AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97711

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97711.t1 MTR_5g029680 93.407 91 2 1 1 87 1 91 3.47e-54 175
MS.gene97711.t1 MTR_1g102860 67.857 84 25 1 6 87 16 99 2.57e-36 125
MS.gene97711.t1 MTR_7g095680 67.500 80 26 0 8 87 29 108 9.10e-36 124
MS.gene97711.t1 MTR_8g087540 81.967 61 11 0 27 87 11 71 1.90e-31 114
MS.gene97711.t1 MTR_3g104550 64.384 73 26 0 15 87 33 105 9.72e-31 111
MS.gene97711.t1 MTR_6g043060 76.667 60 14 0 28 87 22 81 4.49e-30 108
MS.gene97711.t1 MTR_2g100670 70.000 70 21 0 18 87 23 92 5.97e-30 108
MS.gene97711.t1 MTR_5g089170 77.778 63 14 0 25 87 22 84 1.16e-29 106
MS.gene97711.t1 MTR_3g101870 74.603 63 16 0 25 87 21 83 2.64e-29 107
MS.gene97711.t1 MTR_1g061170 66.216 74 25 0 14 87 35 108 3.25e-29 108
MS.gene97711.t1 MTR_2g100670 70.000 70 21 0 18 87 131 200 4.27e-29 107
MS.gene97711.t1 MTR_5g017470 69.118 68 21 0 20 87 1 68 1.06e-28 104
MS.gene97711.t1 MTR_5g010680 72.581 62 17 0 26 87 22 83 3.26e-28 104
MS.gene97711.t1 MTR_2g100680 69.697 66 20 0 22 87 25 90 3.48e-28 105
MS.gene97711.t1 MTR_8g083100 76.271 59 14 0 29 87 23 81 6.79e-28 105
MS.gene97711.t1 MTR_1g071360 63.158 76 26 1 14 87 13 88 7.12e-28 103
MS.gene97711.t1 MTR_2g017890 70.492 61 18 0 27 87 14 74 1.04e-27 103
MS.gene97711.t1 MTR_1g071360 63.158 76 26 1 14 87 16 91 2.16e-27 102
MS.gene97711.t1 MTR_1g100777 69.355 62 19 0 26 87 16 77 3.48e-27 100
MS.gene97711.t1 MTR_4g045757 69.355 62 19 0 24 85 10 71 7.85e-27 94.4
MS.gene97711.t1 MTR_4g077970 72.131 61 17 0 27 87 11 71 1.27e-26 101
MS.gene97711.t1 MTR_7g091370 66.129 62 21 0 26 87 20 81 3.43e-26 97.1
MS.gene97711.t1 MTR_0020s0020 64.516 62 22 0 26 87 31 92 1.22e-24 95.1
MS.gene97711.t1 MTR_6g086805 61.765 68 26 0 20 87 3 70 3.22e-24 94.0
MS.gene97711.t1 MTR_8g105780 67.213 61 19 1 28 87 22 82 4.06e-22 88.6
MS.gene97711.t1 MTR_4g088900 59.701 67 23 2 25 87 30 96 1.08e-21 84.7
MS.gene97711.t1 MTR_5g047190 52.273 44 21 0 36 79 1 44 3.69e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97711.t1 AT4G17750 71.875 96 18 3 1 87 16 111 3.33e-40 138
MS.gene97711.t1 AT1G32330 72.727 88 20 1 4 87 9 96 3.07e-38 133
MS.gene97711.t1 AT1G32330 72.727 88 20 1 4 87 9 96 3.09e-38 133
MS.gene97711.t1 AT3G22830 58.621 87 36 0 1 87 34 120 1.62e-32 117
MS.gene97711.t1 AT3G02990 81.967 61 11 0 27 87 22 82 5.18e-31 113
MS.gene97711.t1 AT5G16820 65.060 83 20 1 14 87 4 86 2.23e-30 112
MS.gene97711.t1 AT5G16820 65.060 83 20 1 14 87 4 86 2.23e-30 112
MS.gene97711.t1 AT2G26150 64.384 73 26 0 15 87 31 103 2.97e-30 110
MS.gene97711.t1 AT2G26150 64.384 73 26 0 15 87 31 103 2.97e-30 110
MS.gene97711.t1 AT5G03720 66.216 74 25 0 14 87 41 114 2.59e-29 108
MS.gene97711.t1 AT5G03720 66.216 74 25 0 14 87 41 114 2.59e-29 108
MS.gene97711.t1 AT1G46264 73.016 63 17 0 25 87 31 93 1.50e-28 105
MS.gene97711.t1 AT3G51910 67.164 67 22 0 21 87 22 88 6.97e-28 102
MS.gene97711.t1 AT2G41690 69.355 62 19 0 26 87 38 99 1.55e-27 100
MS.gene97711.t1 AT4G36990 69.355 62 19 0 26 87 12 73 3.28e-27 100
MS.gene97711.t1 AT4G11660 67.742 62 20 0 26 87 57 118 6.21e-27 101
MS.gene97711.t1 AT4G13980 76.271 59 14 0 29 87 24 82 8.12e-27 102
MS.gene97711.t1 AT5G43840 60.811 74 29 0 14 87 5 78 1.96e-26 98.6
MS.gene97711.t1 AT3G63350 60.526 76 28 1 14 87 12 87 3.37e-26 98.2
MS.gene97711.t1 AT5G54070 63.333 60 22 0 28 87 71 130 3.01e-25 96.7
MS.gene97711.t1 AT5G62020 64.516 62 22 0 26 87 21 82 4.18e-25 95.5
MS.gene97711.t1 AT3G24520 63.333 60 22 0 28 87 17 76 1.89e-23 91.7
MS.gene97711.t1 AT4G18880 78.689 61 13 0 27 87 14 74 3.74e-22 89.0
MS.gene97711.t1 AT1G67970 63.934 61 21 1 28 87 19 79 2.33e-21 86.7
MS.gene97711.t1 AT5G45710 70.492 61 18 0 27 87 12 72 3.06e-21 85.9
MS.gene97711.t1 AT5G45710 70.492 61 18 0 27 87 12 72 3.06e-21 85.9
MS.gene97711.t1 AT1G77570 46.667 60 31 1 29 87 27 86 6.26e-14 63.5
MS.gene97711.t1 AT4G18870 45.000 60 33 0 28 87 146 205 1.73e-13 64.3
MS.gene97711.t1 AT4G18870 49.091 55 26 1 29 81 14 68 1.25e-11 59.3

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGGTGTCGGCGCCGGTATT+TGG 0.178029 5.1:+20294017 None:intergenic
CCAACAACAGTTTCGTTGTT+TGG 0.230125 5.1:-20293901 MS.gene97711:CDS
CAAAAGGTCCCTAGCGAATT+CGG 0.275635 5.1:+20293871 None:intergenic
CAACAACAGTTTCGTTGTTT+GGG 0.319788 5.1:-20293900 MS.gene97711:CDS
CGGTGTCGGCGCCGGTATTT+GGG 0.322223 5.1:+20294018 None:intergenic
CAACAGATGCGATAGTTTCA+TGG 0.344788 5.1:-20293931 MS.gene97711:CDS
GCTTGAAGAACTTCGGCAAA+AGG 0.436166 5.1:+20293855 None:intergenic
GAAACTATCGCATCTGTTGA+AGG 0.449248 5.1:+20293935 None:intergenic
GGCGCGTTCGCGTTTAGCAT+CGG 0.464774 5.1:+20293998 None:intergenic
CCAAACAACGAAACTGTTGT+TGG 0.495551 5.1:+20293901 None:intergenic
TTTAGCATCGGTGTCGGCGC+CGG 0.495901 5.1:+20294010 None:intergenic
AAAAGGTCCCTAGCGAATTC+GGG 0.501028 5.1:+20293872 None:intergenic
GGGACCCACCCGAATTCGCT+AGG 0.503998 5.1:-20293880 MS.gene97711:CDS
TTCGCGTTTAGCATCGGTGT+CGG 0.511333 5.1:+20294004 None:intergenic
CAAGAATTCTTCGAAATGGA+TGG 0.514936 5.1:-20294067 None:intergenic
TTGTTATGCTTGAAGAACTT+CGG 0.516006 5.1:+20293848 None:intergenic
GATGGAGCAAGCGGCGGAGA+GGG 0.517366 5.1:-20294049 MS.gene97711:CDS
GGGTTCAACCACCCAAATAC+CGG 0.548137 5.1:-20294029 MS.gene97711:CDS
TGTCGGCGCCGGTATTTGGG+TGG 0.587096 5.1:+20294021 None:intergenic
AGGTCCCTAGCGAATTCGGG+TGG 0.590111 5.1:+20293875 None:intergenic
GGACCCACCCGAATTCGCTA+GGG 0.598350 5.1:-20293879 MS.gene97711:CDS
TTCGAAATGGATGGAGCAAG+CGG 0.623140 5.1:-20294058 None:intergenic
TTTGAGCAAAACTTATGACA+TGG 0.634177 5.1:-20293966 MS.gene97711:CDS
GGATGGAGCAAGCGGCGGAG+AGG 0.650098 5.1:-20294050 MS.gene97711:CDS
GGTCCCTAGCGAATTCGGGT+GGG 0.673393 5.1:+20293876 None:intergenic
GAAATGGATGGAGCAAGCGG+CGG 0.691235 5.1:-20294055 MS.gene97711:CDS
GAGCAAAACTTATGACATGG+TGG 0.697463 5.1:-20293963 MS.gene97711:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATAAGTTTTGCTCAAAAA+CGG + chr5.1:20293865-20293884 None:intergenic 25.0%
TTGTTATGCTTGAAGAACTT+CGG + chr5.1:20293988-20294007 None:intergenic 30.0%
TTTGAGCAAAACTTATGACA+TGG - chr5.1:20293867-20293886 MS.gene97711:CDS 30.0%
CAACAACAGTTTCGTTGTTT+GGG - chr5.1:20293933-20293952 MS.gene97711:CDS 35.0%
! TAAGTTTTGCTCAAAAACGG+TGG + chr5.1:20293862-20293881 None:intergenic 35.0%
CAACAGATGCGATAGTTTCA+TGG - chr5.1:20293902-20293921 MS.gene97711:CDS 40.0%
CCAAACAACGAAACTGTTGT+TGG + chr5.1:20293935-20293954 None:intergenic 40.0%
CCAACAACAGTTTCGTTGTT+TGG - chr5.1:20293932-20293951 MS.gene97711:CDS 40.0%
GAAACTATCGCATCTGTTGA+AGG + chr5.1:20293901-20293920 None:intergenic 40.0%
GAGCAAAACTTATGACATGG+TGG - chr5.1:20293870-20293889 MS.gene97711:CDS 40.0%
AAAAGGTCCCTAGCGAATTC+GGG + chr5.1:20293964-20293983 None:intergenic 45.0%
CAAAAGGTCCCTAGCGAATT+CGG + chr5.1:20293965-20293984 None:intergenic 45.0%
GCTTGAAGAACTTCGGCAAA+AGG + chr5.1:20293981-20294000 None:intergenic 45.0%
! GTTTTGCTCAAAAACGGTGG+CGG + chr5.1:20293859-20293878 None:intergenic 45.0%
GGGTTCAACCACCCAAATAC+CGG - chr5.1:20293804-20293823 MS.gene97711:CDS 50.0%
!! TTCGCGTTTAGCATCGGTGT+CGG + chr5.1:20293832-20293851 None:intergenic 50.0%
AGGTCCCTAGCGAATTCGGG+TGG + chr5.1:20293961-20293980 None:intergenic 60.0%
GGACCCACCCGAATTCGCTA+GGG - chr5.1:20293954-20293973 MS.gene97711:CDS 60.0%
GGCGCGTTCGCGTTTAGCAT+CGG + chr5.1:20293838-20293857 None:intergenic 60.0%
GGTCCCTAGCGAATTCGGGT+GGG + chr5.1:20293960-20293979 None:intergenic 60.0%
!! TTTAGCATCGGTGTCGGCGC+CGG + chr5.1:20293826-20293845 None:intergenic 60.0%
GATGGAGCAAGCGGCGGAGA+GGG - chr5.1:20293784-20293803 MS.gene97711:CDS 65.0%
GGGACCCACCCGAATTCGCT+AGG - chr5.1:20293953-20293972 MS.gene97711:CDS 65.0%
!! CGGTGTCGGCGCCGGTATTT+GGG + chr5.1:20293818-20293837 None:intergenic 65.0%
!! TCGGTGTCGGCGCCGGTATT+TGG + chr5.1:20293819-20293838 None:intergenic 65.0%
!! TGTCGGCGCCGGTATTTGGG+TGG + chr5.1:20293815-20293834 None:intergenic 65.0%
GGATGGAGCAAGCGGCGGAG+AGG - chr5.1:20293783-20293802 MS.gene97711:CDS 70.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 20293781 20294074 20293781 ID=MS.gene97711
chr5.1 mRNA 20293781 20294074 20293781 ID=MS.gene97711.t1;Parent=MS.gene97711
chr5.1 exon 20293781 20294074 20293781 ID=MS.gene97711.t1.exon1;Parent=MS.gene97711.t1
chr5.1 CDS 20293781 20294074 20293781 ID=cds.MS.gene97711.t1;Parent=MS.gene97711.t1
Gene Sequence

>MS.gene97711

ATGGATGGAGCAAGCGGCGGAGAGGGTTCAACCACCCAAATACCGGCGCCGACACCGATGCTAAACGCGAACGCGCCGCCACCGTTTTTGAGCAAAACTTATGACATGGTGGATGATCCTTCAACAGATGCGATAGTTTCATGGAGCGCAACCAACAACAGTTTCGTTGTTTGGGACCCACCCGAATTCGCTAGGGACCTTTTGCCGAAGTTCTTCAAGCATAACAATTTCTCAAGCTTTGTGAGACAGTTGAATACTTATGTGTGTTCTCTTTCTTCTTTCTCACTCTTTTAA
Protein sequence

>MS.gene97711.t1

MDGASGGEGSTTQIPAPTPMLNANAPPPFLSKTYDMVDDPSTDAIVSWSATNNSFVVWDPPEFARDLLPKFFKHNNFSSFVRQLNTYVCSLSSFSLF