AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057035

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057035.t1 MTR_2g100250 96.899 129 4 0 1 129 628 756 1.37e-85 265
MS.gene057035.t1 MTR_8g016160 66.667 129 41 2 1 129 619 745 1.52e-54 181
MS.gene057035.t1 MTR_2g103730 46.923 130 65 4 1 129 683 809 1.69e-31 117
MS.gene057035.t1 MTR_4g010650 43.077 130 70 4 1 129 682 808 9.48e-30 112
MS.gene057035.t1 MTR_3g107360 40.299 134 72 3 1 129 692 822 2.16e-28 108
MS.gene057035.t1 MTR_8g088690 43.077 130 70 4 1 129 716 842 1.86e-27 106
MS.gene057035.t1 MTR_7g075910 43.697 119 64 3 1 118 988 1104 1.98e-27 105
MS.gene057035.t1 MTR_8g033080 43.697 119 64 3 1 118 923 1039 9.12e-27 103
MS.gene057035.t1 MTR_5g023050 41.667 132 70 4 1 129 745 872 7.81e-26 101
MS.gene057035.t1 MTR_5g011050 43.089 123 67 3 1 122 728 848 1.04e-25 101
MS.gene057035.t1 MTR_3g114840 40.909 132 70 5 1 129 725 851 1.73e-25 100
MS.gene057035.t1 MTR_5g011060 42.276 123 68 3 1 122 722 842 6.21e-25 99.0
MS.gene057035.t1 MTR_3g107320 37.879 132 78 3 1 129 696 826 7.67e-25 98.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057035.t1 AT1G55180 52.632 133 51 4 1 129 616 740 5.54e-39 139
MS.gene057035.t1 AT1G55180 52.632 133 51 4 1 129 638 762 8.66e-39 138
MS.gene057035.t1 AT3G15730 48.462 130 63 4 1 129 684 810 7.29e-34 124
MS.gene057035.t1 AT1G52570 44.615 130 68 4 1 129 684 810 3.09e-32 119
MS.gene057035.t1 AT1G52570 44.615 130 68 4 1 129 684 810 3.09e-32 119
MS.gene057035.t1 AT1G52570 44.615 130 68 4 1 129 684 810 3.09e-32 119
MS.gene057035.t1 AT2G42010 42.017 119 66 3 1 118 957 1073 1.41e-25 100
MS.gene057035.t1 AT2G42010 42.017 119 66 3 1 118 982 1098 1.41e-25 100
MS.gene057035.t1 AT5G25370 39.850 133 74 4 1 129 615 745 1.46e-24 97.8
MS.gene057035.t1 AT5G25370 39.850 133 74 4 1 129 690 820 1.61e-24 97.8
MS.gene057035.t1 AT5G25370 39.850 133 74 4 1 129 690 820 1.61e-24 97.8
MS.gene057035.t1 AT5G25370 39.850 133 74 4 1 129 690 820 1.61e-24 97.8
MS.gene057035.t1 AT4G11840 42.017 119 66 3 1 118 740 856 4.90e-24 96.3
MS.gene057035.t1 AT4G11840 42.017 119 66 3 1 118 710 826 5.54e-24 96.3
MS.gene057035.t1 AT4G11850 42.017 119 66 3 1 118 732 848 2.33e-23 94.4
MS.gene057035.t1 AT4G11830 42.017 119 66 3 1 118 698 814 2.39e-23 94.4
MS.gene057035.t1 AT4G11830 42.017 119 66 3 1 118 730 846 2.57e-23 94.4
MS.gene057035.t1 AT4G00240 41.176 119 67 3 1 118 649 765 1.49e-22 92.0
MS.gene057035.t1 AT4G00240 41.176 119 67 3 1 118 766 882 2.07e-22 91.7
MS.gene057035.t1 AT4G00240 41.176 119 67 3 1 118 801 917 2.27e-22 91.7
MS.gene057035.t1 AT4G35790 37.121 132 76 4 1 129 741 868 8.44e-22 90.1
MS.gene057035.t1 AT4G35790 37.121 132 76 4 1 129 730 857 8.77e-22 90.1

Find 28 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCACACATTCTAAACTTTC+TGG 0.177165 2.1:-4477062 None:intergenic
GTGAATGTCACCTTTGCTTA+TGG 0.212678 2.1:-4476979 None:intergenic
CTACAGCAGTGAAGAAATTA+TGG 0.290427 2.1:+4477121 MS.gene057035:CDS
CCCATGATAGTAACACAAAA+TGG 0.306781 2.1:+4477173 MS.gene057035:CDS
TGAATGTCACCTTTGCTTAT+GGG 0.394279 2.1:-4476978 None:intergenic
CAACTCCATCTTGATGAAAC+TGG 0.398815 2.1:-4476950 None:intergenic
CTATCATGGGGTAAGTTACT+AGG 0.473210 2.1:-4477160 None:intergenic
GTGCAGAGAATGTGCTCAAT+AGG 0.473934 2.1:+4477080 MS.gene057035:CDS
AAGATCGATGGACGGGCAAA+GGG 0.511045 2.1:+4476902 None:intergenic
GGCTACCAGTTTCATCAAGA+TGG 0.515157 2.1:+4476945 MS.gene057035:CDS
AAAGATCGATGGACGGGCAA+AGG 0.521722 2.1:+4476901 None:intergenic
TGAACCAAAGATCGATGGAC+GGG 0.560632 2.1:+4476895 None:intergenic
CAGTGAAGAAATTATGGACA+TGG 0.568985 2.1:+4477127 MS.gene057035:CDS
TCTGTGGAAGATCTAACTAA+TGG 0.569159 2.1:+4477197 MS.gene057035:CDS
GATACAAAAGCTCTAGTGAA+AGG 0.570925 2.1:+4477236 MS.gene057035:CDS
GCTCAATAGGAGATAAAATG+TGG 0.592126 2.1:+4477093 MS.gene057035:CDS
GGCTAAGTGGTAATGACAGA+GGG 0.611158 2.1:-4477278 None:intergenic
AGTAACACAAAATGGATCTG+TGG 0.620720 2.1:+4477181 MS.gene057035:CDS
GTGAACCAAAGATCGATGGA+CGG 0.630105 2.1:+4476894 None:intergenic
GTTGATCATCCCATAAGCAA+AGG 0.638827 2.1:+4476969 MS.gene057035:CDS
TGAAGAAATTATGGACATGG+AGG 0.639170 2.1:+4477130 MS.gene057035:CDS
AGGGACACAGAAATTGCGAT+CGG 0.641781 2.1:+4476921 MS.gene057035:CDS
GAAGAAATTATGGACATGGA+GGG 0.652171 2.1:+4477131 MS.gene057035:CDS
GACACAGAAATTGCGATCGG+AGG 0.656668 2.1:+4476924 MS.gene057035:CDS
TGGCTAAGTGGTAATGACAG+AGG 0.667320 2.1:-4477279 None:intergenic
GGAAGATCTAACTAATGGTG+AGG 0.696498 2.1:+4477202 MS.gene057035:CDS
ACGAATACAGAATGTCAATG+TGG 0.720257 2.1:+4477000 MS.gene057035:CDS
TCAATGTGGTATGAACACAC+TGG 0.796931 2.1:+4477014 MS.gene057035:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATTTTGTGTTACTATCATG+GGG - chr2.1:4477175-4477194 None:intergenic 30.0%
!! CCATTTTGTGTTACTATCAT+GGG - chr2.1:4477176-4477195 None:intergenic 30.0%
!! TCCATTTTGTGTTACTATCA+TGG - chr2.1:4477177-4477196 None:intergenic 30.0%
ACGAATACAGAATGTCAATG+TGG + chr2.1:4477000-4477019 MS.gene057035:CDS 35.0%
AGTAACACAAAATGGATCTG+TGG + chr2.1:4477181-4477200 MS.gene057035:CDS 35.0%
CAGTGAAGAAATTATGGACA+TGG + chr2.1:4477127-4477146 MS.gene057035:CDS 35.0%
CCCATGATAGTAACACAAAA+TGG + chr2.1:4477173-4477192 MS.gene057035:CDS 35.0%
CTACAGCAGTGAAGAAATTA+TGG + chr2.1:4477121-4477140 MS.gene057035:CDS 35.0%
GAAGAAATTATGGACATGGA+GGG + chr2.1:4477131-4477150 MS.gene057035:CDS 35.0%
GCTCAATAGGAGATAAAATG+TGG + chr2.1:4477093-4477112 MS.gene057035:CDS 35.0%
TCTGTGGAAGATCTAACTAA+TGG + chr2.1:4477197-4477216 MS.gene057035:CDS 35.0%
TGAAGAAATTATGGACATGG+AGG + chr2.1:4477130-4477149 MS.gene057035:CDS 35.0%
TGAATGTCACCTTTGCTTAT+GGG - chr2.1:4476981-4477000 None:intergenic 35.0%
TGCACACATTCTAAACTTTC+TGG - chr2.1:4477065-4477084 None:intergenic 35.0%
! GATACAAAAGCTCTAGTGAA+AGG + chr2.1:4477236-4477255 MS.gene057035:CDS 35.0%
! TTCACTAGAGCTTTTGTATC+AGG - chr2.1:4477236-4477255 None:intergenic 35.0%
CAACTCCATCTTGATGAAAC+TGG - chr2.1:4476953-4476972 None:intergenic 40.0%
CTATCATGGGGTAAGTTACT+AGG - chr2.1:4477163-4477182 None:intergenic 40.0%
GGAAGATCTAACTAATGGTG+AGG + chr2.1:4477202-4477221 MS.gene057035:CDS 40.0%
GTGAATGTCACCTTTGCTTA+TGG - chr2.1:4476982-4477001 None:intergenic 40.0%
GTTGATCATCCCATAAGCAA+AGG + chr2.1:4476969-4476988 MS.gene057035:CDS 40.0%
TCAATGTGGTATGAACACAC+TGG + chr2.1:4477014-4477033 MS.gene057035:CDS 40.0%
AGGGACACAGAAATTGCGAT+CGG + chr2.1:4476921-4476940 MS.gene057035:CDS 45.0%
GGCTACCAGTTTCATCAAGA+TGG + chr2.1:4476945-4476964 MS.gene057035:CDS 45.0%
GTGCAGAGAATGTGCTCAAT+AGG + chr2.1:4477080-4477099 MS.gene057035:CDS 45.0%
GACACAGAAATTGCGATCGG+AGG + chr2.1:4476924-4476943 MS.gene057035:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 4476909 4477298 4476909 ID=MS.gene057035
chr2.1 mRNA 4476909 4477298 4476909 ID=MS.gene057035.t1;Parent=MS.gene057035
chr2.1 exon 4476909 4477298 4476909 ID=MS.gene057035.t1.exon1;Parent=MS.gene057035.t1
chr2.1 CDS 4476909 4477298 4476909 ID=cds.MS.gene057035.t1;Parent=MS.gene057035.t1
Gene Sequence

>MS.gene057035

ATGGACGGGCAAAGGGACACAGAAATTGCGATCGGAGGCTACCAGTTTCATCAAGATGGAGTTGATCATCCCATAAGCAAAGGTGACATTCACGAATACAGAATGTCAATGTGGTATGAACACACTGGTAGTGCTGAGAAGTTGTTTTTAGAGCCAGAAAGTTTAGAATGTGTGCAGAGAATGTGCTCAATAGGAGATAAAATGTGGAAAATCTACAGCAGTGAAGAAATTATGGACATGGAGGGTGTGCACCTAGTAACTTACCCCATGATAGTAACACAAAATGGATCTGTGGAAGATCTAACTAATGGTGAGGATCATTTTCCTGATACAAAAGCTCTAGTGAAAGGAACAAGATCAAAATTATTACCCTCTGTCATTACCACTTAG
Protein sequence

>MS.gene057035.t1

MDGQRDTEIAIGGYQFHQDGVDHPISKGDIHEYRMSMWYEHTGSAEKLFLEPESLECVQRMCSIGDKMWKIYSSEEIMDMEGVHLVTYPMIVTQNGSVEDLTNGEDHFPDTKALVKGTRSKLLPSVITT