AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025664

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025664 MtrunA17_Chr5g0404271 93.333 285 12 4 1 283 1 280 7.25e-176 490
MsaG025664 MtrunA17_Chr4g0076821 36.604 265 130 7 63 289 74 338 3.52e-45 158
MsaG025664 MtrunA17_Chr1g0188441 40.625 192 88 5 102 289 9 178 2.53e-43 148
MsaG025664 MtrunA17_Chr5g0412501 39.901 203 90 5 102 289 78 263 1.28e-39 141
MsaG025664 MtrunA17_Chr3g0133181 42.000 200 90 5 102 289 80 265 2.67e-38 138
MsaG025664 MtrunA17_Chr7g0217231 38.424 203 98 8 100 289 86 274 1.47e-37 137
MsaG025664 MtrunA17_Chr5g0427051 38.235 204 108 6 102 289 58 259 4.74e-35 129
MsaG025664 MtrunA17_Chr2g0315941 35.146 239 122 7 68 289 37 259 1.16e-34 128
MsaG025664 MtrunA17_Chr8g0367691 33.755 237 128 7 70 289 35 259 2.00e-34 127
MsaG025664 MtrunA17_Chr6g0453231 37.500 200 99 6 102 289 91 276 1.57e-32 124
MsaG025664 MtrunA17_Chr8g0357721 28.834 163 79 3 111 273 14 139 1.65e-18 81.3
MsaG025664 MtrunA17_Chr8g0361671 52.113 71 25 2 95 163 57 120 8.29e-18 84.0
MsaG025664 MtrunA17_Chr8g0361671 39.286 84 47 2 236 315 271 354 3.92e-13 70.1
MsaG025664 MtrunA17_Chr3g0092371 54.839 62 28 0 94 155 12 73 9.01e-18 77.4
MsaG025664 MtrunA17_Chr6g0479901 62.000 50 18 1 102 150 19 68 6.43e-15 72.4
MsaG025664 MtrunA17_Chr6g0479901 50.000 54 25 2 236 287 101 154 1.85e-12 65.1
MsaG025664 MtrunA17_Chr4g0060731 51.613 62 25 2 94 154 17 74 1.07e-13 65.9
MsaG025664 MtrunA17_Chr6g0453221 57.143 49 17 1 102 150 21 65 1.63e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025664 AT2G18350.1 46.119 219 83 9 79 287 57 250 2.31e-48 164
MsaG025664 AT2G02540.2 31.613 310 149 10 39 324 33 303 3.88e-42 149
MsaG025664 AT2G02540.1 31.613 310 149 10 39 324 33 303 3.88e-42 149
MsaG025664 AT4G24660.2 41.146 192 84 7 98 287 45 209 1.88e-39 140
MsaG025664 AT4G24660.1 41.667 192 83 7 98 287 45 209 2.04e-39 139
MsaG025664 AT1G14440.1 39.000 200 97 6 100 289 88 272 2.56e-39 142
MsaG025664 AT1G14440.2 39.000 200 97 6 100 289 88 272 2.56e-39 142
MsaG025664 AT3G50890.1 35.772 246 132 7 45 287 11 233 9.41e-39 139
MsaG025664 AT1G69600.1 38.342 193 105 5 100 289 29 210 1.05e-36 133
MsaG025664 AT3G28920.1 34.043 235 138 5 99 324 49 275 3.99e-35 131
MsaG025664 AT5G65410.1 37.563 197 96 5 98 289 71 245 4.93e-35 130
MsaG025664 AT5G60480.1 35.859 198 84 7 100 287 35 199 2.84e-30 115
MsaG025664 AT5G15210.1 31.746 252 132 8 70 295 2 239 3.10e-30 117
MsaG025664 AT5G42780.1 29.224 219 127 7 76 287 34 231 4.38e-23 97.1
MsaG025664 AT1G75240.1 76.471 51 12 0 102 152 76 126 2.39e-22 96.3
MsaG025664 AT1G74660.2 53.448 58 27 0 98 155 35 92 1.91e-18 80.1
MsaG025664 AT1G74660.1 53.448 58 27 0 98 155 35 92 4.65e-18 79.0
MsaG025664 AT3G28917.1 54.098 61 27 1 96 155 27 87 9.95e-17 75.5
MsaG025664 AT1G14687.1 26.842 190 99 7 102 287 7 160 2.39e-15 73.6
MsaG025664 AT5G39760.1 43.529 85 41 3 236 319 200 278 4.42e-14 72.8
MsaG025664 AT1G18835.1 51.852 54 23 1 102 155 26 76 5.77e-14 67.4

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATGTCACAAACAACTTT+AGG 0.291725 5:+11220221 MsaT025664.1:CDS
CCTCGTTCTAGTTGGATGTT+TGG 0.293509 5:+11222402 MsaT025664.1:intron
GAGTTGGTCTTTGGTTATTA+TGG 0.304987 5:+11222575 MsaT025664.1:CDS
TTGTTGCTATGATGATAATT+AGG 0.318608 5:-11220710 None:intergenic
CTCGTTCTAGTTGGATGTTT+GGG 0.341604 5:+11222403 MsaT025664.1:intron
TTGGAACACGAGTTGGTCTT+TGG 0.345261 5:+11222566 MsaT025664.1:CDS
GGTTGGTGTGGTTTCTATAT+CGG 0.347583 5:+11222596 MsaT025664.1:CDS
TCTAGTTGGATGTTTGGGTT+AGG 0.350020 5:+11222408 MsaT025664.1:intron
CCGTCCATGATGATGACTTT+TGG 0.355768 5:+11220809 MsaT025664.1:CDS
GTTTGTTGTTTCAAATAAAC+AGG 0.356945 5:+11222463 MsaT025664.1:CDS
GAGGAGAGTTCTCCTTGCTT+TGG 0.365827 5:+11222547 MsaT025664.1:CDS
AGAGTTTCACAACCTAGTTC+TGG 0.368324 5:+11220776 MsaT025664.1:CDS
AAGATGGTGTTGGAAGATTA+AGG 0.396177 5:-11220742 None:intergenic
TAGTAGTAGTAGTATGGTTA+GGG 0.404916 5:-11220334 None:intergenic
GTTGTTGCAGCCGTTAGATC+TGG 0.406325 5:-11220416 None:intergenic
CGGTTGCTGCGGCGTTTGTA+TGG 0.409265 5:-11220888 None:intergenic
AGCCGTTAGATCTGGATCTA+TGG 0.437144 5:-11220408 None:intergenic
ATGGAGTTTGCTGAAAAGAT+TGG 0.437625 5:+11220965 MsaT025664.1:CDS
CATACAAACGCCGCAGCAAC+CGG 0.441402 5:+11220889 MsaT025664.1:CDS
CTAGTTGGATGTTTGGGTTA+GGG 0.444419 5:+11222409 MsaT025664.1:intron
GAGGAATACTATGTTGTTGT+TGG 0.445811 5:-11220667 None:intergenic
AGTGAAGATCTCAACATGTT+TGG 0.446843 5:+11220854 MsaT025664.1:CDS
ATGGGAAGCCACGTGGTAGA+TGG 0.447420 5:+11220548 MsaT025664.1:CDS
TGGTCTTTGGTTATTATGGT+TGG 0.450851 5:+11222579 MsaT025664.1:CDS
CGTACCCTCTTCTTCAAAAC+CGG 0.452130 5:-11220908 None:intergenic
CCTTGCTTTGGAACACGAGT+TGG 0.457931 5:+11222559 MsaT025664.1:CDS
CCTTGAGAGATCGCTTTCCT+AGG 0.460969 5:+11222438 MsaT025664.1:CDS
CGTGGTTTCTCAGACATTCT+CGG 0.464493 5:-11220517 None:intergenic
TCAAGTTGGTATCAAGAGAC+AGG 0.468371 5:+11221036 MsaT025664.1:CDS
GGGGTACCTTCTTCACCGCT+TGG 0.472411 5:-11220587 None:intergenic
ACTTGAGGTGGTGGTGGAGT+TGG 0.474110 5:-11220272 None:intergenic
GAGAAACCACGCGGCAAGCA+TGG 0.475746 5:+11220529 MsaT025664.1:CDS
CAGCACATTTGAAATATTGT+GGG 0.475954 5:-11220607 None:intergenic
GCAGCACATTTGAAATATTG+TGG 0.476946 5:-11220608 None:intergenic
TCTTCACTTGATGATTCAGC+TGG 0.479858 5:-11220839 None:intergenic
GTTGTTGTTGATGTTATTTG+TGG 0.484536 5:-11220482 None:intergenic
GTGTGAACTTGAGGTGGTGG+TGG 0.490980 5:-11220278 None:intergenic
GATGTTATTTGTGGTGGCTG+AGG 0.498463 5:-11220473 None:intergenic
TTCACAACCTAGTTCTGGAC+AGG 0.499932 5:+11220781 MsaT025664.1:CDS
TTCATGCCAAGCGGTGAAGA+AGG 0.514566 5:+11220581 MsaT025664.1:CDS
TAAGTGGATTGGCGACAAAT+CGG 0.520835 5:+11222508 MsaT025664.1:CDS
AGAGGAGGACAAATGGTCTT+CGG 0.523140 5:+11222620 MsaT025664.1:CDS
GTTGTTGATGTTATTTGTGG+TGG 0.524047 5:-11220479 None:intergenic
ATGGCAGGTCTTTGAGAAGA+AGG 0.530499 5:-11220389 None:intergenic
TGTGGTTTCTATATCGGTAG+AGG 0.536213 5:+11222602 MsaT025664.1:CDS
TATCGGTAGAGGAGGACAAA+TGG 0.538689 5:+11222613 MsaT025664.1:CDS
TTTGAAACAACAAACAACCT+AGG 0.546607 5:-11222455 None:intergenic
TTTGGTTATTATGGTTGGTG+TGG 0.547296 5:+11222584 MsaT025664.1:CDS
TGGAGTTTGCTGAAAAGATT+GGG 0.549528 5:+11220966 MsaT025664.1:CDS
AGAAACCACGCGGCAAGCAT+GGG 0.549901 5:+11220530 MsaT025664.1:CDS
GGTGGAACCTGTCCAGAACT+AGG 0.552234 5:-11220788 None:intergenic
GTTAGATCTGGATCTATGGC+AGG 0.560001 5:-11220404 None:intergenic
GAAGGTGCAAGATGTGGTGG+TGG 0.572439 5:-11220371 None:intergenic
CCTAGGAAAGCGATCTCTCA+AGG 0.572718 5:-11222438 None:intergenic
TGCCATAGATCCAGATCTAA+CGG 0.573982 5:+11220406 MsaT025664.1:CDS
TGATCCAAAAGTCATCATCA+TGG 0.575663 5:-11220813 None:intergenic
TTCTTCAAAACCGGTTGCTG+CGG 0.576173 5:-11220899 None:intergenic
TGAGATGACGAAGATGGTGT+TGG 0.582966 5:-11220752 None:intergenic
AATGTGTGAACTTGAGGTGG+TGG 0.602598 5:-11220281 None:intergenic
CCAACTCGTGTTCCAAAGCA+AGG 0.613235 5:-11222559 None:intergenic
AAGACTAATGTGTGAACTTG+AGG 0.616691 5:-11220287 None:intergenic
CCAAAAGTCATCATCATGGA+CGG 0.622115 5:-11220809 None:intergenic
AGCCACGTGGTAGATGGATG+TGG 0.625991 5:+11220554 MsaT025664.1:CDS
GGCTTCCCATGCTTGCCGCG+TGG 0.643184 5:-11220535 None:intergenic
ACTCTTTGAGATGACGAAGA+TGG 0.644785 5:-11220758 None:intergenic
GAAGAAGGTGCAAGATGTGG+TGG 0.651537 5:-11220374 None:intergenic
AGCACATTTGAAATATTGTG+GGG 0.654466 5:-11220606 None:intergenic
GGTTTCTATATCGGTAGAGG+AGG 0.660186 5:+11222605 MsaT025664.1:CDS
ACATGCTGAACATGTTGTTG+AGG 0.672696 5:-11220686 None:intergenic
AGTTTGCTGAAAAGATTGGG+TGG 0.678186 5:+11220969 MsaT025664.1:CDS
AAAGTCATCATCATGGACGG+TGG 0.680716 5:-11220806 None:intergenic
TGAGAAGAAGGTGCAAGATG+TGG 0.685772 5:-11220377 None:intergenic
CGGTTTCAGAGTTTACGCAG+AGG 0.694971 5:+11222528 MsaT025664.1:CDS
GGCAAGCATGGGAAGCCACG+TGG 0.697743 5:+11220541 MsaT025664.1:CDS
ACTAATGTGTGAACTTGAGG+TGG 0.703165 5:-11220284 None:intergenic
CACCACATCCATCTACCACG+TGG 0.722647 5:-11220556 None:intergenic
TATCATCATAGCAACAACAA+CGG 0.730770 5:+11220716 MsaT025664.1:CDS
TGTGGTGAATTCATGCCAAG+CGG 0.769326 5:+11220572 MsaT025664.1:CDS
AGAATGTCTGAGAAACCACG+CGG 0.882510 5:+11220520 MsaT025664.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 11220212 11222649 11220212 ID=MsaG025664
Chr5 mRNA 11220212 11222649 11220212 ID=MsaT025664.1;Parent=MsaG025664
Chr5 exon 11220212 11221057 11220212 ID=MsaT025664.1.exon1;Parent=MsaT025664.1
Chr5 CDS 11220212 11221057 11220212 ID=cds.MsaT025664.1;Parent=MsaT025664.1
Chr5 exon 11222413 11222649 11222413 ID=MsaT025664.1.exon2;Parent=MsaT025664.1
Chr5 CDS 11222413 11222649 11222413 ID=cds.MsaT025664.1;Parent=MsaT025664.1
Gene Sequence

>MsaT025664.1

ATGGAAACAAAGATGTCACAAACAACTTTAGGTTACAATAGAGATTCTTCTTCTTCTTCACCAACTCCACCACCACCTCAAGTTCACACATTAGTCTTCAATAACCCACCTCAAAATTCACACCCTAACCATACTACTACTACTACTACTAATCTTTATCCACCACCACATCTTGCACCTTCTTCTCAAAGACCTGCCATAGATCCAGATCTAACGGCTGCAACAACAACAACAACAAACACTTCTACAATAACAACACAACCTCAGCCACCACAAATAACATCAACAACAACAAAAATATGTTACCGAGAATGTCTGAGAAACCACGCGGCAAGCATGGGAAGCCACGTGGTAGATGGATGTGGTGAATTCATGCCAAGCGGTGAAGAAGGTACCCCACAATATTTCAAATGTGCTGCTTGTGATTGTCACCGTAATTTCCATCGAAAACATATCCAACAACAACATAGTATTCCTCAACAACATGTTCAGCATGTTCCTAATTATCATCATAGCAACAACAACGGTCACCTTAATCTTCCAACACCATCTTCGTCATCTCAAAGAGTTTCACAACCTAGTTCTGGACAGGTTCCACCGTCCATGATGATGACTTTTGGATCAGTTCCAGCTGAATCATCAAGTGAAGATCTCAACATGTTTGGTGCACAATTTTCCATACAAACGCCGCAGCAACCGGTTTTGAAGAAGAGGGTACGGACGAAATTCTCACAGCAACAAAAAGATAGGATGATGGAGTTTGCTGAAAAGATTGGGTGGAAGATTCAGAAACATGATGAACAAGAAGTGCAACAGTTTTGTTCTCAAGTTGGTATCAAGAGACAGTTGGATGTTTGGGTTAGGGATCTTGCCTTGAGAGATCGCTTTCCTAGGTTGTTTGTTGTTTCAAATAAACAGGAGACAGTTGTGAGAAATTTTGATAAGTGGATTGGCGACAAATCGGTTTCAGAGTTTACGCAGAGGAGAGTTCTCCTTGCTTTGGAACACGAGTTGGTCTTTGGTTATTATGGTTGGTGTGGTTTCTATATCGGTAGAGGAGGACAAATGGTCTTCGGTGAATGA
Protein sequence

>MsaT025664.1

METKMSQTTLGYNRDSSSSSPTPPPPQVHTLVFNNPPQNSHPNHTTTTTTNLYPPPHLAPSSQRPAIDPDLTAATTTTTNTSTITTQPQPPQITSTTTKICYRECLRNHAASMGSHVVDGCGEFMPSGEEGTPQYFKCAACDCHRNFHRKHIQQQHSIPQQHVQHVPNYHHSNNNGHLNLPTPSSSSQRVSQPSSGQVPPSMMMTFGSVPAESSSEDLNMFGAQFSIQTPQQPVLKKRVRTKFSQQQKDRMMEFAEKIGWKIQKHDEQEVQQFCSQVGIKRQLDVWVRDLALRDRFPRLFVVSNKQETVVRNFDKWIGDKSVSEFTQRRVLLALEHELVFGYYGWCGFYIGRGGQMVFGE*