AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1337170


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1337170 MtrunA17_Chr4g0076321 96.324 136 5 0 1 136 1 136 1.34e-94 268
Msa1337170 MtrunA17_Chr2g0290491 75.385 130 27 2 1 130 1 125 9.47e-65 194
Msa1337170 MtrunA17_Chr5g0446491 75.000 120 26 2 1 116 1 120 1.17e-59 182
Msa1337170 MtrunA17_Chr3g0102351 71.901 121 26 1 1 113 1 121 3.39e-59 181
Msa1337170 MtrunA17_Chr8g0382931 81.443 97 18 0 20 116 29 125 1.64e-54 169
Msa1337170 MtrunA17_Chr8g0384451 79.787 94 19 0 20 113 41 134 2.24e-54 169
Msa1337170 MtrunA17_Chr7g0263601 65.079 126 41 1 7 129 14 139 2.70e-52 163
Msa1337170 MtrunA17_Chr1g0185911 69.748 119 31 3 10 127 22 136 4.58e-52 162
Msa1337170 MtrunA17_Chr2g0296321 68.750 112 29 2 6 113 51 160 5.80e-52 165
Msa1337170 MtrunA17_Chr1g0195851 74.468 94 24 0 20 113 37 130 1.05e-51 162
Msa1337170 MtrunA17_Chr4g0067091 69.159 107 28 1 4 110 12 113 4.83e-51 161
Msa1337170 MtrunA17_Chr4g0076381 67.021 94 31 0 20 113 59 152 1.28e-45 148
Msa1337170 MtrunA17_Chr1g0191981 54.867 113 45 1 21 133 6 112 3.31e-42 135
Msa1337170 MtrunA17_Chr1g0165041 57.426 101 41 1 13 113 2 100 5.42e-40 132
Msa1337170 MtrunA17_Chr5g0446601 45.045 111 56 2 1 108 5 113 3.72e-25 94.7
Msa1337170 MtrunA17_Chr1g0159271 53.165 79 37 0 33 111 1 79 6.61e-24 89.0
Msa1337170 MtrunA17_Chr1g0158951 51.515 66 32 0 49 114 19 84 4.88e-19 76.6
Msa1337170 MtrunA17_Chr1g0159291 40.789 76 45 0 24 99 7 82 5.22e-19 75.9
Msa1337170 MtrunA17_Chr2g0307551 30.952 84 58 0 24 107 16 99 8.39e-14 64.3
Msa1337170 MtrunA17_Chr4g0062271 30.952 84 58 0 24 107 16 99 3.05e-13 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1337170 AT4G14540.1 75.424 118 23 2 1 114 1 116 2.91e-60 183
Msa1337170 AT5G47640.1 82.105 95 17 0 20 114 28 122 4.79e-55 171
Msa1337170 AT2G38880.3 65.323 124 39 3 9 130 12 133 4.32e-52 162
Msa1337170 AT2G47810.1 76.596 94 22 0 20 113 52 145 4.88e-52 162
Msa1337170 AT2G38880.2 65.323 124 39 3 9 130 12 133 6.33e-52 161
Msa1337170 AT2G38880.1 65.323 124 39 3 9 130 12 133 6.33e-52 161
Msa1337170 AT2G38880.5 65.323 124 39 3 9 130 12 133 6.33e-52 161
Msa1337170 AT2G13570.1 76.596 94 22 0 20 113 37 130 1.94e-51 162
Msa1337170 AT3G53340.5 74.194 93 24 0 20 112 30 122 3.01e-50 158
Msa1337170 AT3G53340.1 74.194 93 24 0 20 112 30 122 3.01e-50 158
Msa1337170 AT2G37060.2 69.725 109 29 2 7 112 16 123 3.65e-50 158
Msa1337170 AT2G37060.3 69.725 109 29 2 7 112 16 123 3.65e-50 158
Msa1337170 AT2G37060.1 69.725 109 29 2 7 112 16 123 3.65e-50 158
Msa1337170 AT2G38880.4 72.549 102 25 2 9 109 12 111 1.19e-49 154
Msa1337170 AT2G38880.9 72.549 102 25 2 9 109 12 111 2.21e-49 155
Msa1337170 AT2G38880.10 72.549 102 25 2 9 109 12 111 2.21e-49 155
Msa1337170 AT2G38880.6 72.549 102 25 2 9 109 12 111 2.21e-49 155
Msa1337170 AT2G38880.7 63.415 123 41 3 9 130 12 131 3.50e-49 154
Msa1337170 AT2G38880.11 72.549 102 25 2 9 109 12 111 4.74e-49 155
Msa1337170 AT2G38880.8 72.549 102 25 2 9 109 12 111 4.74e-49 155
Msa1337170 AT3G53340.4 73.333 90 24 0 20 109 30 119 1.07e-48 152
Msa1337170 AT3G53340.3 73.626 91 24 0 20 110 30 120 3.30e-48 152
Msa1337170 AT3G53340.2 73.626 91 24 0 20 110 30 120 3.30e-48 152
Msa1337170 AT5G47670.2 63.918 97 35 0 20 116 30 126 6.46e-45 145
Msa1337170 AT5G47670.1 63.918 97 35 0 20 116 59 155 1.43e-44 145
Msa1337170 AT5G47670.3 63.918 97 35 0 20 116 59 155 1.43e-44 145
Msa1337170 AT1G09030.1 57.391 115 46 1 20 131 4 118 2.17e-44 142
Msa1337170 AT1G21970.1 58.163 98 41 0 20 117 60 157 2.92e-41 137
Msa1337170 AT5G08190.2 35.052 97 61 1 24 118 16 112 7.53e-18 75.5
Msa1337170 AT5G08190.1 34.694 98 61 2 24 118 16 113 4.21e-16 70.9
Msa1337170 AT5G23090.4 30.928 97 65 1 24 118 16 112 8.95e-15 67.4
Msa1337170 AT5G23090.5 34.118 85 54 1 24 106 16 100 5.72e-14 65.1
Msa1337170 AT5G23090.2 34.118 85 54 1 24 106 16 100 5.72e-14 65.1
Msa1337170 AT5G23090.1 34.118 85 54 1 24 106 16 100 5.72e-14 65.1
Msa1337170 AT5G23090.3 32.941 85 54 2 25 106 3 87 8.08e-11 56.6

Find 30 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATCAGGTGGTCAAGCTTC+AGG 0.278269 tig0001514:-3200 Msa1337170:CDS
GGGTTACCTTCACAAGTATA+GGG 0.382046 tig0001514:-2919 Msa1337170:CDS
GATCATGAAGAAAGCTTTAC+CGG 0.392387 tig0001514:-3126 Msa1337170:CDS
AGAATATGCAGAGCCTCTTA+AGG 0.393028 tig0001514:-2940 Msa1337170:CDS
AGGGTTACCTTCACAAGTAT+AGG 0.429699 tig0001514:-2920 Msa1337170:CDS
TTCGATATCTTTGCTCTCGC+CGG 0.458504 tig0001514:+3107 None:intergenic
GAGTTCATAAGCTTCATAAC+AGG 0.460674 tig0001514:-3050 Msa1337170:CDS
GATCCTACCAACGTTTGCTA+TGG 0.475579 tig0001514:+3145 None:intergenic
GCAGAATCAGATGATGAATC+AGG 0.475967 tig0001514:-3215 Msa1337170:CDS
GAGAAGAGGAAGACAATAAA+CGG 0.477283 tig0001514:-3002 Msa1337170:CDS
TTGTGAAGGTAACCCTTAAG+AGG 0.483388 tig0001514:+2927 None:intergenic
CAATTTCCCTATACTTGTGA+AGG 0.485169 tig0001514:+2913 None:intergenic
GAATATGCAGAGCCTCTTAA+GGG 0.488554 tig0001514:-2939 Msa1337170:CDS
AATCAGGTGGTCAAGCTTCA+GGG 0.501937 tig0001514:-3199 Msa1337170:CDS
GAATATGATTGGTAGTAGTA+AGG 0.514281 tig0001514:-2868 Msa1337170:CDS
GCAGAGAATTACTGCAAGAA+AGG 0.517934 tig0001514:-3175 Msa1337170:CDS
CACAAGTATAGGGAAATTGA+AGG 0.531636 tig0001514:-2909 Msa1337170:CDS
GTTGCAAATATAATCAACCT+TGG 0.534009 tig0001514:+2817 None:intergenic
ATCCTACCAACGTTTGCTAT+GGG 0.537868 tig0001514:+3146 None:intergenic
AAAAGTGTCAGAAAGAGAAG+AGG 0.551950 tig0001514:-3016 Msa1337170:CDS
AGTATTGATCGATTCTTCCA+AGG 0.558864 tig0001514:-2834 Msa1337170:CDS
TTCAAAGCCAAGTGTAGTCA+TGG 0.563942 tig0001514:+2962 None:intergenic
GTGTGGGCCATGACTACACT+TGG 0.565546 tig0001514:-2969 Msa1337170:CDS
TACCAACGTTTGCTATGGGA+AGG 0.599059 tig0001514:+3150 None:intergenic
TTCCCATAGCAAACGTTGGT+AGG 0.621000 tig0001514:-3148 Msa1337170:CDS
CTCCTTCCCATAGCAAACGT+TGG 0.626066 tig0001514:-3152 Msa1337170:CDS
GGTAGTAGTAAGGAGCAGCA+AGG 0.645799 tig0001514:-2858 Msa1337170:CDS
TAAACGGTGATGATCTTGTG+TGG 0.661494 tig0001514:-2986 Msa1337170:CDS
AAACGGTGATGATCTTGTGT+GGG 0.691215 tig0001514:-2985 Msa1337170:CDS
GAATCAGATGATGAATCAGG+TGG 0.704177 tig0001514:-3212 Msa1337170:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACTTTTCTATGAATATGAT+TGG - tig0001514:3169-3188 Msa1337170:CDS 20.0%
! GAATATGATTGGTAGTAGTA+AGG - tig0001514:3180-3199 Msa1337170:CDS 30.0%
GATCATGAAGAAAGCTTTAC+CGG - tig0001514:2922-2941 Msa1337170:CDS 35.0%
GAGTTCATAAGCTTCATAAC+AGG - tig0001514:2998-3017 Msa1337170:CDS 35.0%
!! AAAAGTGTCAGAAAGAGAAG+AGG - tig0001514:3032-3051 Msa1337170:CDS 35.0%
GAGAAGAGGAAGACAATAAA+CGG - tig0001514:3046-3065 Msa1337170:CDS 35.0%
CAATTTCCCTATACTTGTGA+AGG + tig0001514:3138-3157 None:intergenic 35.0%
CACAAGTATAGGGAAATTGA+AGG - tig0001514:3139-3158 Msa1337170:CDS 35.0%
!! AGTATTGATCGATTCTTCCA+AGG - tig0001514:3214-3233 Msa1337170:CDS 35.0%
GCAGAATCAGATGATGAATC+AGG - tig0001514:2833-2852 Msa1337170:CDS 40.0%
GAATCAGATGATGAATCAGG+TGG - tig0001514:2836-2855 Msa1337170:CDS 40.0%
GCAGAGAATTACTGCAAGAA+AGG - tig0001514:2873-2892 Msa1337170:CDS 40.0%
!! ATCCTACCAACGTTTGCTAT+GGG + tig0001514:2905-2924 None:intergenic 40.0%
TAAACGGTGATGATCTTGTG+TGG - tig0001514:3062-3081 Msa1337170:CDS 40.0%
AAACGGTGATGATCTTGTGT+GGG - tig0001514:3063-3082 Msa1337170:CDS 40.0%
TTCAAAGCCAAGTGTAGTCA+TGG + tig0001514:3089-3108 None:intergenic 40.0%
AGAATATGCAGAGCCTCTTA+AGG - tig0001514:3108-3127 Msa1337170:CDS 40.0%
GAATATGCAGAGCCTCTTAA+GGG - tig0001514:3109-3128 Msa1337170:CDS 40.0%
TTGTGAAGGTAACCCTTAAG+AGG + tig0001514:3124-3143 None:intergenic 40.0%
AGGGTTACCTTCACAAGTAT+AGG - tig0001514:3128-3147 Msa1337170:CDS 40.0%
GGGTTACCTTCACAAGTATA+GGG - tig0001514:3129-3148 Msa1337170:CDS 40.0%
AATCAGGTGGTCAAGCTTCA+GGG - tig0001514:2849-2868 Msa1337170:CDS 45.0%
!! TACCAACGTTTGCTATGGGA+AGG + tig0001514:2901-2920 None:intergenic 45.0%
TTCCCATAGCAAACGTTGGT+AGG - tig0001514:2900-2919 Msa1337170:CDS 45.0%
! GATCCTACCAACGTTTGCTA+TGG + tig0001514:2906-2925 None:intergenic 45.0%
TTCGATATCTTTGCTCTCGC+CGG + tig0001514:2944-2963 None:intergenic 45.0%
GAATCAGGTGGTCAAGCTTC+AGG - tig0001514:2848-2867 Msa1337170:CDS 50.0%
CTCCTTCCCATAGCAAACGT+TGG - tig0001514:2896-2915 Msa1337170:CDS 50.0%
GGTAGTAGTAAGGAGCAGCA+AGG - tig0001514:3190-3209 Msa1337170:CDS 50.0%
GTGTGGGCCATGACTACACT+TGG - tig0001514:3079-3098 Msa1337170:CDS 55.0%
Chromosome Type Strat End Strand Name
tig0001514 gene 2830 3240 2830 ID=Msa1337170;Name=Msa1337170
tig0001514 mRNA 2830 3240 2830 ID=Msa1337170-mRNA-1;Parent=Msa1337170;Name=Msa1337170-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|136
tig0001514 exon 2830 3240 2830 ID=Msa1337170-mRNA-1:exon:1047;Parent=Msa1337170-mRNA-1
tig0001514 CDS 2830 3240 2830 ID=Msa1337170-mRNA-1:cds;Parent=Msa1337170-mRNA-1
Gene Sequence

>Msa1337170

ATGGCAGAATCAGATGATGAATCAGGTGGTCAAGCTTCAGGGAGCAGAGAATTACTGCAAGAAAGGCTCCTTCCCATAGCAAACGTTGGTAGGATCATGAAGAAAGCTTTACCGGCGAGAGCAAAGATATCGAAAGAAGCTAAAGAAACGATGCAAGAGTGTGTATCAGAGTTCATAAGCTTCATAACAGGTGAAGCATCTGAAAAGTGTCAGAAAGAGAAGAGGAAGACAATAAACGGTGATGATCTTGTGTGGGCCATGACTACACTTGGCTTTGAAGAATATGCAGAGCCTCTTAAGGGTTACCTTCACAAGTATAGGGAAATTGAAGGTGACAAGAACTTTTCTATGAATATGATTGGTAGTAGTAAGGAGCAGCAAGGTAGTATTGATCGATTCTTCCAAGGTTGA

Protein sequence

>Msa1337170

MAESDDESGGQASGSRELLQERLLPIANVGRIMKKALPARAKISKEAKETMQECVSEFISFITGEASEKCQKEKRKTINGDDLVWAMTTLGFEEYAEPLKGYLHKYREIEGDKNFSMNMIGSSKEQQGSIDRFFQG*