AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026425

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026425 MtrunA17_Chr5g0415191 96.226 318 8 2 1 318 1 314 0.0 617
MsaG026425 MtrunA17_Chr4g0055931 48.309 207 65 5 3 190 1 184 2.10e-55 182
MsaG026425 MtrunA17_Chr2g0331031 48.095 210 60 6 3 185 1 188 1.38e-52 176
MsaG026425 MtrunA17_Chr4g0059701 54.680 203 56 7 24 211 8 189 5.80e-48 162
MsaG026425 MtrunA17_Chr6g0488471 50.000 168 78 3 3 170 1 162 2.99e-45 155
MsaG026425 MtrunA17_Chr8g0389241 40.566 212 81 8 5 190 4 196 6.77e-39 138
MsaG026425 MtrunA17_Chr3g0092621 74.118 85 19 2 105 187 84 167 4.14e-36 128
MsaG026425 MtrunA17_Chr3g0104071 68.966 87 25 1 94 178 134 220 4.44e-34 127
MsaG026425 MtrunA17_Chr4g0062741 72.603 73 20 0 99 171 132 204 2.69e-33 124
MsaG026425 MtrunA17_Chr1g0162081 71.233 73 21 0 99 171 116 188 1.39e-32 122
MsaG026425 MtrunA17_Chr5g0429521 70.513 78 23 0 99 176 126 203 1.66e-32 122
MsaG026425 MtrunA17_Chr3g0135671 40.678 177 78 5 1 169 1 158 8.89e-32 118
MsaG026425 MtrunA17_Chr7g0241761 67.949 78 25 0 99 176 134 211 4.21e-31 119
MsaG026425 MtrunA17_Chr1g0210471 68.421 76 24 0 96 171 115 190 8.88e-31 116
MsaG026425 MtrunA17_Chr5g0436501 50.847 118 53 2 92 207 112 226 9.30e-30 114
MsaG026425 MtrunA17_Chr6g0452791 58.537 82 24 1 105 186 80 151 3.72e-25 99.4
MsaG026425 MtrunA17_Chr5g0440731 40.385 104 56 2 99 196 99 202 4.69e-20 88.6
MsaG026425 MtrunA17_Chr5g0409841 50.617 81 34 2 98 172 81 161 9.65e-20 86.3
MsaG026425 MtrunA17_Chr5g0440741 35.032 157 90 6 107 255 102 254 1.67e-19 87.0
MsaG026425 MtrunA17_Chr5g0409831 65.455 55 19 0 98 152 70 124 1.54e-18 82.8
MsaG026425 MtrunA17_Chr8g0365011 47.436 78 27 2 107 170 94 171 6.87e-16 76.6
MsaG026425 MtrunA17_Chr8g0364731 61.017 59 21 1 114 170 10 68 9.76e-16 74.3
MsaG026425 MtrunA17_Chr5g0432921 45.455 77 39 2 97 171 105 180 6.27e-13 67.0
MsaG026425 MtrunA17_Chr1g0192061 48.571 70 32 2 107 173 63 131 1.03e-12 65.9
MsaG026425 MtrunA17_Chr5g0432941 49.254 67 31 2 107 171 115 180 3.06e-12 65.1
MsaG026425 MtrunA17_Chr3g0113121 45.833 72 32 1 107 171 97 168 6.27e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026425 AT1G70000.1 48.632 329 88 12 3 318 1 261 1.13e-73 228
MsaG026425 AT1G70000.2 48.632 329 88 12 3 318 1 261 1.13e-73 228
MsaG026425 AT5G47390.1 51.872 187 53 3 3 174 1 165 1.18e-55 185
MsaG026425 AT5G61620.1 45.652 184 82 5 1 176 6 179 2.83e-46 159
MsaG026425 AT3G16350.1 42.358 229 74 4 3 185 1 217 3.27e-44 155
MsaG026425 AT1G74840.2 52.551 196 55 5 20 199 15 188 7.39e-43 148
MsaG026425 AT1G74840.1 55.000 180 45 4 20 185 15 172 1.28e-42 148
MsaG026425 AT5G56840.1 46.369 179 82 6 3 179 1 167 1.36e-42 147
MsaG026425 AT1G19000.2 51.515 198 52 6 20 195 13 188 3.32e-42 147
MsaG026425 AT1G19000.1 51.515 198 52 6 20 195 13 188 3.32e-42 147
MsaG026425 AT5G58900.1 64.773 88 29 1 95 180 129 216 1.88e-33 125
MsaG026425 AT1G49010.1 73.973 73 19 0 99 171 128 200 3.53e-33 124
MsaG026425 AT5G08520.1 69.863 73 22 0 99 171 112 184 8.77e-32 120
MsaG026425 AT2G38090.1 69.333 75 23 0 100 174 136 210 1.04e-31 120
MsaG026425 AT5G04760.1 73.611 72 19 0 100 171 94 165 3.21e-31 117
MsaG026425 AT5G01200.1 67.123 73 24 0 99 171 140 212 1.48e-29 114
MsaG026425 AT3G11280.2 60.976 82 32 0 94 175 116 197 1.48e-28 111
MsaG026425 AT3G11280.1 60.976 82 32 0 94 175 116 197 1.48e-28 111
MsaG026425 AT5G05790.2 59.756 82 33 0 94 175 120 201 1.04e-27 109
MsaG026425 AT5G05790.1 59.756 82 33 0 94 175 120 201 1.04e-27 109
MsaG026425 AT5G23650.1 56.579 76 33 0 95 170 110 185 5.24e-22 95.1
MsaG026425 AT3G10580.2 57.143 70 28 1 101 170 91 158 1.25e-21 92.4
MsaG026425 AT4G09450.1 51.685 89 39 2 86 170 68 156 2.13e-21 90.5
MsaG026425 AT3G10580.1 57.143 70 28 1 101 170 91 158 2.17e-21 92.4
MsaG026425 AT3G10590.1 50.617 81 37 2 95 173 99 178 7.01e-19 84.0

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCATTGGTGTTGGCCTAAT+TGG 0.245624 5:+21712238 None:intergenic
GTGGTGGTGGTGGAGGTGTT+GGG 0.249956 5:+21713758 None:intergenic
GGTGGTGGTGGTGGAGGTGT+TGG 0.254614 5:+21713757 None:intergenic
ATCTCCGGCGGCGGCGGTTC+TGG 0.294270 5:+21713337 None:intergenic
GACGAATGGCTGCTACTTTC+CGG 0.303324 5:+21712094 None:intergenic
CTGACCTCGTTTGCGTTCTC+TGG 0.320215 5:+21713592 None:intergenic
TGGTGGTGGTGGAGGTGTTG+GGG 0.324638 5:+21713759 None:intergenic
GCATATCCATCTTCACATTA+TGG 0.334586 5:-21712340 MsaT026425.1:CDS
TGGTGGTGGAGGTGTTGGGG+TGG 0.360044 5:+21713762 None:intergenic
GATGGAACCTTCAACTATAA+TGG 0.360343 5:-21712419 MsaT026425.1:CDS
CTAGAAACTTTGTGAAAACT+AGG 0.361627 5:-21713413 MsaT026425.1:CDS
ATTGTTATTGGTGGTGGTGG+TGG 0.365994 5:+21713736 None:intergenic
AAAGAGTGGCCAAGCCAATT+AGG 0.366908 5:-21712252 MsaT026425.1:CDS
CTCATTACCGGCAATGTTAC+CGG 0.380041 5:+21712280 None:intergenic
TCACATTATGGCGGCATCCC+TGG 0.390624 5:-21712328 MsaT026425.1:CDS
GACTGGATCTCCGGCGGCGG+CGG 0.396452 5:+21713331 None:intergenic
ACTCTTTCAGCACTCATTAC+CGG 0.403021 5:+21712268 None:intergenic
GTCATTGAAGCTGCAACCTT+CGG 0.407621 5:-21712137 MsaT026425.1:CDS
AGGATTGTTATTGGTGGTGG+TGG 0.412317 5:+21713733 None:intergenic
GTTCTTGCTGGGGTTGCAAC+AGG 0.415423 5:-21713463 MsaT026425.1:CDS
AGAACACAAGTTGTTCTTGC+TGG 0.422978 5:-21713475 MsaT026425.1:CDS
TCATCTTCCATTATAGTTGA+AGG 0.430302 5:+21712412 None:intergenic
TCTTGGTCCGGTAACATTGC+CGG 0.432456 5:-21712287 MsaT026425.1:CDS
GTTGGGGTGGTTGTTTCCTC+CGG 0.439255 5:+21713775 None:intergenic
CACATTATGGCGGCATCCCT+GGG 0.451781 5:-21712327 MsaT026425.1:CDS
GAACACAAGTTGTTCTTGCT+GGG 0.453529 5:-21713474 MsaT026425.1:CDS
AACAGGTTGGTAAAGGTGAT+TGG 0.456244 5:-21713446 MsaT026425.1:CDS
ATGGCTGCAGGGAAGTATAA+TGG 0.461919 5:-21712040 MsaT026425.1:CDS
ATAACCGGCATCCGCAGGAT+TGG 0.473663 5:+21713649 None:intergenic
CCCATCGGAAAAGGTGTCCC+AGG 0.480895 5:+21712310 None:intergenic
GATGTCATCGGATACATAAC+CGG 0.484684 5:+21713634 None:intergenic
GAAAGGATTGTTATTGGTGG+TGG 0.486611 5:+21713730 None:intergenic
TCTGAAAGGATTGTTATTGG+TGG 0.500851 5:+21713727 None:intergenic
AGATTAGCCATCTTAGAAGA+AGG 0.500963 5:+21712211 None:intergenic
TGGTGTTGGCCTAATTGGCT+TGG 0.501496 5:+21712243 None:intergenic
TGGTTGATGAAGGTGTTCCT+TGG 0.504873 5:-21713506 MsaT026425.1:intron
GATGACATCGTTCACGCCTC+TGG 0.506341 5:-21713620 MsaT026425.1:CDS
AGCTTCAATGACAATGGAAA+AGG 0.506440 5:+21712148 None:intergenic
GATACATAACCGGCATCCGC+AGG 0.507578 5:+21713644 None:intergenic
GATTCCAATCCTGCGGATGC+CGG 0.518329 5:-21713653 MsaT026425.1:CDS
TGTGAAGATGGATATGCGGC+GGG 0.518568 5:+21712346 None:intergenic
GGACCAAGACCCATCGGAAA+AGG 0.520312 5:+21712301 None:intergenic
GCTGCCTCCTTCTTCTAAGA+TGG 0.520621 5:-21712218 MsaT026425.1:CDS
TAGCAGCCATTCGTCGTCAT+CGG 0.522877 5:-21712086 MsaT026425.1:CDS
GGTGGTAATATCAAAGAGAC+TGG 0.526759 5:+21713314 None:intergenic
TTAGAAGAAGGAGGCAGCAT+TGG 0.530338 5:+21712223 None:intergenic
TTGCTGGGGTTGCAACAGGT+TGG 0.532980 5:-21713459 MsaT026425.1:CDS
GGGTTGCAACAGGTTGGTAA+AGG 0.541687 5:-21713453 MsaT026425.1:CDS
AGAGACTGGATCTCCGGCGG+CGG 0.543258 5:+21713328 None:intergenic
TTGTGTTCTTCCTCTGTCCA+AGG 0.544021 5:+21713489 None:intergenic
GCAGGGAAGTATAATGGTGG+GGG 0.547007 5:-21712034 MsaT026425.1:CDS
ATAACCAGAACCGCCGCCGC+CGG 0.548822 5:-21713341 MsaT026425.1:CDS
TATCAAAGAGACTGGATCTC+CGG 0.548838 5:+21713322 None:intergenic
GTGGTTGTTCATATTGAGAG+AGG 0.549802 5:+21713684 None:intergenic
CTTTGATATTACCACCGATA+CGG 0.550867 5:-21713307 MsaT026425.1:intron
TTGTTCATATTGAGAGAGGT+TGG 0.557080 5:+21713688 None:intergenic
ATGCCGCCATAATGTGAAGA+TGG 0.557994 5:+21712334 None:intergenic
GCTGCAACCTTCGGTTCCAT+CGG 0.562274 5:-21712128 MsaT026425.1:CDS
ATTATACTTCCCTGCAGCCA+TGG 0.565515 5:+21712042 None:intergenic
AAGAACAAATATTACCGTAT+CGG 0.565553 5:+21713293 None:intergenic
TCCGGTGAATGATCTTCCGA+TGG 0.572768 5:+21712112 None:intergenic
GGATTGGAATCTTGTGGAGG+TGG 0.576239 5:+21713665 None:intergenic
GAAGGAGGCAGCATTGGTGT+TGG 0.579116 5:+21712229 None:intergenic
CTGCAGGGAAGTATAATGGT+GGG 0.579931 5:-21712036 MsaT026425.1:CDS
TGCAGGGAAGTATAATGGTG+GGG 0.579949 5:-21712035 MsaT026425.1:CDS
GGCGGCGGTTCTGGTTATGA+CGG 0.580334 5:+21713346 None:intergenic
GCATGACTTGCAACCTGAGT+TGG 0.584887 5:+21713387 None:intergenic
TGAAGATGGATATGCGGCGG+GGG 0.585757 5:+21712348 None:intergenic
TGACAATGGAAAAGGCTCGA+TGG 0.586187 5:+21712156 None:intergenic
TGATCTTCCGATGGAACCGA+AGG 0.587262 5:+21712121 None:intergenic
TGCTCACAGTGCGGCAACAA+CGG 0.587587 5:-21713866 MsaT026425.1:CDS
AACAAATATTACCGTATCGG+TGG 0.590836 5:+21713296 None:intergenic
GAAAACTAGGACACCAACTC+AGG 0.594289 5:-21713400 MsaT026425.1:CDS
TCCGCAGGATTGGAATCTTG+TGG 0.604367 5:+21713659 None:intergenic
GGTTGCAGCTTCAATGACAA+TGG 0.610541 5:+21712142 None:intergenic
AACACAAGTTGTTCTTGCTG+GGG 0.614508 5:-21713473 MsaT026425.1:CDS
GCGTTCTCTGGATCGACCAG+AGG 0.617091 5:+21713604 None:intergenic
ATGAAGCCGATGACGACGAA+TGG 0.619919 5:+21712080 None:intergenic
TGAAGGTGTTCCTTGGACAG+AGG 0.622183 5:-21713499 MsaT026425.1:intron
GGTTCTGGTTATGACGGCGG+AGG 0.625551 5:+21713352 None:intergenic
ATGTGAAGATGGATATGCGG+CGG 0.625832 5:+21712345 None:intergenic
AGAGGCGTGAACGATGTCAT+CGG 0.629917 5:+21713622 None:intergenic
AACTCAAGAACATGCAACGA+CGG 0.632099 5:-21713839 MsaT026425.1:CDS
TCCATCGGAAGATCATTCAC+CGG 0.635009 5:-21712113 MsaT026425.1:CDS
GTTACCGGACCAAGACCCAT+CGG 0.636658 5:+21712295 None:intergenic
TCCACAAGATTCCAATCCTG+CGG 0.638266 5:-21713660 MsaT026425.1:CDS
TTTGGTGTTCGACTCACCGG+AGG 0.638984 5:-21713791 MsaT026425.1:CDS
CCATCGGAAAAGGTGTCCCA+GGG 0.645708 5:+21712311 None:intergenic
GCTGCAGGGAAGTATAATGG+TGG 0.654189 5:-21712037 MsaT026425.1:CDS
GGTAATGAGTGCTGAAAGAG+TGG 0.656043 5:-21712266 MsaT026425.1:CDS
CGATCCAGAGAACGCAAACG+AGG 0.663587 5:-21713596 MsaT026425.1:intron
GTTGGTAAAGGTGATTGGAG+AGG 0.666734 5:-21713441 MsaT026425.1:CDS
TTAGCCATCTTAGAAGAAGG+AGG 0.666938 5:+21712214 None:intergenic
TCAAGAACATGCAACGACGG+TGG 0.667120 5:-21713836 MsaT026425.1:CDS
GGCGGTTCTGGTTATGACGG+CGG 0.676927 5:+21713349 None:intergenic
GCAGGATTGGAATCTTGTGG+AGG 0.677572 5:+21713662 None:intergenic
CAAAGAGACTGGATCTCCGG+CGG 0.680570 5:+21713325 None:intergenic
TCTCGCACGTGCTCACAGTG+CGG 0.694033 5:-21713875 MsaT026425.1:CDS
TATCCATCTTCACATTATGG+CGG 0.696782 5:-21712337 MsaT026425.1:CDS
TCAATTTCAGCAAGAAACAG+TGG 0.701868 5:-21712389 MsaT026425.1:CDS
ATAATGTGAAGATGGATATG+CGG 0.713042 5:+21712342 None:intergenic
GTGAAGATGGATATGCGGCG+GGG 0.716036 5:+21712347 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 21712006 21713906 21712006 ID=MsaG026425
Chr5 mRNA 21712006 21713906 21712006 ID=MsaT026425.1;Parent=MsaG026425
Chr5 exon 21712006 21712443 21712006 ID=MsaT026425.1.exon3;Parent=MsaT026425.1
Chr5 CDS 21712006 21712443 21712006 ID=cds.MsaT026425.1;Parent=MsaT026425.1
Chr5 exon 21713308 21713516 21713308 ID=MsaT026425.1.exon2;Parent=MsaT026425.1
Chr5 CDS 21713308 21713516 21713308 ID=cds.MsaT026425.1;Parent=MsaT026425.1
Chr5 exon 21713597 21713906 21713597 ID=MsaT026425.1.exon1;Parent=MsaT026425.1
Chr5 CDS 21713597 21713906 21713597 ID=cds.MsaT026425.1;Parent=MsaT026425.1
Gene Sequence

>MsaT026425.1

ATGTCTTTGTCTCGCACGTGCTCACAGTGCGGCAACAACGGACACAACTCAAGAACATGCAACGACGGTGGAGAAGAAAAAAGCATCATGATTTTTGGTGTTCGACTCACCGGAGGAAACAACCACCCCAACACCTCCACCACCACCACCACCACCACCACCAATAACAATCCTTTCAGAAAAAGTGCTAGCATGACCAACCTCTCTCAATATGAACAACCACCTCCACAAGATTCCAATCCTGCGGATGCCGGTTATGTATCCGATGACATCGTTCACGCCTCTGGTCGATCCAGAGAACGCAAACGAGGTGTTCCTTGGACAGAGGAAGAACACAAGTTGTTCTTGCTGGGGTTGCAACAGGTTGGTAAAGGTGATTGGAGAGGAATTTCTAGAAACTTTGTGAAAACTAGGACACCAACTCAGGTTGCAAGTCATGCTCAGAAGTATTTCCTCCGCCGTCATAACCAGAACCGCCGCCGCCGGAGATCCAGTCTCTTTGATATTACCACCGATACGGTGATGGAACCTTCAACTATAATGGAAGATGATCAATTTCAGCAAGAAACAGTGGCGCCACTGCCACCACCAACCCCCGCCGCATATCCATCTTCACATTATGGCGGCATCCCTGGGACACCTTTTCCGATGGGTCTTGGTCCGGTAACATTGCCGGTAATGAGTGCTGAAAGAGTGGCCAAGCCAATTAGGCCAACACCAATGCTGCCTCCTTCTTCTAAGATGGCTAATCTGAACTTGAAAGACAAAGCTGCTTCTTCTTCTTCCATCGAGCCTTTTCCATTGTCATTGAAGCTGCAACCTTCGGTTCCATCGGAAGATCATTCACCGGAAAGTAGCAGCCATTCGTCGTCATCGGCTTCATCATCGCCTTTTAAAACCATGGCTGCAGGGAAGTATAATGGTGGGGGTGGGGATAGCATTATCAGTGTTGCTTGA
Protein sequence

>MsaT026425.1

MSLSRTCSQCGNNGHNSRTCNDGGEEKSIMIFGVRLTGGNNHPNTSTTTTTTTTNNNPFRKSASMTNLSQYEQPPPQDSNPADAGYVSDDIVHASGRSRERKRGVPWTEEEHKLFLLGLQQVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRHNQNRRRRRSSLFDITTDTVMEPSTIMEDDQFQQETVAPLPPPTPAAYPSSHYGGIPGTPFPMGLGPVTLPVMSAERVAKPIRPTPMLPPSSKMANLNLKDKAASSSSIEPFPLSLKLQPSVPSEDHSPESSSHSSSSASSSPFKTMAAGKYNGGGGDSIISVA*