AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023774

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023774 MtrunA17_Chr8g0381741 97.697 304 6 1 1 304 1 303 0.0 600
MsaG023774 MtrunA17_Chr3g0123691 59.327 327 87 12 1 308 1 300 7.33e-103 304
MsaG023774 MtrunA17_Chr3g0119291 38.871 319 115 7 1 303 1 255 1.61e-59 191
MsaG023774 MtrunA17_Chr8g0362751 47.059 187 76 4 45 226 81 249 5.71e-41 144
MsaG023774 MtrunA17_Chr5g0415941 66.667 108 35 1 43 150 77 183 1.05e-40 145
MsaG023774 MtrunA17_Chr5g0416391 45.455 176 87 3 40 208 65 238 1.22e-38 138
MsaG023774 MtrunA17_Chr6g0453021 61.682 107 40 1 43 149 86 191 3.80e-38 137
MsaG023774 MtrunA17_Chr6g0450991 61.111 108 42 0 53 160 66 173 4.64e-38 137
MsaG023774 MtrunA17_Chr8g0362151 58.407 113 45 1 37 149 62 172 1.95e-37 135
MsaG023774 MtrunA17_Chr4g0060031 54.400 125 56 1 26 150 68 191 2.83e-34 128
MsaG023774 MtrunA17_Chr7g0217111 58.763 97 40 0 53 149 79 175 5.18e-30 115
MsaG023774 MtrunA17_Chr8g0346251 48.544 103 53 0 61 163 48 150 1.38e-27 108
MsaG023774 MtrunA17_Chr7g0265521 51.485 101 42 1 53 153 62 155 7.24e-27 105
MsaG023774 MtrunA17_Chr3g0127511 53.846 91 42 0 56 146 40 130 3.80e-25 101
MsaG023774 MtrunA17_Chr1g0179581 54.321 81 37 0 53 133 27 107 5.15e-25 97.4
MsaG023774 MtrunA17_Chr5g0403701 54.455 101 37 1 54 154 53 144 4.72e-23 95.1
MsaG023774 MtrunA17_Chr4g0055851 52.525 99 40 1 50 148 116 207 3.59e-21 91.7
MsaG023774 MtrunA17_Chr5g0403691 61.972 71 27 0 54 124 53 123 1.42e-20 88.6
MsaG023774 MtrunA17_Chr1g0175651 44.000 125 60 2 27 148 124 241 2.02e-18 84.3
MsaG023774 MtrunA17_Chr5g0399491 49.495 99 43 1 50 148 132 223 3.93e-18 83.2
MsaG023774 MtrunA17_Chr4g0054421 48.113 106 46 2 43 148 118 214 4.00e-18 82.8
MsaG023774 MtrunA17_Chr4g0071411 47.253 91 41 1 57 147 91 174 5.92e-18 81.3
MsaG023774 MtrunA17_Chr1g0151971 50.000 96 41 1 53 148 129 217 1.33e-17 81.6
MsaG023774 MtrunA17_Chr2g0308611 44.340 106 52 1 43 148 189 287 2.78e-17 81.6
MsaG023774 MtrunA17_Chr5g0400781 47.423 97 44 1 52 148 121 210 1.10e-16 79.0
MsaG023774 MtrunA17_Chr7g0258831 44.643 112 52 2 40 148 143 247 1.20e-16 79.0
MsaG023774 MtrunA17_Chr8g0335131 48.958 96 42 1 53 148 145 233 1.24e-16 79.3
MsaG023774 MtrunA17_Chr3g0135331 46.429 84 45 0 42 125 133 216 5.27e-14 71.6
MsaG023774 MtrunA17_Chr4g0044091 46.154 91 48 1 49 139 61 150 2.22e-13 68.2
MsaG023774 MtrunA17_Chr2g0299031 42.017 119 56 4 43 161 76 181 9.79e-13 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023774 AT2G22430.1 47.164 335 112 11 1 304 2 302 4.05e-78 241
MsaG023774 AT4G40060.1 44.000 325 121 11 1 304 1 285 1.80e-72 226
MsaG023774 AT5G65310.1 42.378 328 130 15 1 297 1 300 1.49e-58 191
MsaG023774 AT5G65310.2 43.206 287 112 11 34 297 24 282 1.49e-55 183
MsaG023774 AT3G01470.1 47.097 155 72 1 53 197 67 221 6.03e-38 136
MsaG023774 AT1G69780.1 58.559 111 46 0 52 162 83 193 1.10e-37 136
MsaG023774 AT3G01220.1 56.364 110 48 0 40 149 73 182 9.06e-36 131
MsaG023774 AT5G15150.1 41.148 209 101 7 1 209 69 255 1.15e-35 132
MsaG023774 AT1G26960.1 56.757 111 48 0 52 162 69 179 1.46e-33 124
MsaG023774 AT2G46680.1 50.400 125 60 1 55 177 33 157 1.03e-31 120
MsaG023774 AT2G46680.2 48.780 123 63 0 55 177 33 155 1.27e-30 117
MsaG023774 AT1G27045.1 56.481 108 46 1 54 161 68 174 1.13e-28 110
MsaG023774 AT3G61890.1 45.312 128 64 2 57 181 33 157 1.31e-28 110
MsaG023774 AT1G27045.5 56.481 108 46 1 54 161 25 131 2.20e-28 108
MsaG023774 AT1G27045.3 56.481 108 46 1 54 161 25 131 2.20e-28 108
MsaG023774 AT1G27045.2 56.481 108 46 1 54 161 17 123 2.73e-28 108
MsaG023774 AT5G03790.1 53.000 100 40 1 54 153 77 169 5.24e-26 103
MsaG023774 AT1G27045.4 58.065 93 39 0 54 146 68 160 1.16e-25 103
MsaG023774 AT5G03790.2 62.500 72 27 0 54 125 77 148 4.61e-24 97.8
MsaG023774 AT2G36610.1 45.794 107 43 2 53 151 70 169 4.39e-22 92.0
MsaG023774 AT2G18550.1 36.047 172 80 5 54 215 61 212 2.31e-21 91.3
MsaG023774 AT5G66700.1 59.459 74 30 0 54 127 71 144 2.98e-21 90.9
MsaG023774 AT4G36740.1 52.577 97 39 1 54 150 55 144 1.58e-20 89.0
MsaG023774 AT4G36740.2 52.577 97 39 1 54 150 56 145 1.63e-20 89.0
MsaG023774 AT5G53980.1 44.444 99 55 0 54 152 11 109 1.94e-19 84.3
MsaG023774 AT5G06710.1 50.000 102 42 2 49 148 183 277 3.83e-18 84.3
MsaG023774 AT3G60390.1 46.226 106 50 1 43 148 151 249 3.26e-17 81.3
MsaG023774 AT4G16780.1 47.170 106 46 2 43 148 121 216 1.12e-16 79.3
MsaG023774 AT4G37790.1 46.226 106 47 2 43 148 118 213 1.45e-16 79.0
MsaG023774 AT2G44910.1 47.917 96 43 1 53 148 162 250 3.39e-16 78.6
MsaG023774 AT2G22800.1 46.226 106 47 2 43 148 105 200 8.26e-16 76.6
MsaG023774 AT4G17460.1 46.226 106 50 1 43 148 124 222 9.58e-16 76.6
MsaG023774 AT5G47370.1 46.226 106 50 1 43 148 119 217 2.89e-15 75.5
MsaG023774 AT2G01430.1 36.111 144 81 3 40 179 122 258 6.49e-15 74.3
MsaG023774 AT5G06710.4 52.381 63 26 1 43 105 183 241 1.57e-11 64.3
MsaG023774 AT2G01430.2 47.143 70 34 1 40 106 122 191 2.08e-11 63.2

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAGCTTCACTTTCCTATC+TGG 0.289532 4:-92199606 None:intergenic
CTTGGCAGCTCCGATTCTTT+AGG 0.293153 4:+92198903 MsaT023774.1:CDS
AAATCAAAGCTCCTATTTCT+TGG 0.300268 4:+92204781 MsaT023774.1:CDS
AAGTTTAAGTGCATCATAAT+TGG 0.307318 4:-92199733 None:intergenic
AACGCAGCAATTTCTTCATC+TGG 0.309720 4:+92200376 MsaT023774.1:CDS
AAACAATTGGAAAGAGATTA+TGG 0.321657 4:+92199699 MsaT023774.1:CDS
CATTCTTAGATCCGATTCTA+AGG 0.324209 4:+92200240 MsaT023774.1:CDS
ATAATCTCTTTCCAATTGTT+TGG 0.328373 4:-92199697 None:intergenic
CCATACACTTGGTTGTTCCT+TGG 0.333790 4:-92199447 None:intergenic
GACATTGTCACCCAAGAAAT+AGG 0.371234 4:-92204792 None:intergenic
TTCAGAACAATTAAACTTCA+AGG 0.401312 4:-92200443 None:intergenic
TGTGGATCAAGTTAAGGCTT+TGG 0.415440 4:+92199551 MsaT023774.1:CDS
AATCAAAGCTCCTATTTCTT+GGG 0.415649 4:+92204782 MsaT023774.1:CDS
GTTATGTACCTCTTTGAGTA+AGG 0.416508 4:-92199787 None:intergenic
TTCAAAACCGTCGTGCTAGA+TGG 0.422496 4:+92199670 MsaT023774.1:CDS
GCTTGGTTTGCAACCAAGAC+AGG 0.426710 4:+92199635 MsaT023774.1:CDS
TGTCGTTGTTGCTTCTCTCA+TGG 0.428170 4:+92204811 MsaT023774.1:CDS
CCAAGGAACAACCAAGTGTA+TGG 0.442867 4:+92199447 MsaT023774.1:CDS
AATATGAATTAACCTGTTGT+TGG 0.443287 4:-92198945 None:intergenic
GTGAAGCTTGCTCAAGAGCT+TGG 0.455028 4:+92199618 MsaT023774.1:CDS
AACCAAGACAGGTTGCTGTT+TGG 0.456352 4:+92199646 MsaT023774.1:CDS
AACAACCACCAACGCTTCAA+TGG 0.458388 4:+92200581 MsaT023774.1:CDS
ATGACAATTTGTCCAACAAC+AGG 0.459440 4:+92198933 MsaT023774.1:CDS
TCAGACGCAGTTTGTGAAGA+TGG 0.461193 4:+92200507 MsaT023774.1:CDS
ACTAAGTGTGGATCAAGTTA+AGG 0.472988 4:+92199545 MsaT023774.1:CDS
AACCAAACAGCAACCTGTCT+TGG 0.475030 4:-92199648 None:intergenic
GTAGTTTAAGTCCTTAGAAT+CGG 0.480930 4:-92200251 None:intergenic
ACGCAGCAATTTCTTCATCT+GGG 0.483849 4:+92200377 MsaT023774.1:CDS
GAAGAACCGTCTTTGAAATC+CGG 0.484012 4:-92200316 None:intergenic
AGTCTTCGTTTCTTCTGCCC+TGG 0.485359 4:-92199525 None:intergenic
AGTTGCTTCACTATTTCCTC+CGG 0.491792 4:+92200297 MsaT023774.1:CDS
TAGATGGAAGACCAAACAAT+TGG 0.511361 4:+92199686 MsaT023774.1:CDS
CGCAGCAATTTCTTCATCTG+GGG 0.511842 4:+92200378 MsaT023774.1:CDS
CATGAGAGCACCTAAAGAAT+CGG 0.517449 4:-92198913 None:intergenic
GAAATTCCCTTCCATACACT+TGG 0.519570 4:-92199458 None:intergenic
ATGGAAGGACTAGATGAAGA+AGG 0.536436 4:+92199489 MsaT023774.1:CDS
ATATAGAAGAAGAGAGTCCA+AGG 0.540750 4:+92199430 MsaT023774.1:intron
AAAACAAGCTTGAACCAGAT+AGG 0.540809 4:+92199592 MsaT023774.1:CDS
CTTAGAATCGGATCTAAGAA+TGG 0.550362 4:-92200239 None:intergenic
TTTCCTCCGGATTTCAAAGA+CGG 0.551128 4:+92200310 MsaT023774.1:CDS
AAGGGAATTTCAGTCGGTGA+TGG 0.553931 4:+92199470 MsaT023774.1:CDS
GAACAATACCATTGAAGCGT+TGG 0.555180 4:-92200589 None:intergenic
GGAACAACCAAGTGTATGGA+AGG 0.557687 4:+92199451 MsaT023774.1:CDS
CAATGAAACCTTACTCAAAG+AGG 0.564712 4:+92199779 MsaT023774.1:CDS
CAATACCATTGAAGCGTTGG+TGG 0.571844 4:-92200586 None:intergenic
GAATTTCAGTCGGTGATGGA+AGG 0.580376 4:+92199474 MsaT023774.1:CDS
GTTCTCATCATGAAGAGACT+TGG 0.586467 4:+92198885 None:intergenic
CGAAAATCAACAAATTGAGA+AGG 0.596355 4:+92204758 MsaT023774.1:CDS
AACTTCAAGGAAGAAGAACC+AGG 0.601960 4:-92200430 None:intergenic
GAAGGATGTGTTGATGAACC+AGG 0.610489 4:+92199507 MsaT023774.1:CDS
GAAGAAACGAAGACTAAGTG+TGG 0.625631 4:+92199533 MsaT023774.1:CDS
GTAAGGTTTCATTGTCACGT+TGG 0.635299 4:-92199770 None:intergenic
GTATGGAAGGGAATTTCAGT+CGG 0.650724 4:+92199464 MsaT023774.1:CDS
TGGTCTTCCATCTAGCACGA+CGG 0.655214 4:-92199677 None:intergenic
AAGCAATTACTCATAGAAGA+CGG 0.662929 4:-92200478 None:intergenic
GAACAACCAAGTGTATGGAA+GGG 0.664333 4:+92199452 MsaT023774.1:CDS
GAACCGTCTTTGAAATCCGG+AGG 0.667219 4:-92200313 None:intergenic
AAGGATGTGTTGATGAACCA+GGG 0.673289 4:+92199508 MsaT023774.1:CDS
ATTGCAAGAATCAGAAAACA+CGG 0.678412 4:+92200201 MsaT023774.1:CDS
AGAATCGGATCTAAGAATGG+CGG 0.697638 4:-92200236 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 92198894 92204839 92198894 ID=MsaG023774
Chr4 mRNA 92198894 92204839 92198894 ID=MsaT023774.1;Parent=MsaG023774
Chr4 exon 92198894 92198954 92198894 ID=MsaT023774.1.exon1;Parent=MsaT023774.1
Chr4 CDS 92198894 92198954 92198894 ID=cds.MsaT023774.1;Parent=MsaT023774.1
Chr4 exon 92199436 92199800 92199436 ID=MsaT023774.1.exon2;Parent=MsaT023774.1
Chr4 CDS 92199436 92199800 92199436 ID=cds.MsaT023774.1;Parent=MsaT023774.1
Chr4 exon 92200115 92200602 92200115 ID=MsaT023774.1.exon3;Parent=MsaT023774.1
Chr4 CDS 92200115 92200602 92200115 ID=cds.MsaT023774.1;Parent=MsaT023774.1
Chr4 exon 92204752 92204839 92204752 ID=MsaT023774.1.exon4;Parent=MsaT023774.1
Chr4 CDS 92204752 92204839 92204752 ID=cds.MsaT023774.1;Parent=MsaT023774.1
Gene Sequence

>MsaT023774.1

ATGAAGAGACTTGGCAGCTCCGATTCTTTAGGTGCTCTCATGACAATTTGTCCAACAACAGAAGAAGAGAGTCCAAGGAACAACCAAGTGTATGGAAGGGAATTTCAGTCGGTGATGGAAGGACTAGATGAAGAAGGATGTGTTGATGAACCAGGGCAGAAGAAACGAAGACTAAGTGTGGATCAAGTTAAGGCTTTGGAGAAGAATTTTGAAGTTGAAAACAAGCTTGAACCAGATAGGAAAGTGAAGCTTGCTCAAGAGCTTGGTTTGCAACCAAGACAGGTTGCTGTTTGGTTTCAAAACCGTCGTGCTAGATGGAAGACCAAACAATTGGAAAGAGATTATGGTGTTCTCAAAGCCAATTATGATGCACTTAAACTTAATTGTGAGAATCTCCAACGTGACAATGAAACCTTACTCAAAGAGGTTAAGGAATTGAAATCAAGATTGCAAATACAAGAAGAAAACACAACTACTGAAAGCGATGTTTGTGTGAAAGAAGAGTTGATAACATTGCAAGAATCAGAAAACACGGCTTCTGATGAAACCGCCATTCTTAGATCCGATTCTAAGGACTTAAACTACGATTGTTTCAAAAACGGTGATGGAGTTGCTTCACTATTTCCTCCGGATTTCAAAGACGGTTCTTCAGATAGCGATTCAAGTGCAATCTTGAATGACGAAAGCAACGCAGCAATTTCTTCATCTGGGGTTCTTCAAAATCACAACTTTTTGATGTCTCCTGGTTCTTCTTCCTTGAAGTTTAATTGTTCTGAATCGTCGTCATCACCGTCTTCTATGAGTAATTGCTTTCAGTTTCAGACGCAGTTTGTGAAGATGGAAGAGCATAATTTTCTTAGTGCTGATGAGACTTGTGATTTCTTCTCAGATGAACAACCACCAACGCTTCAATGTGTAGACGAAAATCAACAAATTGAGAAGGAAATCAAAGCTCCTATTTCTTGGGTGACAATGTCGTTGTTGCTTCTCTCATGGATTTAG
Protein sequence

>MsaT023774.1

MKRLGSSDSLGALMTICPTTEEESPRNNQVYGREFQSVMEGLDEEGCVDEPGQKKRRLSVDQVKALEKNFEVENKLEPDRKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLKANYDALKLNCENLQRDNETLLKEVKELKSRLQIQEENTTTESDVCVKEELITLQESENTASDETAILRSDSKDLNYDCFKNGDGVASLFPPDFKDGSSDSDSSAILNDESNAAISSSGVLQNHNFLMSPGSSSLKFNCSESSSSPSSMSNCFQFQTQFVKMEEHNFLSADETCDFFSDEQPPTLQCVDENQQIEKEIKAPISWVTMSLLLLSWI*