AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95790

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95790.t1 MTR_1g103550 97.581 124 1 1 1 122 1 124 2.63e-85 244
MS.gene95790.t1 MTR_5g006430 74.561 114 24 2 1 114 1 109 1.48e-55 169
MS.gene95790.t1 MTR_8g021190 47.170 106 49 3 2 102 30 133 1.39e-29 104
MS.gene95790.t1 MTR_8g013990 44.037 109 50 4 2 102 62 167 2.98e-25 94.7
MS.gene95790.t1 MTR_2g101140 47.253 91 42 2 2 88 62 150 2.46e-24 92.4
MS.gene95790.t1 MTR_3g105340 40.541 111 59 4 1 107 10 117 4.12e-22 84.7
MS.gene95790.t1 MTR_4g125010 46.575 73 38 1 1 73 23 94 4.92e-22 85.5
MS.gene95790.t1 MTR_4g125030 45.333 75 40 1 1 75 21 94 4.56e-20 79.3
MS.gene95790.t1 MTR_3g109860 38.462 91 51 2 2 88 36 125 4.69e-18 74.7
MS.gene95790.t1 MTR_1g014930 43.836 73 39 1 3 73 17 89 1.94e-17 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95790.t1 AT3G22540 70.270 111 28 3 1 110 1 107 2.20e-48 150
MS.gene95790.t1 AT4G14819 63.636 110 34 2 1 110 1 104 6.16e-42 134
MS.gene95790.t1 AT5G25840 42.105 114 58 2 2 107 42 155 1.45e-25 95.1
MS.gene95790.t1 AT1G72510 48.913 92 41 2 2 88 33 123 1.81e-25 94.4
MS.gene95790.t1 AT1G72510 48.913 92 41 2 2 88 33 123 1.81e-25 94.4
MS.gene95790.t1 AT1G79770 44.037 109 55 2 1 105 50 156 1.50e-24 92.0
MS.gene95790.t1 AT1G54095 36.220 127 71 3 2 118 15 141 3.94e-22 85.5
MS.gene95790.t1 AT5G20670 39.048 105 53 3 3 97 23 126 3.05e-20 80.9
MS.gene95790.t1 AT2G09970 39.130 92 51 1 2 88 33 124 4.38e-19 78.2
MS.gene95790.t1 AT2G25780 32.075 106 68 1 6 107 39 144 1.06e-15 68.9

Find 16 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCCAAATTTGATGGAAAA+TGG 0.263831 1.1:-74163878 MS.gene95790:CDS
GATGTGAAATCCAAATTTGA+TGG 0.416112 1.1:-74163885 MS.gene95790:CDS
CTTGAATACTTCTTTGATGA+AGG 0.426664 1.1:+74163660 None:intergenic
CTTCATCAAAGAAGTATTCA+AGG 0.467585 1.1:-74163659 MS.gene95790:CDS
TTTGATGGAAAATGGTTATG+TGG 0.481592 1.1:-74163870 MS.gene95790:CDS
CCTTCTGCTACTCTAACTGC+AGG 0.505097 1.1:+74163735 None:intergenic
TTGATGGAAAATGGTTATGT+GGG 0.531455 1.1:-74163869 MS.gene95790:CDS
TCACCAACCACTTCTCAAGT+TGG 0.545624 1.1:-74163636 MS.gene95790:CDS
ATCAAATTTGGATTTCACAT+CGG 0.557162 1.1:+74163887 None:intergenic
AGAGATGAAGTAATGAGTGG+AGG 0.566320 1.1:-74163828 MS.gene95790:CDS
GTGAGAGATGAAGTAATGAG+TGG 0.578986 1.1:-74163831 MS.gene95790:CDS
AGAATCTCCAACTTGAGAAG+TGG 0.629154 1.1:+74163629 None:intergenic
CCTGCAGTTAGAGTAGCAGA+AGG 0.629928 1.1:-74163735 MS.gene95790:CDS
TCTCCAACTTGAGAAGTGGT+TGG 0.638457 1.1:+74163633 None:intergenic
TCAGCAAAGTGTGAATGTTG+TGG 0.681770 1.1:-74163942 MS.gene95790:CDS
CTTCTGCTACTCTAACTGCA+GGG 0.694897 1.1:+74163736 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATCCAAATTTGATGGAAAA+TGG - chr1.1:74163684-74163703 MS.gene95790:CDS 25.0%
! ATCAAATTTGGATTTCACAT+CGG + chr1.1:74163678-74163697 None:intergenic 25.0%
!! TAACCATTTTCCATCAAATT+TGG + chr1.1:74163690-74163709 None:intergenic 25.0%
CTTGAATACTTCTTTGATGA+AGG + chr1.1:74163905-74163924 None:intergenic 30.0%
GATGTGAAATCCAAATTTGA+TGG - chr1.1:74163677-74163696 MS.gene95790:CDS 30.0%
TTGATGGAAAATGGTTATGT+GGG - chr1.1:74163693-74163712 MS.gene95790:CDS 30.0%
TTTGATGGAAAATGGTTATG+TGG - chr1.1:74163692-74163711 MS.gene95790:CDS 30.0%
!! CTTCATCAAAGAAGTATTCA+AGG - chr1.1:74163903-74163922 MS.gene95790:CDS 30.0%
AGGTAAAAAACAATGGGACA+TGG - chr1.1:74163754-74163773 MS.gene95790:CDS 35.0%
GAGTGGAGGTAAAAAACAAT+GGG - chr1.1:74163748-74163767 MS.gene95790:CDS 35.0%
TGAGTGGAGGTAAAAAACAA+TGG - chr1.1:74163747-74163766 MS.gene95790:CDS 35.0%
AGAATCTCCAACTTGAGAAG+TGG + chr1.1:74163936-74163955 None:intergenic 40.0%
AGAGATGAAGTAATGAGTGG+AGG - chr1.1:74163734-74163753 MS.gene95790:CDS 40.0%
GTGAGAGATGAAGTAATGAG+TGG - chr1.1:74163731-74163750 MS.gene95790:CDS 40.0%
TCAGCAAAGTGTGAATGTTG+TGG - chr1.1:74163620-74163639 MS.gene95790:CDS 40.0%
CTTCTGCTACTCTAACTGCA+GGG + chr1.1:74163829-74163848 None:intergenic 45.0%
TCACCAACCACTTCTCAAGT+TGG - chr1.1:74163926-74163945 MS.gene95790:CDS 45.0%
TCTCCAACTTGAGAAGTGGT+TGG + chr1.1:74163932-74163951 None:intergenic 45.0%
CCTGCAGTTAGAGTAGCAGA+AGG - chr1.1:74163827-74163846 MS.gene95790:CDS 50.0%
CCTTCTGCTACTCTAACTGC+AGG + chr1.1:74163830-74163849 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 74163608 74163976 74163608 ID=MS.gene95790
chr1.1 mRNA 74163608 74163976 74163608 ID=MS.gene95790.t1;Parent=MS.gene95790
chr1.1 exon 74163608 74163976 74163608 ID=MS.gene95790.t1.exon1;Parent=MS.gene95790.t1
chr1.1 CDS 74163608 74163976 74163608 ID=cds.MS.gene95790.t1;Parent=MS.gene95790.t1
Gene Sequence

>MS.gene95790

ATGGAAATTGAATCAGCAAAGTGTGAATGTTGTGGCTTGAAAGAAGATTGCACTCAAGACTACATAACCGATGTGAAATCCAAATTTGATGGAAAATGGTTATGTGGGTTATGTTCAGAAGCAGTGAGAGATGAAGTAATGAGTGGAGGTAAAAAACAATGGGACATGGATGAAGCTGTGAAAGCTCACATGTCATTTTGCAGAAAATTCAAATCTAACCCTGCAGTTAGAGTAGCAGAAGGTATGAGACAGATGCTAAGAAGAAGATCAAATGATTCATCATCATCATCTTCACCTTCATCAAAGAAGTATTCAAGGTCACCAACCACTTCTCAAGTTGGAGATTCTTCCACTTTTTCTTTGTATTGA
Protein sequence

>MS.gene95790.t1

MEIESAKCECCGLKEDCTQDYITDVKSKFDGKWLCGLCSEAVRDEVMSGGKKQWDMDEAVKAHMSFCRKFKSNPAVRVAEGMRQMLRRRSNDSSSSSSPSSKKYSRSPTTSQVGDSSTFSLY