AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029978

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029978 MtrunA17_Chr6g0452671 84.000 225 13 3 1 225 1 202 1.58e-132 372
MsaG029978 MtrunA17_Chr6g0452661 46.586 249 87 7 9 231 7 235 9.43e-62 194
MsaG029978 MtrunA17_Chr5g0439111 45.378 238 104 6 9 230 7 234 6.89e-54 173
MsaG029978 MtrunA17_Chr6g0452691 51.786 168 68 4 1 164 1 159 1.43e-49 160
MsaG029978 MtrunA17_Chr4g0055441 51.786 168 53 5 12 178 3 143 4.14e-49 158
MsaG029978 MtrunA17_Chr4g0059901 50.450 111 55 0 5 115 4 114 4.90e-35 125
MsaG029978 MtrunA17_Chr8g0342351 55.000 100 45 0 8 107 9 108 7.62e-34 122
MsaG029978 MtrunA17_Chr2g0330201 47.706 109 57 0 8 116 16 124 1.50e-30 115
MsaG029978 MtrunA17_Chr3g0115431 44.000 100 56 0 9 108 7 106 9.36e-27 103
MsaG029978 MtrunA17_Chr2g0311601 46.988 83 44 0 8 90 10 92 9.43e-27 101
MsaG029978 MtrunA17_Chr4g0043421 35.507 138 79 2 12 146 16 146 1.41e-26 101
MsaG029978 MtrunA17_Chr7g0227511 41.000 100 59 0 8 107 8 107 1.57e-26 101
MsaG029978 MtrunA17_Chr6g0449651 41.584 101 59 0 6 106 62 162 1.62e-26 101
MsaG029978 MtrunA17_Chr5g0402611 41.584 101 59 0 8 108 5 105 2.07e-26 104
MsaG029978 MtrunA17_Chr8g0353981 50.633 79 39 0 12 90 8 86 6.17e-26 101
MsaG029978 MtrunA17_Chr6g0449641 40.000 100 60 0 8 107 6 105 1.76e-25 97.4
MsaG029978 MtrunA17_Chr3g0106101 41.414 99 58 0 6 104 2 100 2.26e-25 98.2
MsaG029978 MtrunA17_Chr7g0225111 40.566 106 63 0 12 117 6 111 2.58e-25 96.3
MsaG029978 MtrunA17_Chr5g0444351 40.206 97 58 0 12 108 6 102 3.33e-25 97.1
MsaG029978 MtrunA17_Chr4g0058651 32.237 152 83 2 12 163 12 143 3.74e-25 97.8
MsaG029978 MtrunA17_Chr3g0117121 41.667 96 56 0 12 107 11 106 4.39e-25 97.8
MsaG029978 MtrunA17_Chr3g0114061 44.706 85 47 0 6 90 3 87 5.96e-25 96.7
MsaG029978 MtrunA17_Chr3g0097221 41.584 101 59 0 8 108 4 104 1.48e-24 99.0
MsaG029978 MtrunA17_Chr6g0449311 51.724 116 50 3 39 151 1 113 6.59e-24 93.6
MsaG029978 MtrunA17_Chr5g0437571 46.835 79 42 0 12 90 7 85 6.70e-24 94.0
MsaG029978 MtrunA17_Chr5g0438091 32.895 152 95 2 7 155 35 182 7.82e-24 94.7
MsaG029978 MtrunA17_Chr5g0432451 37.963 108 66 1 7 113 39 146 1.29e-22 92.4
MsaG029978 MtrunA17_Chr5g0437401 38.318 107 66 0 8 114 8 114 3.66e-22 89.7
MsaG029978 MtrunA17_Chr3g0129071 37.255 102 64 0 7 108 43 144 4.38e-22 91.3
MsaG029978 MtrunA17_Chr4g0030001 40.000 115 64 2 12 125 25 135 4.91e-22 89.7
MsaG029978 MtrunA17_Chr3g0113891 43.529 85 48 0 8 92 11 95 1.05e-21 89.0
MsaG029978 MtrunA17_Chr1g0200201 37.097 124 74 1 12 135 73 192 1.28e-21 89.7
MsaG029978 MtrunA17_Chr8g0374591 36.364 99 63 0 10 108 7 105 4.56e-21 85.5
MsaG029978 MtrunA17_Chr4g0040831 42.683 82 47 0 4 85 8 89 7.72e-21 87.0
MsaG029978 MtrunA17_Chr7g0260971 37.383 107 66 1 8 113 11 117 3.68e-19 82.8
MsaG029978 MtrunA17_Chr8g0374601 37.374 99 62 0 10 108 25 123 1.52e-18 82.4
MsaG029978 MtrunA17_Chr6g0460951 34.259 108 70 1 12 118 41 148 5.74e-18 79.7
MsaG029978 MtrunA17_Chr8g0351721 38.614 101 61 1 12 111 19 119 2.04e-17 78.2
MsaG029978 MtrunA17_Chr4g0046201 40.000 80 48 0 11 90 6 85 2.22e-16 76.3
MsaG029978 MtrunA17_Chr8g0374581 36.000 100 63 1 10 108 7 106 7.40e-16 73.9
MsaG029978 MtrunA17_Chr5g0435641 32.990 97 64 1 10 105 6 102 7.75e-16 73.2
MsaG029978 MtrunA17_Chr6g0460941 32.979 94 62 1 6 98 2 95 1.00e-15 70.5
MsaG029978 MtrunA17_Chr1g0184271 36.190 105 59 2 12 115 13 110 1.00e-15 73.9
MsaG029978 MtrunA17_Chr1g0184281 35.714 98 62 1 12 108 16 113 1.02e-15 73.2
MsaG029978 MtrunA17_Chr8g0351701 34.694 98 63 1 12 108 24 121 3.97e-15 72.0
MsaG029978 MtrunA17_Chr7g0261031 40.741 81 47 1 12 91 9 89 6.18e-15 71.6
MsaG029978 MtrunA17_Chr7g0245871 34.951 103 59 2 12 113 28 123 1.33e-14 70.9
MsaG029978 MtrunA17_Chr2g0326041 56.250 48 21 0 12 59 34 81 1.47e-14 67.0
MsaG029978 MtrunA17_Chr7g0245861 37.363 91 53 3 1 87 1 91 1.24e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029978 AT3G47870.1 55.340 103 46 0 5 107 30 132 3.14e-34 125
MsaG029978 AT3G13850.1 43.137 153 82 3 10 159 35 185 7.23e-31 115
MsaG029978 AT1G72980.1 45.238 126 65 2 6 128 8 132 3.31e-29 109
MsaG029978 AT1G65620.1 49.398 83 42 0 8 90 6 88 1.04e-26 102
MsaG029978 AT1G65620.4 49.398 83 42 0 8 90 6 88 1.04e-26 102
MsaG029978 AT1G65620.3 49.398 83 42 0 8 90 6 88 1.04e-26 102
MsaG029978 AT1G65620.5 49.398 83 42 0 8 90 6 88 1.04e-26 102
MsaG029978 AT1G65620.2 49.398 83 42 0 8 90 6 88 1.04e-26 102
MsaG029978 AT3G27650.1 44.330 97 54 0 8 104 36 132 1.23e-26 101
MsaG029978 AT3G26660.1 43.158 95 54 0 10 104 4 98 1.31e-26 100
MsaG029978 AT3G26620.1 43.158 95 54 0 10 104 4 98 1.72e-26 99.8
MsaG029978 AT2G30130.1 36.719 128 74 1 6 133 3 123 3.26e-25 98.6
MsaG029978 AT5G66870.1 38.835 103 63 0 6 108 2 104 3.67e-25 101
MsaG029978 AT1G31320.1 44.578 83 46 0 8 90 10 92 1.02e-24 96.7
MsaG029978 AT5G63090.4 38.542 96 59 0 12 107 12 107 1.96e-23 94.0
MsaG029978 AT5G63090.3 38.542 96 59 0 12 107 12 107 1.96e-23 94.0
MsaG029978 AT5G63090.2 38.542 96 59 0 12 107 12 107 1.96e-23 94.0
MsaG029978 AT5G63090.1 38.542 96 59 0 12 107 12 107 1.96e-23 94.0
MsaG029978 AT1G16530.1 45.977 87 46 1 5 90 8 94 2.16e-23 93.2
MsaG029978 AT1G07900.1 38.462 117 62 2 12 125 34 143 3.02e-22 90.9
MsaG029978 AT2G30340.2 36.275 102 65 0 7 108 49 150 5.71e-22 92.0
MsaG029978 AT2G30340.1 36.275 102 65 0 7 108 48 149 6.76e-22 91.7
MsaG029978 AT2G23660.2 38.614 101 62 0 8 108 2 102 7.17e-22 92.4
MsaG029978 AT2G23660.3 38.614 101 62 0 8 108 2 102 7.17e-22 92.4
MsaG029978 AT2G23660.1 38.614 101 62 0 8 108 2 102 7.17e-22 92.4
MsaG029978 AT2G40470.2 36.275 102 65 0 7 108 16 117 1.60e-21 89.0
MsaG029978 AT2G40470.1 36.275 102 65 0 7 108 41 142 3.31e-21 89.0
MsaG029978 AT3G50510.1 38.532 109 66 1 9 116 10 118 5.12e-21 87.8
MsaG029978 AT3G50510.2 38.532 109 66 1 9 116 10 118 5.12e-21 87.8
MsaG029978 AT2G28500.1 39.048 105 57 1 12 116 56 153 6.04e-21 88.2
MsaG029978 AT5G15060.1 45.122 82 43 1 3 82 9 90 8.86e-20 82.8
MsaG029978 AT3G11090.1 39.759 83 50 0 8 90 8 90 2.06e-19 82.4
MsaG029978 AT1G06280.1 39.640 111 56 2 10 120 23 122 4.93e-19 82.8
MsaG029978 AT2G42430.1 40.659 91 53 1 2 91 6 96 1.51e-17 79.3
MsaG029978 AT3G03760.1 34.906 106 68 1 12 116 52 157 2.54e-17 79.3
MsaG029978 AT4G00220.1 36.190 105 59 2 14 117 20 117 1.73e-16 76.3
MsaG029978 AT3G58190.1 34.058 138 72 4 12 148 12 131 4.96e-16 74.7
MsaG029978 AT2G42440.1 33.094 139 74 4 12 149 8 128 8.95e-16 74.7
MsaG029978 AT5G35900.1 29.000 100 71 0 9 108 3 102 1.12e-15 73.6
MsaG029978 AT5G06080.1 34.737 95 61 1 11 104 7 101 1.78e-15 72.4
MsaG029978 AT4G00210.1 34.211 114 74 1 12 124 12 125 2.38e-15 72.8
MsaG029978 AT2G19820.1 35.088 114 65 3 1 112 1 107 2.93e-15 70.5
MsaG029978 AT2G31310.1 35.632 87 55 1 6 91 2 88 5.54e-14 68.6
MsaG029978 AT2G45420.1 37.975 79 48 1 14 91 40 118 7.29e-14 69.7
MsaG029978 AT2G45410.1 33.621 116 74 3 14 127 19 133 3.66e-13 66.2

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCATTGTGAAGAATTAT+TGG 0.154703 6:+569226 MsaT029978.1:CDS
GTAGTACAAAATTTGATTTA+AGG 0.221208 6:+569258 MsaT029978.1:CDS
CTTTCTTCTTTGGAATTTGC+AGG 0.258062 6:-568658 None:intergenic
GAAGAATTATTGGATCTTAA+TGG 0.282033 6:+569236 MsaT029978.1:CDS
TACCTCAGTTACTCCTTTAT+CGG 0.306913 6:-569303 None:intergenic
TAGTACAAAATTTGATTTAA+GGG 0.316753 6:+569259 MsaT029978.1:CDS
GGTTTATCAGCAGGAAAATA+AGG 0.329247 6:-568705 None:intergenic
AAGTCTTGTTTGGTATCAAT+TGG 0.340541 6:-569089 None:intergenic
AAAATATCAGATGCCGATAA+AGG 0.366493 6:+569290 MsaT029978.1:CDS
ATTAGTTTCAAAGTCTTGTT+TGG 0.372503 6:-569099 None:intergenic
AAAATTTGATTTAAGGGAAA+AGG 0.388332 6:+569265 MsaT029978.1:CDS
CTTTAATATCTTCGATATGT+TGG 0.391762 6:-568766 None:intergenic
GATGTTATTATGATGTATTA+TGG 0.406805 6:+568879 MsaT029978.1:CDS
ACATCAAGACATCCACCAAC+AGG 0.415425 6:-568861 None:intergenic
AGAATGATCAATTGATAAGT+AGG 0.435407 6:-568997 None:intergenic
ATTCTTACTAGATTATTGTA+AGG 0.440710 6:+568941 MsaT029978.1:CDS
GGCAACGCTCATCGTTTGTT+CGG 0.441079 6:+568738 MsaT029978.1:CDS
GAAGATATTAAAGCAAGTTA+AGG 0.448622 6:+568776 MsaT029978.1:CDS
GGGATGTCATAATAAGAATT+CGG 0.449186 6:-569047 None:intergenic
ATTAGTGGTGTTAGCAATAG+TGG 0.455191 6:+569152 MsaT029978.1:CDS
AACACTTGTGGTTTATCAGC+AGG 0.459111 6:-568714 None:intergenic
AGTCTTGTTTGGTATCAATT+GGG 0.476905 6:-569088 None:intergenic
GGAACTCGAGTGCTACTAGA+AGG 0.478886 6:-569026 None:intergenic
GCTGATAAACCACAAGTGTT+CGG 0.498732 6:+568717 MsaT029978.1:CDS
AGGGTTACACAATTGATTAG+TGG 0.501559 6:+569137 MsaT029978.1:CDS
CGTGCTCAATTCCCTGTTGG+TGG 0.544713 6:+568849 MsaT029978.1:CDS
GATCCAATAATTCTTCACAA+TGG 0.560190 6:-569229 None:intergenic
GAATGATCAATTGATAAGTA+GGG 0.561261 6:-568996 None:intergenic
TGAGCGTTGCCGAACACTTG+TGG 0.583347 6:-568726 None:intergenic
ATGCGTGCTCAATTCCCTGT+TGG 0.591693 6:+568846 MsaT029978.1:CDS
TCGAGTGCTACTAGAAGGAG+TGG 0.591697 6:-569021 None:intergenic
TAGTGGTGGTGGCAATGCAA+TGG 0.604784 6:+569169 MsaT029978.1:CDS
GGTGTTAGCAATAGTGGTGG+TGG 0.623088 6:+569158 MsaT029978.1:CDS
GGGTTAATAGTAACATTACG+AGG 0.645055 6:-569068 None:intergenic
CATCAAGACATCCACCAACA+GGG 0.653135 6:-568860 None:intergenic
GGTTAATAGTAACATTACGA+GGG 0.671173 6:-569067 None:intergenic
CAACAGAGGAGACACAAGCA+AGG 0.679554 6:+568626 MsaT029978.1:CDS
TCTAACTTGATGGTAACACA+AGG 0.694400 6:+569200 MsaT029978.1:CDS
TACCTAATGAATATCAACAG+AGG 0.696712 6:+568612 None:intergenic
TGCCGATAAAGGAGTAACTG+AGG 0.703223 6:+569301 MsaT029978.1:CDS
AGTGGTGTTAGCAATAGTGG+TGG 0.717746 6:+569155 MsaT029978.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 568618 570248 568618 ID=MsaG029978
Chr6 mRNA 568618 570248 568618 ID=MsaT029978.1;Parent=MsaG029978
Chr6 exon 568618 569322 568618 ID=MsaT029978.1.exon1;Parent=MsaT029978.1
Chr6 CDS 568618 569322 568618 ID=cds.MsaT029978.1;Parent=MsaT029978.1
Chr6 exon 570228 570248 570228 ID=MsaT029978.1.exon2;Parent=MsaT029978.1
Chr6 CDS 570228 570248 570228 ID=cds.MsaT029978.1;Parent=MsaT029978.1
Gene Sequence

>MsaT029978.1

ATGAATATCAACAGAGGAGACACAAGCAAGGCTTGTGCATCCTGCAAATTCCAAAGAAGAAAGTGTTCAAAAGATTGTCTTCTAGCTCCTTATTTTCCTGCTGATAAACCACAAGTGTTCGGCAACGCTCATCGTTTGTTCGGTGTTTCCAACATATCGAAGATATTAAAGCAAGTTAAGGAAAAATATAGAGATGAAGCAATGAAATCAATTATTTTTGAGTCGGATATGCGTGCTCAATTCCCTGTTGGTGGATGTCTTGATGTTATTATGATGTATTATGGTATGATCAAACACTCTGAGCAAGAACTAAATTCTGTTAAATTCTTACTAGATTATTGTAAGGTAAATTACCCTTTGCAACAACAAAATCTTGAACCCTACTTATCAATTGATCATTCTTCCACTCCTTCTAGTAGCACTCGAGTTCCGAATTCTTATTATGACATCCCTCGTAATGTTACTATTAACCCAATTGATACCAAACAAGACTTTGAAACTAATTTTATGGATGCAGCAAGGGTTACACAATTGATTAGTGGTGTTAGCAATAGTGGTGGTGGCAATGCAATGGAAGAAAAATCTAACTTGATGGTAACACAAGGACTATTCCATTGTGAAGAATTATTGGATCTTAATGGTAGTACAAAATTTGATTTAAGGGAAAAGGAGAAAATATCAGATGCCGATAAAGGAGTAACTGAGATCAAACAAATTGCTAAATGA
Protein sequence

>MsaT029978.1

MNINRGDTSKACASCKFQRRKCSKDCLLAPYFPADKPQVFGNAHRLFGVSNISKILKQVKEKYRDEAMKSIIFESDMRAQFPVGGCLDVIMMYYGMIKHSEQELNSVKFLLDYCKVNYPLQQQNLEPYLSIDHSSTPSSSTRVPNSYYDIPRNVTINPIDTKQDFETNFMDAARVTQLISGVSNSGGGNAMEEKSNLMVTQGLFHCEELLDLNGSTKFDLREKEKISDADKGVTEIKQIAK*