AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037119

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037119 MtrunA17_Chr7g0233521 92.453 212 15 1 28 239 1 211 1.79e-145 411
MsaG037119 MtrunA17_Chr7g0233541 76.316 228 37 4 28 239 1 227 1.70e-122 353
MsaG037119 MtrunA17_Chr7g0233561 65.152 264 73 6 1 248 6 266 1.49e-109 322
MsaG037119 MtrunA17_Chr3g0131891 62.642 265 73 7 1 249 7 261 2.26e-106 314
MsaG037119 MtrunA17_Chr7g0233571 63.927 219 59 2 1 202 1 216 6.07e-96 283
MsaG037119 MtrunA17_Chr7g0233531 62.996 227 53 6 28 239 1 211 2.13e-87 264
MsaG037119 MtrunA17_Chr8g0390841 34.800 250 134 6 11 235 37 282 1.84e-35 134
MsaG037119 MtrunA17_Chr1g0163071 32.296 257 135 6 28 249 1 253 1.85e-34 128
MsaG037119 MtrunA17_Chr3g0103181 34.694 245 117 9 10 237 9 227 1.91e-31 119
MsaG037119 MtrunA17_Chr3g0103151 52.941 102 46 1 10 111 9 108 2.04e-31 115
MsaG037119 MtrunA17_Chr3g0103191 51.961 102 47 1 10 111 9 108 1.22e-30 116
MsaG037119 MtrunA17_Chr1g0208771 30.962 239 128 6 29 237 13 244 1.38e-29 117
MsaG037119 MtrunA17_Chr5g0419201 44.444 99 55 0 13 111 16 114 4.76e-28 108
MsaG037119 MtrunA17_Chr1g0163251 34.101 217 119 9 13 217 9 213 7.39e-25 103
MsaG037119 MtrunA17_Chr1g0163181 32.258 217 124 6 22 220 14 225 1.77e-23 100
MsaG037119 MtrunA17_Chr6g0467351 39.394 132 67 3 11 131 13 142 3.24e-22 93.6
MsaG037119 MtrunA17_Chr1g0171611 45.098 102 54 1 10 111 6 105 1.10e-21 93.2
MsaG037119 MtrunA17_Chr3g0103171 48.193 83 43 0 29 111 6 88 1.18e-21 92.8
MsaG037119 MtrunA17_Chr1g0163261 32.174 230 115 7 10 219 6 214 2.36e-21 92.4
MsaG037119 MtrunA17_Chr4g0067431 44.762 105 57 1 11 114 13 117 1.22e-20 90.9
MsaG037119 MtrunA17_Chr1g0163101 37.589 141 76 3 9 149 13 141 1.39e-20 87.8
MsaG037119 MtrunA17_Chr1g0163221 27.692 260 158 7 5 244 3 252 2.30e-20 90.5
MsaG037119 MtrunA17_Chr1g0163231 30.222 225 120 7 10 220 6 207 4.42e-20 89.0
MsaG037119 MtrunA17_Chr4g0033961 40.000 105 61 1 13 115 6 110 5.14e-20 90.5
MsaG037119 MtrunA17_Chr1g0163191 45.556 90 47 1 22 111 14 101 6.85e-20 85.1
MsaG037119 MtrunA17_Chr1g0162441 39.394 99 60 0 13 111 7 105 8.29e-20 89.7
MsaG037119 MtrunA17_Chr3g0077411 35.922 103 66 0 12 114 24 126 3.00e-19 88.6
MsaG037119 MtrunA17_Chr3g0077411 28.241 216 125 5 11 218 260 453 1.77e-18 86.3
MsaG037119 MtrunA17_Chr1g0163241 48.193 83 41 1 29 111 23 103 3.82e-19 83.2
MsaG037119 MtrunA17_Chr3g0077461 35.088 114 74 0 12 125 236 349 1.33e-18 86.3
MsaG037119 MtrunA17_Chr3g0077461 36.047 86 55 0 29 114 23 108 1.99e-16 80.1
MsaG037119 MtrunA17_Chr1g0163131 35.099 151 82 4 7 157 12 146 3.58e-18 83.6
MsaG037119 MtrunA17_Chr1g0163201 30.918 207 120 6 29 220 19 217 4.27e-18 84.3
MsaG037119 MtrunA17_Chr1g0163121 39.837 123 61 3 27 149 9 118 1.21e-17 78.6
MsaG037119 MtrunA17_Chr1g0163061 40.741 108 57 2 11 114 13 117 1.26e-16 78.6
MsaG037119 MtrunA17_Chr5g0429931 27.919 197 113 5 29 218 11 185 2.79e-16 77.4
MsaG037119 MtrunA17_Chr3g0077451 34.091 88 58 0 27 114 10 97 4.79e-16 76.6
MsaG037119 MtrunA17_Chr1g0162411 36.364 99 61 1 13 111 7 103 9.69e-16 77.8
MsaG037119 MtrunA17_Chr4g0009491 32.456 114 77 0 12 125 224 337 1.24e-15 77.4
MsaG037119 MtrunA17_Chr4g0009491 29.730 111 73 1 27 132 11 121 1.16e-14 74.3
MsaG037119 MtrunA17_Chr3g0077381 29.661 118 78 1 27 139 34 151 1.30e-15 77.4
MsaG037119 MtrunA17_Chr3g0077381 31.579 114 78 0 12 125 246 359 7.70e-14 72.0
MsaG037119 MtrunA17_Chr6g0463841 67.647 68 22 0 267 334 12 79 6.80e-15 73.9
MsaG037119 MtrunA17_Chr1g0163141 36.441 118 72 2 27 144 9 123 1.06e-14 71.6
MsaG037119 MtrunA17_Chr3g0077361 29.365 126 84 2 3 127 30 151 1.38e-14 74.3
MsaG037119 MtrunA17_Chr6g0476181 46.429 84 42 2 28 111 1 81 8.93e-14 68.2
MsaG037119 MtrunA17_Chr1g0162161 34.426 122 67 3 28 149 3 111 1.34e-13 67.8
MsaG037119 MtrunA17_Chr1g0154131 26.009 223 147 7 11 219 182 400 1.37e-13 71.2
MsaG037119 MtrunA17_Chr1g0163081 36.923 130 67 5 28 157 5 119 2.33e-13 66.6
MsaG037119 MtrunA17_Chr1g0154101 31.724 145 89 2 11 149 23 163 3.70e-13 70.5
MsaG037119 MtrunA17_Chr1g0154101 26.064 188 116 5 11 177 182 367 1.47e-12 68.6
MsaG037119 MtrunA17_Chr1g0154251 33.333 93 61 1 11 103 25 116 2.23e-12 67.8
MsaG037119 MtrunA17_Chr1g0154211 33.333 93 61 1 11 103 21 112 6.36e-12 66.2
MsaG037119 MtrunA17_Chr1g0154161 30.928 97 67 0 11 107 28 124 1.53e-11 64.7
MsaG037119 MtrunA17_Chr1g0154241 28.289 152 104 3 11 158 20 170 1.77e-11 63.9
MsaG037119 MtrunA17_Chr1g0154151 29.586 169 87 3 16 184 14 150 2.63e-11 63.9
MsaG037119 MtrunA17_Chr1g0154171 25.668 187 130 4 11 189 21 206 2.99e-11 63.9
MsaG037119 MtrunA17_Chr1g0163161 34.711 121 65 4 41 161 1 107 8.56e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037119 AT4G01580.1 40.870 115 68 0 2 116 19 133 3.13e-23 95.5
MsaG037119 AT3G18960.2 40.000 115 69 0 2 116 19 133 4.89e-22 92.4
MsaG037119 AT3G18960.1 40.000 115 69 0 2 116 19 133 5.05e-22 92.8
MsaG037119 AT1G49475.1 43.243 111 60 2 6 114 25 134 5.87e-22 92.0
MsaG037119 AT3G18990.1 43.434 99 56 0 13 111 6 104 1.16e-21 94.4
MsaG037119 AT3G18990.2 43.434 99 56 0 13 111 6 104 1.65e-21 94.4
MsaG037119 AT3G18960.3 45.455 88 48 0 29 116 9 96 7.04e-18 80.5

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGTTAAATGAAGGAATT+TGG 0.170862 7:-52149637 MsaT037119.1:CDS
TGCAAAATGGAAATTAAATT+TGG 0.194062 7:-52150621 MsaT037119.1:CDS
TCATCTTTACCACTGTTGTT+AGG 0.212209 7:+52147739 None:intergenic
GGAACACCGATTTCTTATTA+TGG 0.238357 7:-52150109 MsaT037119.1:intron
TATTTCTCGACAAACTTTCT+TGG 0.256848 7:+52150689 None:intergenic
AGAAAGTTTGTCGAGAAATA+TGG 0.293086 7:-52150686 MsaT037119.1:CDS
GAATGGATAATTTATCTCTA+AGG 0.305393 7:+52150460 None:intergenic
CCAAAGAGTTGCAGCTAAAA+AGG 0.311285 7:-52150438 MsaT037119.1:CDS
CATCTTTACCACTGTTGTTA+GGG 0.311853 7:+52147740 None:intergenic
TCAATGAAAGTAAAGGAAAT+TGG 0.314874 7:-52147570 MsaT037119.1:CDS
TTCCATCAACCACGTGAAAT+AGG 0.327923 7:-52150374 MsaT037119.1:CDS
AGACTCCAAATGGTGCAAAA+TGG 0.337543 7:-52150634 MsaT037119.1:CDS
GTCCAAGTCTAAACTTACTA+TGG 0.370103 7:-52147623 MsaT037119.1:CDS
ATCCTGATTAGGTACTTTGC+AGG 0.384916 7:+52149614 None:intergenic
TGGTAATAGACACTTTGATT+TGG 0.391800 7:-52149684 MsaT037119.1:CDS
GTCTTGGTCGTCATCTTCCT+CGG 0.398390 7:+52147496 None:intergenic
AAGTTTAGACTTGGACTTTG+AGG 0.408687 7:+52147630 None:intergenic
TTCCTATTTCACGTGGTTGA+TGG 0.411563 7:+52150372 None:intergenic
CACTGTTGTTAGGGGTACTT+TGG 0.416723 7:+52147749 None:intergenic
GTTTATTTGTTGTTAAATGA+AGG 0.421453 7:-52149644 MsaT037119.1:CDS
CAGAATATACCACGTTCGTT+TGG 0.431161 7:-52149704 MsaT037119.1:CDS
CCTTTACTTTCATTGAGAAC+AGG 0.435980 7:+52147577 None:intergenic
AACTTACCATAATAAGAAAT+CGG 0.464762 7:+52150103 None:intergenic
GATATTTGAAAAGCAGAAGA+TGG 0.469802 7:+52150525 None:intergenic
TTAAATTTGGTAAATAGTGA+TGG 0.478699 7:-52150608 MsaT037119.1:CDS
TGAAGTTGAGAAATTGCAAA+AGG 0.487851 7:-52150336 MsaT037119.1:CDS
AAGTGGATTGGCTTCACCTC+AGG 0.494267 7:+52151452 None:intergenic
ATATATCTAAAGACTCCAAA+TGG 0.494837 7:-52150644 MsaT037119.1:CDS
CCTGTTCTCAATGAAAGTAA+AGG 0.504364 7:-52147577 MsaT037119.1:CDS
TCTTGGTCGTCATCTTCCTC+GGG 0.505178 7:+52147497 None:intergenic
TTAGCTGCAACTCTTTGGAA+TGG 0.508092 7:+52150443 None:intergenic
GGTAGTTCAAGTAAAAGTCT+TGG 0.526804 7:+52147480 None:intergenic
GTCCATAGTAAGTTTAGACT+TGG 0.535280 7:+52147621 None:intergenic
CGCATGACAACAACAAAGGA+TGG 0.548509 7:+52150144 None:intergenic
ATCTTTACCACTGTTGTTAG+GGG 0.548805 7:+52147741 None:intergenic
CTTGCTCAAAATCTTCATGA+AGG 0.562390 7:-52151416 MsaT037119.1:CDS
TTTGATTTGGATAAGAAGAG+AGG 0.576081 7:-52149671 MsaT037119.1:CDS
CCACGTGAAATAGGAAGCAA+TGG 0.577300 7:-52150365 MsaT037119.1:CDS
GAGCATCACTCTCTAGCTCA+TGG 0.577825 7:-52150548 MsaT037119.1:CDS
TTTGTCGAGAAATATGGAGA+AGG 0.578412 7:-52150680 MsaT037119.1:CDS
TTACTTTCATTGAGAACAGG+AGG 0.578605 7:+52147580 None:intergenic
GTAGCAACTTTGCATCATGC+TGG 0.604292 7:-52150314 MsaT037119.1:CDS
CCATTGCTTCCTATTTCACG+TGG 0.606111 7:+52150365 None:intergenic
TGGTTGATGGAATTCAAAAG+AGG 0.624709 7:+52150385 None:intergenic
TAACAACAGTGGTAAAGATG+AGG 0.646245 7:-52147737 MsaT037119.1:CDS
CATGGCTAGTGAAACTCCTG+AGG 0.673676 7:-52151468 MsaT037119.1:CDS
AAAATTGTTCTGCAAACCCG+AGG 0.677162 7:-52147513 MsaT037119.1:CDS
TGTCATGCGTGCATCATACG+TGG 0.677837 7:-52150130 MsaT037119.1:CDS
TGCACGCATGACAACAACAA+AGG 0.693553 7:+52150140 None:intergenic
CAAAGTACCCCTAACAACAG+TGG 0.694701 7:-52147748 MsaT037119.1:CDS
CATGCTGGCAGAGAGTCCAA+AGG 0.714363 7:-52150299 MsaT037119.1:intron
TGTCTATTACCAAACGAACG+TGG 0.725731 7:+52149695 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 52147486 52151489 52147486 ID=MsaG037119
Chr7 mRNA 52147486 52151489 52147486 ID=MsaT037119.1;Parent=MsaG037119
Chr7 exon 52147486 52147774 52147486 ID=MsaT037119.1.exon5;Parent=MsaT037119.1
Chr7 CDS 52147486 52147774 52147486 ID=cds.MsaT037119.1;Parent=MsaT037119.1
Chr7 exon 52149629 52149723 52149629 ID=MsaT037119.1.exon4;Parent=MsaT037119.1
Chr7 CDS 52149629 52149723 52149629 ID=cds.MsaT037119.1;Parent=MsaT037119.1
Chr7 exon 52150110 52150234 52150110 ID=MsaT037119.1.exon3;Parent=MsaT037119.1
Chr7 CDS 52150110 52150234 52150110 ID=cds.MsaT037119.1;Parent=MsaT037119.1
Chr7 exon 52150300 52150717 52150300 ID=MsaT037119.1.exon2;Parent=MsaT037119.1
Chr7 CDS 52150300 52150717 52150300 ID=cds.MsaT037119.1;Parent=MsaT037119.1
Chr7 exon 52151409 52151489 52151409 ID=MsaT037119.1.exon1;Parent=MsaT037119.1
Chr7 CDS 52151409 52151489 52151409 ID=cds.MsaT037119.1;Parent=MsaT037119.1
Gene Sequence

>MsaT037119.1

ATGGCTAGTGAAACTCCTGAGGTGAAGCCAATCCACTTTTTCAAGATAATACTTGCTCAAAATCTTCATGAAGGAAAGCTTATGATGCCAAGAAAGTTTGTCGAGAAATATGGAGAAGGTTTATCAAATGCTATATATCTAAAGACTCCAAATGGTGCAAAATGGAAATTAAATTTGGTAAATAGTGATGGAAAAATATGGTTTGAAAAAGGTTGGAAAGAATTTGCAGAGCATCACTCTCTAGCTCATGGCCATCTTCTGCTTTTCAAATATCTAAGAAGTTCTCGTTTTCTTGTGCGCATCTTTGAAAAGAGTGCCTTAGAGATAAATTATCCATTCCAAAGAGTTGCAGCTAAAAAGGTCTCCAATGGTCAAAAGAGAAAAGCTAACTCCTCTTTTGAATTCCATCAACCACGTGAAATAGGAAGCAATGGTTGTGTTGAAGTTGAGAAATTGCAAAAGGTAGCAACTTTGCATCATGCTGGCAGAGAGTCCAAAGGGAAACAAGTGCTTACTGCTAAGAGAGTAACAGCTCTTGAAAGAGCACAATCTTTCAAAACATGTAATCCATCCTTTGTTGTTGTCATGCGTGCATCATACGTGGAACACCGATTTCTTATTATGAATATACCACGTTCGTTTGGTAATAGACACTTTGATTTGGATAAGAAGAGAGGAGATGTTTATTTGTTGTTAAATGAAGGAATTTGGCCTGCAAATCGCCAAAGTACCCCTAACAACAGTGGTAAAGATGAGGAAGAAAATTACGACTCAACAACATCGACACCAATCACAAACCGTAGAAAAGTCATCAAGAAGTATGCTCAGACAATGAAAAGATCCTCAAAGTCCAAGTCTAAACTTACTATGGACTATCAATCAAATTCAGCTCCTCCTGTTCTCAATGAAAGTAAAGGAAATTGGTTACTTGATGACTTACAATACAACAAAATTAAGAAAAATTGTTCTGCAAACCCGAGGAAGATGACGACCAAGACTTTTACTTGA
Protein sequence

>MsaT037119.1

MASETPEVKPIHFFKIILAQNLHEGKLMMPRKFVEKYGEGLSNAIYLKTPNGAKWKLNLVNSDGKIWFEKGWKEFAEHHSLAHGHLLLFKYLRSSRFLVRIFEKSALEINYPFQRVAAKKVSNGQKRKANSSFEFHQPREIGSNGCVEVEKLQKVATLHHAGRESKGKQVLTAKRVTALERAQSFKTCNPSFVVVMRASYVEHRFLIMNIPRSFGNRHFDLDKKRGDVYLLLNEGIWPANRQSTPNNSGKDEEENYDSTTSTPITNRRKVIKKYAQTMKRSSKSKSKLTMDYQSNSAPPVLNESKGNWLLDDLQYNKIKKNCSANPRKMTTKTFT*