075	Msa0053310:CDS	35.0%
!!!	GTTTTTTTCTTCTTTGTGGC+TGG	-	chr1_2:7726662-7726681	None:intergenic	35.0%
!!	AGCAGCTGATTTCTTCTTTT+TGG	-	chr1_2:7726699-7726718	None:intergenic	35.0%
	GCGAATACTATATCCAACTA+GGG	+	chr1_2:7726778-7726797	Msa0053310:CDS	35.0%
	ATACAAACACTACTCCTCTT+TGG	+	chr1_2:7726816-7726835	Msa0053310:CDS	35.0%
	ATGAGTATCAAGACCCTTAT+CGG	-	chr1_2:7727055-7727074	None:intergenic	35.0%
	TAAGGGTCTTGATACTCATA+AGG	+	chr1_2:7727056-7727075	Msa0053310:CDS	35.0%
	ACCGAATACGAATACCCAAA+AGG	+	chr1_2:7726749-7726768	Msa0053310:CDS	40.0%
!!	CCCTTTTGGGTATTCGTATT+CGG	-	chr1_2:7726753-7726772	None:intergenic	40.0%
	CCGAATACGAATACCCAAAA+GGG	+	chr1_2:7726750-7726769	Msa0053310:CDS	40.0%
	GGCGAATACTATATCCAACT+AGG	+	chr1_2:7726777-7726796	Msa0053310:CDS	40.0%
	CAATCGAAACAAACCCTAGT+TGG	-	chr1_2:7726794-7726813	None:intergenic	40.0%
	CTAATTACCTTGGAACCTGT+AGG	-	chr1_2:7726851-7726870	None:intergenic	40.0%
	ATGAACCAAAGTGAGAGTTG+GGG	-	chr1_2:7726888-7726907	None:intergenic	40.0%
	CATGAACCAAAGTGAGAGTT+GGG	-	chr1_2:7726889-7726908	None:intergenic	40.0%
	ACTCATAAGGAAAAGGGCAA+TGG	+	chr1_2:7727069-7727088	Msa0053310:CDS	40.0%
	ACCGAATACGAATACCCAAA+AGG	+	chr1_2:7726749-7726768	Msa0053310:CDS	40.0%
!!	CCCTTTTGGGTATTCGTATT+CGG	-	chr1_2:7726753-7726772	None:intergenic	40.0%
	CCGAATACGAATACCCAAAA+GGG	+	chr1_2:7726750-7726769	Msa0053310:CDS	40.0%
	GGCGAATACTATATCCAACT+AGG	+	chr1_2:7726777-7726796	Msa0053310:CDS	40.0%
	CAATCGAAACAAACCCTAGT+TGG	-	chr1_2:7726794-7726813	None:intergenic	40.0%
	CTAATTACCTTGGAACCTGT+AGG	-	chr1_2:7726851-7726870	None:intergenic	40.0%
	ATGAACCAAAGTGAGAGTTG+GGG	-	chr1_2:7726888-7726907	None:intergenic	40.0%
	CATGAACCAAAGTGAGAGTT+GGG	-	chr1_2:7726889-7726908	None:intergenic	40.0%
	ACTCATAAGGAAAAGGGCAA+TGG	+	chr1_2:7727069-7727088	Msa0053310:CDS	40.0%
	TTCTTCTTTGTGGCTGGAAC+TGG	-	chr1_2:7726656-7726675	None:intergenic	45.0%
	ACGAATACCCAAAAGGGCAA+TGG	+	chr1_2:7726756-7726775	Msa0053310:CDS	45.0%
!	GTATTCGCCATTGCCCTTTT+GGG	-	chr1_2:7726766-7726785	None:intergenic	45.0%
!	AGTATTCGCCATTGCCCTTT+TGG	-	chr1_2:7726767-7726786	None:intergenic	45.0%
	CAAACACTACTCCTCTTTGG+AGG	+	chr1_2:7726819-7726838	Msa0053310:CDS	45.0%
	ATTCTCCCCAACTCTCACTT+TGG	+	chr1_2:7726880-7726899	Msa0053310:intron	45.0%
	GCATGAACCAAAGTGAGAGT+TGG	-	chr1_2:7726890-7726909	None:intergenic	45.0%
	GAAGAGGCAAAAGCCGATAA+GGG	+	chr1_2:7727039-7727058	Msa0053310:CDS	45.0%
	TTCTTCTTTGTGGCTGGAAC+TGG	-	chr1_2:7726656-7726675	None:intergenic	45.0%
	ACGAATACCCAAAAGGGCAA+TGG	+	chr1_2:7726756-7726775	Msa0053310:CDS	45.0%
!	GTATTCGCCATTGCCCTTTT+GGG	-	chr1_2:7726766-7726785	None:intergenic	45.0%
!	AGTATTCGCCATTGCCCTTT+TGG	-	chr1_2:7726767-7726786	None:intergenic	45.0%
	CAAACACTACTCCTCTTTGG+AGG	+	chr1_2:7726819-7726838	Msa0053310:CDS	45.0%
	ATTCTCCCCAACTCTCACTT+TGG	+	chr1_2:7726880-7726899	Msa0053310:intron	45.0%
	GCATGAACCAAAGTGAGAGT+TGG	-	chr1_2:7726890-7726909	None:intergenic	45.0%
	GAAGAGGCAAAAGCCGATAA+GGG	+	chr1_2:7727039-7727058	Msa0053310:CDS	45.0%
	GTAGGATCACTCCTCCAAAG+AGG	-	chr1_2:7726833-7726852	None:intergenic	50.0%
!	CTTTGGAGGAGTGATCCTAC+AGG	+	chr1_2:7726833-7726852	Msa0053310:CDS	50.0%
	GAGTGATCCTACAGGTTCCA+AGG	+	chr1_2:7726841-7726860	Msa0053310:CDS	50.0%
	ATGTGGACTCCGACGAAGAA+GGG	+	chr1_2:7727017-7727036	Msa0053310:CDS	50.0%
	TTGCCTCTTCCCTTCTTCGT+CGG	-	chr1_2:7727029-7727048	None:intergenic	50.0%
	GGAAGAGGCAAAAGCCGATA+AGG	+	chr1_2:7727038-7727057	Msa0053310:CDS	50.0%
	GTAGGATCACTCCTCCAAAG+AGG	-	chr1_2:7726833-7726852	None:intergenic	50.0%
!	CTTTGGAGGAGTGATCCTAC+AGG	+	chr1_2:7726833-7726852	Msa0053310:CDS	50.0%
	GAGTGATCCTACAGGTTCCA+AGG	+	chr1_2:7726841-7726860	Msa0053310:CDS	50.0%
	ATGTGGACTCCGACGAAGAA+GGG	+	chr1_2:7727017-7727036	Msa0053310:CDS	50.0%
	TTGCCTCTTCCCTTCTTCGT+CGG	-	chr1_2:7727029-7727048	None:intergenic	50.0%
	GGAAGAGGCAAAAGCCGATA+AGG	+	chr1_2:7727038-7727057	Msa0053310:CDS	50.0%
	CAGTCGCTGTGCAATGCATG+TGG	+	chr1_2:7727000-7727019	Msa0053310:intron	55.0%
	CATGTGGACTCCGACGAAGA+AGG	+	chr1_2:7727016-7727035	Msa0053310:CDS	55.0%
	ACTCCGACGAAGAAGGGAAG+AGG	+	chr1_2:7727023-7727042	Msa0053310:CDS	55.0%
	TGGCGAACGCTCATCATCTG+AGG	+	chr1_2:7727089-7727108	Msa0053310:CDS	55.0%
	CAGTCGCTGTGCAATGCATG+TGG	+	chr1_2:7727000-7727019	Msa0053310:intron	55.0%
	CATGTGGACTCCGACGAAGA+AGG	+	chr1_2:7727016-7727035	Msa0053310:CDS	55.0%
	ACTCCGACGAAGAAGGGAAG+AGG	+	chr1_2:7727023-7727042	Msa0053310:CDS	55.0%
	TGGCGAACGCTCATCATCTG+AGG	+	chr1_2:7727089-7727108	Msa0053310:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	7726632	7727140	7726632	ID=Msa0053310;Name=Msa0053310
chr1_2	mRNA	7726632	7727140	7726632	ID=Msa0053310-mRNA-1;Parent=Msa0053310;Name=Msa0053310-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0\|0\|0\|1\|1\|1\|2\|0\|122
chr1_2	exon	7726632	7726862	7726632	ID=Msa0053310-mRNA-1:exon:2679;Parent=Msa0053310-mRNA-1
chr1_2	exon	7727003	7727140	7727003	ID=Msa0053310-mRNA-1:exon:2680;Parent=Msa0053310-mRNA-1
chr1_2	CDS	7726632	7726862	7726632	ID=Msa0053310-mRNA-1:cds;Parent=Msa0053310-mRNA-1
chr1_2	CDS	7727003	7727140	7727003	ID=Msa0053310-mRNA-1:cds;Parent=Msa0053310-mRNA-1

Gene Sequence	>Msa0053310 ATGAGAGTAAGTAACGATGATCCAGTTCCAGCCACAAAGAAGAAAAAAACTGCTGCTAGTGCTGCCAAAAAGAAGAAATCAGCTGCTAGTGCTGCCAAAAAGAAAATAAAAATTGCTACCGAATACGAATACCCAAAAGGGCAATGGCGAATACTATATCCAACTAGGGTTTGTTTCGATTGCAATACAAACACTACTCCTCTTTGGAGGAGTGATCCTACAGGTTCCAAGTCGCTGTGCAATGCATGTGGACTCCGACGAAGAAGGGAAGAGGCAAAAGCCGATAAGGGTCTTGATACTCATAAGGAAAAGGGCAATGGCGAACGCTCATCATCTGAGGATGTGAAGAATGTTTTAATGTTCATATGA
Protein sequence	>Msa0053310 MRVSNDDPVPATKKKKTAASAAKKKKSAASAAKKKIKIATEYEYPKGQWRILYPTRVCFDCNTNTTPLWRSDPTGSKSLCNACGLRRRREEAKADKGLDTHKEKGNGERSSSEDVKNVLMFI*