AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023868

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023868 MtrunA17_Chr8g0382931 94.089 203 5 1 1 196 1 203 1.69e-141 392
MsaG023868 MtrunA17_Chr5g0446491 79.487 117 22 1 13 129 10 124 6.36e-63 192
MsaG023868 MtrunA17_Chr2g0290491 80.702 114 20 1 24 137 13 124 2.03e-62 191
MsaG023868 MtrunA17_Chr3g0102351 87.879 99 12 0 25 123 24 122 3.18e-60 186
MsaG023868 MtrunA17_Chr7g0263601 75.439 114 28 0 13 126 11 124 1.05e-59 184
MsaG023868 MtrunA17_Chr8g0384451 76.636 107 25 0 27 133 39 145 1.13e-56 178
MsaG023868 MtrunA17_Chr1g0185911 71.681 113 30 1 23 133 24 136 1.86e-54 171
MsaG023868 MtrunA17_Chr4g0076321 74.312 109 28 0 17 125 8 116 1.71e-53 167
MsaG023868 MtrunA17_Chr1g0195851 69.307 101 31 0 22 122 30 130 1.44e-48 157
MsaG023868 MtrunA17_Chr2g0296321 65.385 104 36 0 22 125 60 163 5.78e-47 154
MsaG023868 MtrunA17_Chr4g0076381 64.948 97 34 0 27 123 57 153 3.81e-46 152
MsaG023868 MtrunA17_Chr4g0067091 62.963 108 40 0 12 119 6 113 8.58e-46 150
MsaG023868 MtrunA17_Chr1g0165041 62.745 102 38 0 27 128 5 106 1.08e-44 146
MsaG023868 MtrunA17_Chr1g0191981 61.957 92 35 0 28 119 4 95 6.04e-39 130
MsaG023868 MtrunA17_Chr1g0159271 55.294 85 38 0 42 126 1 85 4.99e-27 99.0
MsaG023868 MtrunA17_Chr5g0446601 44.330 97 51 1 24 117 17 113 1.33e-21 87.4
MsaG023868 MtrunA17_Chr1g0158951 53.125 64 30 0 58 121 19 82 1.66e-18 77.0
MsaG023868 MtrunA17_Chr1g0159291 40.789 76 45 0 33 108 7 82 1.48e-17 73.9
MsaG023868 MtrunA17_Chr2g0307551 32.143 84 57 0 22 105 5 88 5.38e-14 66.6
MsaG023868 MtrunA17_Chr4g0062271 33.766 77 51 0 29 105 12 88 2.04e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023868 AT4G14540.1 81.818 110 20 0 24 133 17 126 3.79e-64 195
MsaG023868 AT5G47640.1 85.859 99 14 0 25 123 24 122 6.71e-60 186
MsaG023868 AT2G13570.1 74.576 118 29 1 8 125 17 133 1.99e-59 185
MsaG023868 AT3G53340.5 68.800 125 28 2 14 133 21 139 1.94e-56 176
MsaG023868 AT3G53340.1 68.800 125 28 2 14 133 21 139 1.94e-56 176
MsaG023868 AT2G37060.2 71.552 116 28 1 27 137 29 144 4.71e-56 175
MsaG023868 AT2G37060.3 71.552 116 28 1 27 137 29 144 4.71e-56 175
MsaG023868 AT2G37060.1 71.552 116 28 1 27 137 29 144 4.71e-56 175
MsaG023868 AT2G38880.3 69.643 112 34 0 14 125 7 118 8.06e-55 171
MsaG023868 AT3G53340.4 75.238 105 20 1 14 118 21 119 9.35e-55 170
MsaG023868 AT2G38880.2 69.643 112 34 0 14 125 7 118 1.25e-54 171
MsaG023868 AT2G38880.1 69.643 112 34 0 14 125 7 118 1.25e-54 171
MsaG023868 AT2G38880.5 69.643 112 34 0 14 125 7 118 1.25e-54 171
MsaG023868 AT3G53340.3 75.472 106 20 1 14 119 21 120 2.76e-54 170
MsaG023868 AT3G53340.2 75.472 106 20 1 14 119 21 120 2.76e-54 170
MsaG023868 AT2G38880.4 71.429 105 30 0 14 118 7 111 1.17e-52 164
MsaG023868 AT2G38880.7 67.544 114 37 0 14 127 7 120 1.44e-52 165
MsaG023868 AT2G38880.11 71.429 105 30 0 14 118 7 111 3.44e-52 165
MsaG023868 AT2G38880.8 71.429 105 30 0 14 118 7 111 3.44e-52 165
MsaG023868 AT2G38880.9 77.660 94 21 0 25 118 18 111 5.53e-52 164
MsaG023868 AT2G38880.10 77.660 94 21 0 25 118 18 111 5.53e-52 164
MsaG023868 AT2G38880.6 77.660 94 21 0 25 118 18 111 5.53e-52 164
MsaG023868 AT2G47810.1 71.845 103 29 0 22 124 45 147 3.85e-51 162
MsaG023868 AT5G47670.2 60.714 112 44 0 16 127 17 128 6.27e-48 155
MsaG023868 AT5G47670.1 60.714 112 44 0 16 127 46 157 1.55e-47 155
MsaG023868 AT5G47670.3 60.714 112 44 0 16 127 46 157 1.55e-47 155
MsaG023868 AT1G21970.1 62.000 100 38 0 26 125 57 156 2.57e-45 150
MsaG023868 AT1G09030.1 62.500 96 36 0 28 123 3 98 1.26e-42 140
MsaG023868 AT5G08190.2 35.897 78 50 0 28 105 11 88 1.74e-14 68.2
MsaG023868 AT5G08190.1 35.897 78 50 0 28 105 11 88 1.87e-14 68.2
MsaG023868 AT5G23090.5 33.766 77 51 0 29 105 12 88 5.10e-14 67.0
MsaG023868 AT5G23090.2 33.766 77 51 0 29 105 12 88 5.10e-14 67.0
MsaG023868 AT5G23090.1 33.766 77 51 0 29 105 12 88 5.10e-14 67.0
MsaG023868 AT5G23090.4 33.766 77 51 0 29 105 12 88 5.10e-14 67.0

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATGGTGATGATCTTCTT+TGG 0.277181 4:+93250575 MsaT023868.1:CDS
TTAATCTCTTGGAACCTCTT+TGG 0.292077 4:-93250772 None:intergenic
AAGTTTATCTTAATAATTAT+AGG 0.297968 4:+93250641 MsaT023868.1:CDS
GAGTTCATAAGTTTCATTAC+TGG 0.304041 4:+93250511 MsaT023868.1:CDS
TGCCACCAAACCTACGTTAC+AGG 0.318400 4:+93250872 MsaT023868.1:CDS
GAAAAGAGGAAAACAATTAA+TGG 0.329176 4:+93250559 MsaT023868.1:CDS
AGTTTATCTTAATAATTATA+GGG 0.334719 4:+93250642 MsaT023868.1:CDS
ATTGTGGATTATAGAGTAAT+TGG 0.335947 4:+93250802 MsaT023868.1:CDS
AAGAGGTTCCAAGAGATTAA+TGG 0.350652 4:+93250775 MsaT023868.1:CDS
ATTATTAATTTCAACATGTC+CGG 0.359734 4:+93250301 None:intergenic
TAATGGTGATGATCTTCTTT+GGG 0.364795 4:+93250576 MsaT023868.1:CDS
GACTTCCTACAGGACTTGTT+TGG 0.366205 4:-93250336 None:intergenic
TGTTTGGTTTCTCTTATTCC+CGG 0.387356 4:-93250320 None:intergenic
CAATCCCTCCATTAATCTCT+TGG 0.406112 4:-93250783 None:intergenic
GATGAAACAGAACATGCAAT+TGG 0.429214 4:+93250832 MsaT023868.1:CDS
CCTGATGTTGGACTTCCTAC+AGG 0.434628 4:-93250346 None:intergenic
ATACGGCTCACGTTGGCAAT+TGG 0.452960 4:-93250415 None:intergenic
TCTGAGATGTTTCCTGATGT+TGG 0.453105 4:-93250358 None:intergenic
CTTTGGGCTATGACAACACT+TGG 0.464387 4:+93250592 MsaT023868.1:CDS
AATAATTATAGGGAAATTGA+AGG 0.468083 4:+93250652 MsaT023868.1:CDS
TCAACCCTGTAACGTAGGTT+TGG 0.472415 4:-93250877 None:intergenic
TCAATTGATGTTAATGATGT+TGG 0.481755 4:+93250733 MsaT023868.1:CDS
CCTGTAGGAAGTCCAACATC+AGG 0.498605 4:+93250346 MsaT023868.1:CDS
ACCTACGTTACAGGGTTGAA+TGG 0.502904 4:+93250881 MsaT023868.1:CDS
TTATTAATTTCAACATGTCC+GGG 0.509564 4:+93250302 None:intergenic
AGAGATTAATGGAGGGATTG+TGG 0.513734 4:+93250786 MsaT023868.1:CDS
ACAGAACATGCAATTGGAAG+TGG 0.518322 4:+93250838 MsaT023868.1:CDS
CTCAAAAGAAGCAAAGGAAA+CGG 0.525390 4:+93250471 MsaT023868.1:CDS
ATTGATGTTAATGATGTTGG+TGG 0.525414 4:+93250736 MsaT023868.1:CDS
ACCCTGTAACGTAGGTTTGG+TGG 0.528618 4:-93250874 None:intergenic
GATGTTAATGATGTTGGTGG+TGG 0.530464 4:+93250739 MsaT023868.1:CDS
CATCATCAAAAGAACAAGAC+AGG 0.530857 4:+93250386 MsaT023868.1:CDS
ATAAGTGCCAGAGAGAAAAG+AGG 0.537335 4:+93250545 MsaT023868.1:CDS
TTATTAAGATAAACTTTCAA+AGG 0.539135 4:-93250634 None:intergenic
GCCACCAAACCTACGTTACA+GGG 0.557356 4:+93250873 MsaT023868.1:CDS
TAAAATCTCAAAAGAAGCAA+AGG 0.579705 4:+93250465 MsaT023868.1:CDS
AGAAACCAAACAAGTCCTGT+AGG 0.592028 4:+93250331 MsaT023868.1:CDS
GGCTCACGTTGGCAATTGGT+AGG 0.609486 4:-93250411 None:intergenic
ACCATTCAACCCTGTAACGT+AGG 0.617328 4:-93250882 None:intergenic
AGGTTCCAAGAGATTAATGG+AGG 0.632716 4:+93250778 MsaT023868.1:CDS
GGTTCCAAGAGATTAATGGA+GGG 0.665223 4:+93250779 MsaT023868.1:CDS
TTTCATTATACGGCTCACGT+TGG 0.672250 4:-93250422 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 93250316 93250906 93250316 ID=MsaG023868
Chr4 mRNA 93250316 93250906 93250316 ID=MsaT023868.1;Parent=MsaG023868
Chr4 exon 93250316 93250906 93250316 ID=MsaT023868.1.exon1;Parent=MsaT023868.1
Chr4 CDS 93250316 93250906 93250316 ID=cds.MsaT023868.1;Parent=MsaT023868.1
Gene Sequence

>MsaT023868.1

ATGTCCGGGAATAAGAGAAACCAAACAAGTCCTGTAGGAAGTCCAACATCAGGAAACATCTCAGACAGTTCATCATCAAAAGAACAAGACAGGTTCCTACCAATTGCCAACGTGAGCCGTATAATGAAAAGAGCACTTCCAGCAAATGCTAAAATCTCAAAAGAAGCAAAGGAAACGGTTCAAGAATGTGTCTCTGAGTTCATAAGTTTCATTACTGGTGAAGCTTCTGATAAGTGCCAGAGAGAAAAGAGGAAAACAATTAATGGTGATGATCTTCTTTGGGCTATGACAACACTTGGTTTTGAAAACTATGTTGGTCCTTTGAAAGTTTATCTTAATAATTATAGGGAAATTGAAGGAGAAAAGAGTAATTCTAGTGCTACTAAACAAGATGATCAATATGATCATAATTCTTCTTCAATTGATGTTAATGATGTTGGTGGTGGATTTTATGCTCCAAAGAGGTTCCAAGAGATTAATGGAGGGATTGTGGATTATAGAGTAATTGGTAATAGTGATGAAACAGAACATGCAATTGGAAGTGGTAATAGAATCATGCCACCAAACCTACGTTACAGGGTTGAATGGTAG
Protein sequence

>MsaT023868.1

MSGNKRNQTSPVGSPTSGNISDSSSSKEQDRFLPIANVSRIMKRALPANAKISKEAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFENYVGPLKVYLNNYREIEGEKSNSSATKQDDQYDHNSSSIDVNDVGGGFYAPKRFQEINGGIVDYRVIGNSDETEHAIGSGNRIMPPNLRYRVEW*