AlfalfaGEDB | Msa1029880

M. sativa cultivar zhongmu-4 / Msa1029880

KEGG: -
GO: GO:0000003 GO:0000902 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006464 GO:0006482 GO:0006807 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0008214 GO:0009653 GO:0009719 GO:0009725 GO:0009741 GO:0009791 GO:0009826 GO:0009892 GO:0009987 GO:0010033 GO:0010228 GO:0010605 GO:0010639 GO:0014070 GO:0016043 GO:0016049 GO:0016569 GO:0016570 GO:0016577 GO:0019222 GO:0019538 GO:0022414 GO:0031056 GO:0031057 GO:0031323 GO:0031324 GO:0031399 GO:0031400 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0032989 GO:0033043 GO:0033044 GO:0033169 GO:0033993 GO:0035065 GO:0035067 GO:0036211 GO:0040007 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0048366 GO:0048367 GO:0048519 GO:0048523 GO:0048589 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051129 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051276 GO:0060255 GO:0060560 GO:0061458 GO:0065007 GO:0070076 GO:0070988 GO:0071704 GO:0071840 GO:0080090 GO:0099402 GO:1901564 GO:1901700 GO:1901983 GO:1901984 GO:1902275 GO:1905268 GO:2000756 GO:2000757 GO:2001251
PFAM: PF02373.25

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1029880	MCI20043.1	79.518	83	2	1	15	82	54	136	2.78e-37	131

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1029880	sp\|Q9STM3\|REF6_ARATH	69.512	82	10	1	15	81	212	293	9.35e-33	122

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1029880	A0A392Q6M0	79.518	83	2	1	15	82	54	136	1.33e-37	131

TFs/TRs:

Gene ID	Type	Classification
Msa1029880	TR	Jumonji

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
Msa1029880	MtrunA17_Chr3g0116441	79.268	82	2	1	15	81	184	265	1.69e-38	135
Msa1029880	MtrunA17_Chr1g0199511	50.000	82	26	1	16	82	304	385	1.71e-23	92.4
Msa1029880	MtrunA17_Chr1g0197421	85.714	42	6	0	40	81	89	130	1.38e-20	79.3
Msa1029880	MtrunA17_Chr5g0410721	45.570	79	28	1	15	78	245	323	2.43e-15	68.9
Msa1029880	MtrunA17_Chr1g0164731	41.176	85	34	2	10	78	195	279	3.35e-12	60.1

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1029880	AT3G48430.1	69.512	82	10	1	15	81	212	293	9.50e-34	122
Msa1029880	AT5G04240.1	45.783	83	30	1	15	82	271	353	1.14e-19	81.6
Msa1029880	AT5G46910.1	43.038	79	30	1	15	78	259	337	7.42e-14	65.1
Msa1029880	AT5G46910.2	43.038	79	30	1	15	78	259	337	8.19e-14	65.1
Msa1029880	AT1G63490.1	40.000	70	27	1	16	70	139	208	7.92e-11	56.6
Msa1029880	AT1G63490.2	40.000	70	27	1	16	70	392	461	7.96e-11	56.6
Msa1029880	AT1G63490.4	40.000	70	27	1	16	70	392	461	7.96e-11	56.6

Find 30 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GACCCTTTGGCCCTTGAATT+TGG	0.187974	7_1:+63408520	None:intergenic
TCTTCATATGGGTGCTTCTA+AGG	0.232691	7_1:-63408377	Msa1029880:CDS
GAAGATGTTGTTAGAGTTCA+TGG	0.255077	7_1:-63408316	Msa1029880:CDS
TAGCTTGAATTATCTTCATA+TGG	0.324265	7_1:-63408389	Msa1029880:CDS
GTTGTTAGAGTTCATGGTTA+TGG	0.408741	7_1:-63408310	Msa1029880:CDS
GGTGCTTCTAAGGCCTGGTT+TGG	0.422174	7_1:-63408367	Msa1029880:CDS
GTTTATGAAGGAGGAGATAC+CGG	0.430876	7_1:-63408488	Msa1029880:CDS
ATATGGGTGCTTCTAAGGCC+TGG	0.449471	7_1:-63408372	Msa1029880:CDS
CTTTGGCCCTTGAATTTGGA+AGG	0.452571	7_1:+63408524	None:intergenic
TTGAATTTGGAAGGTGGAAA+AGG	0.454957	7_1:+63408533	None:intergenic
AGCTTGAATTATCTTCATAT+GGG	0.462001	7_1:-63408388	Msa1029880:CDS
GTCTTTGTTGAGGTTTATGA+AGG	0.464982	7_1:-63408500	Msa1029880:CDS
ACCGGGAGTTACTTCGCCTA+TGG	0.476123	7_1:-63408470	Msa1029880:intron
TTTGTTGAGGTTTATGAAGG+AGG	0.479055	7_1:-63408497	Msa1029880:CDS
AAACCTCAACAAAGACCCTT+TGG	0.483798	7_1:+63408507	None:intergenic
GGTGGAGAGATTAACCCTCT+TGG	0.496887	7_1:-63408289	Msa1029880:CDS
ATTTGGAAGGTGGAAAAGGA+GGG	0.511614	7_1:+63408537	None:intergenic
ATCTCTAGGAACACCAAACC+AGG	0.515622	7_1:+63408354	None:intergenic
TTCCAAATTCAAGGGCCAAA+GGG	0.528642	7_1:-63408522	Msa1029880:CDS
GGGCCAAAGGGTCTTTGTTG+AGG	0.534359	7_1:-63408510	Msa1029880:CDS
AATTTGGAAGGTGGAAAAGG+AGG	0.540672	7_1:+63408536	None:intergenic
ACCATAGGCGAAGTAACTCC+CGG	0.548529	7_1:+63408469	None:intergenic
AAAGCAACAGCAGCATCTCT+AGG	0.550543	7_1:+63408340	None:intergenic
TTTATGAAGGAGGAGATACC+GGG	0.558280	7_1:-63408487	Msa1029880:CDS
GTTAGAGTTCATGGTTATGG+TGG	0.562896	7_1:-63408307	Msa1029880:CDS
TTTCCACCTTCCAAATTCAA+GGG	0.562964	7_1:-63408530	Msa1029880:CDS
CTTCCAAATTCAAGGGCCAA+AGG	0.564784	7_1:-63408523	Msa1029880:CDS
TCCATGAACTCTAACCAAGA+GGG	0.604035	7_1:+63408275	None:intergenic
TGGCCCTTGAATTTGGAAGG+TGG	0.617375	7_1:+63408527	None:intergenic
ATCCATGAACTCTAACCAAG+AGG	0.634497	7_1:+63408274	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TAGCTTGAATTATCTTCATA+TGG	-	chr7_1:63408452-63408471	Msa1029880:intron	25.0%
!	AGCTTGAATTATCTTCATAT+GGG	-	chr7_1:63408453-63408472	Msa1029880:intron	25.0%
!!!	ATCTTGCCATGTTTTTTAGT+TGG	-	chr7_1:63408397-63408416	Msa1029880:CDS	30.0%
	AGCAAACCAACTAAAAAACA+TGG	+	chr7_1:63408406-63408425	None:intergenic	30.0%
	TTGAATTTGGAAGGTGGAAA+AGG	+	chr7_1:63408311-63408330	None:intergenic	35.0%
!	TTTTCCACCTTCCAAATTCA+AGG	-	chr7_1:63408310-63408329	Msa1029880:CDS	35.0%
	TTTCCACCTTCCAAATTCAA+GGG	-	chr7_1:63408311-63408330	Msa1029880:CDS	35.0%
	GTCTTTGTTGAGGTTTATGA+AGG	-	chr7_1:63408341-63408360	Msa1029880:CDS	35.0%
	TTTGTTGAGGTTTATGAAGG+AGG	-	chr7_1:63408344-63408363	Msa1029880:CDS	35.0%
	AACATGGCAAGATAAACCAT+AGG	+	chr7_1:63408390-63408409	None:intergenic	35.0%
	GAAGATGTTGTTAGAGTTCA+TGG	-	chr7_1:63408525-63408544	Msa1029880:CDS	35.0%
	GTTGTTAGAGTTCATGGTTA+TGG	-	chr7_1:63408531-63408550	Msa1029880:CDS	35.0%
	ATTTGGAAGGTGGAAAAGGA+GGG	+	chr7_1:63408307-63408326	None:intergenic	40.0%
	AATTTGGAAGGTGGAAAAGG+AGG	+	chr7_1:63408308-63408327	None:intergenic	40.0%
	TTCCAAATTCAAGGGCCAAA+GGG	-	chr7_1:63408319-63408338	Msa1029880:CDS	40.0%
	AAACCTCAACAAAGACCCTT+TGG	+	chr7_1:63408337-63408356	None:intergenic	40.0%
	GTTTATGAAGGAGGAGATAC+CGG	-	chr7_1:63408353-63408372	Msa1029880:CDS	40.0%
	TTTATGAAGGAGGAGATACC+GGG	-	chr7_1:63408354-63408373	Msa1029880:CDS	40.0%
!!	TAGTTGGTTTGCTTGACATG+TGG	-	chr7_1:63408413-63408432	Msa1029880:intron	40.0%
	TCTTCATATGGGTGCTTCTA+AGG	-	chr7_1:63408464-63408483	Msa1029880:intron	40.0%
	GTTAGAGTTCATGGTTATGG+TGG	-	chr7_1:63408534-63408553	Msa1029880:CDS	40.0%
	CTTTGGCCCTTGAATTTGGA+AGG	+	chr7_1:63408320-63408339	None:intergenic	45.0%
	CTTCCAAATTCAAGGGCCAA+AGG	-	chr7_1:63408318-63408337	Msa1029880:CDS	45.0%
!!	TTGGTTTGCTTGACATGTGG+AGG	-	chr7_1:63408416-63408435	Msa1029880:intron	45.0%
!	ATCTCTAGGAACACCAAACC+AGG	+	chr7_1:63408490-63408509	None:intergenic	45.0%
	AAAGCAACAGCAGCATCTCT+AGG	+	chr7_1:63408504-63408523	None:intergenic	45.0%
	TGGCCCTTGAATTTGGAAGG+TGG	+	chr7_1:63408317-63408336	None:intergenic	50.0%
	GACCCTTTGGCCCTTGAATT+TGG	+	chr7_1:63408324-63408343	None:intergenic	50.0%
	ACCATAGGCGAAGTAACTCC+CGG	+	chr7_1:63408375-63408394	None:intergenic	50.0%
!!	ATATGGGTGCTTCTAAGGCC+TGG	-	chr7_1:63408469-63408488	Msa1029880:intron	50.0%
	GGTGGAGAGATTAACCCTCT+TGG	-	chr7_1:63408552-63408571	Msa1029880:CDS	50.0%
	GGGCCAAAGGGTCTTTGTTG+AGG	-	chr7_1:63408331-63408350	Msa1029880:CDS	55.0%
	ACCGGGAGTTACTTCGCCTA+TGG	-	chr7_1:63408371-63408390	Msa1029880:CDS	55.0%
!!	GGTGCTTCTAAGGCCTGGTT+TGG	-	chr7_1:63408474-63408493	Msa1029880:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_1	gene	63408285	63408578	63408285	ID=Msa1029880;Name=Msa1029880
chr7_1	mRNA	63408285	63408578	63408285	ID=Msa1029880-mRNA-1;Parent=Msa1029880;Name=Msa1029880-mRNA-1;_AED=0.28;_eAED=0.42;_QI=0\|0\|0\|1\|0\|0\|2\|0\|82
chr7_1	exon	63408471	63408578	63408471	ID=Msa1029880-mRNA-1:exon:13855;Parent=Msa1029880-mRNA-1
chr7_1	exon	63408285	63408425	63408285	ID=Msa1029880-mRNA-1:exon:13854;Parent=Msa1029880-mRNA-1
chr7_1	CDS	63408471	63408578	63408471	ID=Msa1029880-mRNA-1:cds;Parent=Msa1029880-mRNA-1
chr7_1	CDS	63408285	63408425	63408285	ID=Msa1029880-mRNA-1:cds;Parent=Msa1029880-mRNA-1

Gene Sequence	>Msa1029880 TTGGACTCTGCAAAATCATCCCTCCTTTTCCACCTTCCAAATTCAAGGGCCAAAGGGTCTTTGTTGAGGTTTATGAAGGAGGAGATACCGGGAGTTACTTCGCCTATGGATCATGATTTGCATAGCTTGAATTATCTTCATATGGGTGCTTCTAAGGCCTGGTTTGGTGTTCCTAGAGATGCTGCTGTTGCTTTTGAAGATGTTGTTAGAGTTCATGGTTATGGTGGAGAGATTAACCCTCTTGGTTAG
Protein sequence	>Msa1029880 LDSAKSSLLFHLPNSRAKGSLLRFMKEEIPGVTSPMDHDLHSLNYLHMGASKAWFGVPRDAAVAFEDVVRVHGYGGEINPLG*