AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004673

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004673 MtrunA17_Chr1g0199671 99.094 331 3 0 1 331 1 331 0.0 675
MsaG004673 MtrunA17_Chr1g0213161 55.814 258 78 10 74 329 10 233 2.75e-74 229
MsaG004673 MtrunA17_Chr2g0326771 46.774 186 70 6 121 306 124 280 4.00e-43 150
MsaG004673 MtrunA17_Chr1g0146231 34.783 322 133 11 9 306 30 298 3.66e-38 139
MsaG004673 MtrunA17_Chr3g0140331 34.228 298 134 8 17 306 74 317 1.56e-36 135
MsaG004673 MtrunA17_Chr4g0028961 64.894 94 28 1 238 331 228 316 8.70e-36 132
MsaG004673 MtrunA17_Chr7g0253101 35.938 256 129 6 58 306 25 252 3.00e-35 129
MsaG004673 MtrunA17_Chr4g0035891 57.692 104 33 2 203 306 183 275 1.42e-34 128
MsaG004673 MtrunA17_Chr6g0461591 36.015 261 122 9 67 308 24 258 1.56e-34 127
MsaG004673 MtrunA17_Chr5g0404981 35.766 274 121 10 48 308 135 366 7.53e-34 128
MsaG004673 MtrunA17_Chr3g0145121 72.603 73 19 1 234 306 208 279 3.85e-33 124
MsaG004673 MtrunA17_Chr8g0340401 81.538 65 12 0 242 306 226 290 7.35e-33 124
MsaG004673 MtrunA17_Chr8g0372291 62.366 93 26 3 216 308 201 284 1.53e-31 119
MsaG004673 MtrunA17_Chr1g0169431 80.000 65 13 0 242 306 172 236 1.66e-31 118
MsaG004673 MtrunA17_Chr5g0395391 55.238 105 45 2 203 306 231 334 2.20e-31 120
MsaG004673 MtrunA17_Chr5g0395391 54.000 100 44 2 207 305 133 231 2.67e-28 112
MsaG004673 MtrunA17_Chr7g0232671 61.290 62 24 0 242 303 187 248 1.09e-20 89.7
MsaG004673 MtrunA17_Chr7g0232701 58.065 62 26 0 242 303 73 134 1.88e-19 83.2
MsaG004673 MtrunA17_Chr7g0232681 36.567 134 65 2 175 303 75 193 6.17e-19 83.6
MsaG004673 MtrunA17_Chr7g0267351 55.844 77 33 1 177 253 36 111 5.69e-17 75.9
MsaG004673 MtrunA17_Chr5g0404131 52.083 48 23 0 227 274 177 224 1.66e-11 64.3
MsaG004673 MtrunA17_Chr7g0271861 67.647 34 11 0 244 277 24 57 9.23e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004673 AT1G08010.2 40.254 236 111 5 85 318 89 296 2.97e-42 149
MsaG004673 AT1G08010.1 40.254 236 111 5 85 318 89 296 2.97e-42 149
MsaG004673 AT1G08010.3 40.254 236 111 5 85 318 89 296 2.97e-42 149
MsaG004673 AT3G54810.1 71.875 96 20 2 240 328 227 322 3.17e-42 149
MsaG004673 AT3G54810.2 71.875 96 20 2 240 328 227 322 3.17e-42 149
MsaG004673 AT5G25830.1 40.249 241 113 8 67 306 73 283 7.02e-38 138
MsaG004673 AT1G08000.2 42.051 195 88 3 115 309 116 285 3.09e-37 135
MsaG004673 AT1G08000.1 42.051 195 88 3 115 309 116 285 3.09e-37 135
MsaG004673 AT4G32890.1 34.641 306 120 12 17 306 20 261 7.68e-37 134
MsaG004673 AT5G66320.2 38.636 264 123 9 55 315 95 322 2.57e-36 134
MsaG004673 AT5G66320.1 38.636 264 123 9 55 315 95 322 2.57e-36 134
MsaG004673 AT3G24050.1 78.462 65 14 0 242 306 194 258 1.06e-31 120
MsaG004673 AT3G51080.1 71.053 76 21 1 242 317 221 295 1.12e-31 121
MsaG004673 AT4G36240.1 54.545 99 43 1 208 306 132 228 3.15e-31 118
MsaG004673 AT3G60530.1 74.242 66 17 0 241 306 157 222 1.00e-30 116
MsaG004673 AT2G28340.1 65.333 75 26 0 244 318 193 267 1.33e-30 117
MsaG004673 AT2G45050.1 72.727 66 18 0 241 306 178 243 3.28e-30 115
MsaG004673 AT4G34680.1 63.158 76 28 0 242 317 180 255 5.89e-29 112
MsaG004673 AT4G34680.2 63.158 76 28 0 242 317 180 255 5.89e-29 112
MsaG004673 AT3G45170.1 40.000 140 79 3 168 306 44 179 4.78e-28 108
MsaG004673 AT5G26930.1 54.545 44 18 1 234 277 20 61 4.93e-11 59.7

Find 106 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGCAGCAGGCCGGTATTC+GGG 0.281895 1:-72515699 None:intergenic
ACAACTCGTTGGCGAGTATC+TGG 0.294745 1:+72513207 MsaT004673.1:CDS
AAATGAATCGTCCACAATAT+TGG 0.301923 1:-72515106 None:intergenic
GTTCGAAGATCTTCTTTCAT+TGG 0.321117 1:+72515074 MsaT004673.1:intron
CTGCTTTCAAGGACAGAAAT+AGG 0.322926 1:-72515225 None:intergenic
GTCTCTCCAGAAGAGAGCTT+TGG 0.342561 1:-72515483 None:intergenic
CAATGCATGCATTTCCTAAC+AGG 0.350621 1:-72515579 None:intergenic
CGTCCGCAAGGCACCGGAAT+GGG 0.362306 1:-72515288 None:intergenic
ACTAGCAGCAGGCCGGTATT+CGG 0.363594 1:-72515700 None:intergenic
TCTCTACTCACCGGATCAAC+GGG 0.368770 1:-72513290 None:intergenic
GGCTGTGGGGCGTGGACGCT+TGG 0.384746 1:-72515319 None:intergenic
AAGGCGAGAACATTGGTGTT+TGG 0.385415 1:-72515819 None:intergenic
TATCCTTGCATCTCATTTCA+AGG 0.385918 1:-72515767 None:intergenic
CAATGGAGGGCAGGTCCAAT+GGG 0.390212 1:+72515621 MsaT004673.1:CDS
AGCAGGAACTACTGCTTTCA+AGG 0.398558 1:-72515236 None:intergenic
GCACTCCAATTCGCACAAAA+AGG 0.399415 1:+72515743 MsaT004673.1:CDS
ACAATGGAGGGCAGGTCCAA+TGG 0.404651 1:+72515620 MsaT004673.1:CDS
CCTTGGAATACAACATTTGA+AGG 0.412271 1:+72515838 MsaT004673.1:CDS
TTGGTTTCTTGACAATAATC+CGG 0.416836 1:-72515464 None:intergenic
GGGTTGAAGGCTGTGGGGCG+TGG 0.418136 1:-72515327 None:intergenic
TGCCCTCCATTGTGGAGTCT+TGG 0.422561 1:-72515610 None:intergenic
AAGAAACCAAAGCTCTCTTC+TGG 0.429167 1:+72515477 MsaT004673.1:CDS
CCCTACTTCCTCTTCTGTTG+AGG 0.447338 1:+72515374 MsaT004673.1:CDS
TTCTGTTCGCCACTGTCAGC+TGG 0.447903 1:-72515546 None:intergenic
AGAATGGTTCACTACCTGTT+AGG 0.449879 1:+72515565 MsaT004673.1:CDS
GCTGTCAGCAAGGAGGACTC+TGG 0.452116 1:+72515177 MsaT004673.1:CDS
ATCTGAAGAAAGCGCCTTGG+TGG 0.456913 1:-72515421 None:intergenic
TGCGAATTGGAGTGCACAGC+TGG 0.458877 1:-72515735 None:intergenic
GGCGGAGCTCCCCGTTGATC+CGG 0.465097 1:+72513280 MsaT004673.1:CDS
TGGTTTCTTGACAATAATCC+GGG 0.466726 1:-72515463 None:intergenic
TGCTCTGGTGGAAAGACCAC+AGG 0.471537 1:+72515255 MsaT004673.1:CDS
TGCGGTGTACGCTACAAGTC+GGG 0.473402 1:+72515666 MsaT004673.1:CDS
GCGGTGTCAACGTCGTCGAC+GGG 0.476293 1:-72513152 None:intergenic
CCTTCAAATGTTGTATTCCA+AGG 0.482354 1:-72515838 None:intergenic
AGCGGTGTCAACGTCGTCGA+CGG 0.482359 1:-72513153 None:intergenic
GTTGTAGTTTGCCGCGGAGG+AGG 0.484221 1:-72513189 None:intergenic
GCCGACTATTCCCCGAATAC+CGG 0.484840 1:+72515688 MsaT004673.1:CDS
CTCTCTACTCACCGGATCAA+CGG 0.485631 1:-72513291 None:intergenic
AGATCTTCTTTCATTGGAGT+GGG 0.485791 1:+72515080 MsaT004673.1:CDS
AAGATCTTCTTTCATTGGAG+TGG 0.486353 1:+72515079 MsaT004673.1:CDS
CCTCAACAGAAGAGGAAGTA+GGG 0.487341 1:-72515374 None:intergenic
AGAACGAGGGTTGAAGGCTG+TGG 0.494477 1:-72515334 None:intergenic
AAACACCAATGTTCTCGCCT+TGG 0.495323 1:+72515821 MsaT004673.1:CDS
CATAGCAGAACGAGGGTTGA+AGG 0.496157 1:-72515340 None:intergenic
CGTGCACGTCCGCAAGGCAC+CGG 0.497396 1:-72515294 None:intergenic
AGGGATTTACGTCCCCATTC+CGG 0.508516 1:+72515275 MsaT004673.1:CDS
GCCTTGGTGGAGATAACATT+AGG 0.511767 1:-72515408 None:intergenic
GAAAGCAGTAGTTCCTGCTC+TGG 0.513297 1:+72515240 MsaT004673.1:CDS
TGTGGTCTTTCCACCAGAGC+AGG 0.513350 1:-72515253 None:intergenic
GAACGAGGGTTGAAGGCTGT+GGG 0.515671 1:-72515333 None:intergenic
ATTGGACCTGCCCTCCATTG+TGG 0.524395 1:-72515618 None:intergenic
GGAGGGCAATGAAGCGGCAG+CGG 0.526729 1:-72513171 None:intergenic
GCCGGTATTCGGGGAATAGT+CGG 0.526797 1:-72515689 None:intergenic
CGCGGAGGAGGGCAATGAAG+CGG 0.533925 1:-72513177 None:intergenic
TCAAGGACAGAAATAGGACT+TGG 0.539012 1:-72515219 None:intergenic
CTTGCAGAGAAGAAAATGGC+TGG 0.540090 1:+72513074 None:intergenic
GTCCGCAAGGCACCGGAATG+GGG 0.540180 1:-72515287 None:intergenic
TTGCTGACAGCTGATGATGA+TGG 0.540546 1:-72515165 None:intergenic
CTGTCAGCAAGGAGGACTCT+GGG 0.542617 1:+72515178 MsaT004673.1:CDS
AGCAGTAGTTCCTGCTCTGG+TGG 0.543729 1:+72515243 MsaT004673.1:CDS
TTGTAGTTTGCCGCGGAGGA+GGG 0.553031 1:-72513188 None:intergenic
CAATAGTACTTCAGACCTCT+CGG 0.555740 1:+72513259 MsaT004673.1:CDS
TTGGTGCGTGCACGTCCGCA+AGG 0.556777 1:-72515300 None:intergenic
TAGCAGCAGGCCGGTATTCG+GGG 0.557503 1:-72515698 None:intergenic
CATGTTCTCCTCAACAGAAG+AGG 0.558411 1:-72515382 None:intergenic
ACGTCCGCAAGGCACCGGAA+TGG 0.559647 1:-72515289 None:intergenic
AAAATCTGAAGAAAGCGCCT+TGG 0.566825 1:-72515424 None:intergenic
CGAGTTGTAGTTTGCCGCGG+AGG 0.567794 1:-72513192 None:intergenic
TCAGCTGGAGCAGTAGGAAG+TGG 0.567950 1:-72515531 None:intergenic
CCACTGTCAGCTGGAGCAGT+AGG 0.567950 1:-72515537 None:intergenic
GGAGAGTCTCACAATGAAAG+TGG 0.570456 1:+72515134 MsaT004673.1:CDS
AACACCGAGTCAGACTCATT+CGG 0.575075 1:-72513230 None:intergenic
TCCTCAACAGAAGAGGAAGT+AGG 0.578279 1:-72515375 None:intergenic
CGCGGCAAACTACAACTCGT+TGG 0.579753 1:+72513196 MsaT004673.1:CDS
AACCAAGACTCCACAATGGA+GGG 0.579995 1:+72515608 MsaT004673.1:CDS
AAGACTCCACAATGGAGGGC+AGG 0.580027 1:+72515612 MsaT004673.1:CDS
CAAAACGTTGGACTAGCAGC+AGG 0.583276 1:-72515711 None:intergenic
GTCCCCATTCCGGTGCCTTG+CGG 0.585255 1:+72515285 MsaT004673.1:CDS
GCTGACAGTGGCGAACAGAA+TGG 0.590330 1:+72515549 MsaT004673.1:CDS
TTGCGGTGTACGCTACAAGT+CGG 0.591752 1:+72515665 MsaT004673.1:CDS
GTATTCCAAGGCGAGAACAT+TGG 0.594504 1:-72515826 None:intergenic
AAAACACTCTGCAATGCTTG+CGG 0.597816 1:+72515648 MsaT004673.1:CDS
CTGGCCGAATGAGTCTGACT+CGG 0.600304 1:+72513226 MsaT004673.1:CDS
ATCATCATCAGCTGTCAGCA+AGG 0.601103 1:+72515167 MsaT004673.1:CDS
CGCTTCATTGCCCTCCTCCG+CGG 0.601691 1:+72513178 MsaT004673.1:CDS
CAACGAGTTGTAGTTTGCCG+CGG 0.602863 1:-72513195 None:intergenic
TGCACAGCTGGACAAAACGT+TGG 0.609672 1:-72515723 None:intergenic
GGTCCTTGAAATGAGATGCA+AGG 0.611789 1:+72515764 MsaT004673.1:CDS
ACGTTGGACTAGCAGCAGGC+CGG 0.619617 1:-72515707 None:intergenic
CTCAACAGAAGAGGAAGTAG+GGG 0.627104 1:-72515373 None:intergenic
TAACCAAGACTCCACAATGG+AGG 0.629519 1:+72515607 MsaT004673.1:CDS
CGGTGTCAACGTCGTCGACG+GGG 0.629631 1:-72513151 None:intergenic
GCCTAATGTTATCTCCACCA+AGG 0.643801 1:+72515407 MsaT004673.1:CDS
GCTCTGGTGGAAAGACCACA+GGG 0.652323 1:+72515256 MsaT004673.1:CDS
ATGAGTTGCATAGCAGAACG+AGG 0.660947 1:-72515348 None:intergenic
AACGAGGGTTGAAGGCTGTG+GGG 0.663882 1:-72515332 None:intergenic
AATGGAGGGCAGGTCCAATG+GGG 0.678887 1:+72515622 MsaT004673.1:CDS
CAACGGGGAGCTCCGCCGAG+AGG 0.679446 1:-72513274 None:intergenic
CCTACTGCTCCAGCTGACAG+TGG 0.685510 1:+72515537 MsaT004673.1:CDS
ATCATCAGCTGTCAGCAAGG+AGG 0.691864 1:+72515170 MsaT004673.1:CDS
GGAGTGGGTGTCCAATATTG+TGG 0.693703 1:+72515095 MsaT004673.1:CDS
TGAGTTGCATAGCAGAACGA+GGG 0.714987 1:-72515347 None:intergenic
AGATAACCAAGACTCCACAA+TGG 0.734467 1:+72515604 MsaT004673.1:CDS
CTCTACTCACCGGATCAACG+GGG 0.746525 1:-72513289 None:intergenic
AATGGGGACGTAAATCCCTG+TGG 0.749532 1:-72515271 None:intergenic
TAGTACTTCAGACCTCTCGG+CGG 0.759629 1:+72513262 MsaT004673.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 72513089 72515857 72513089 ID=MsaG004673
Chr1 mRNA 72513089 72515857 72513089 ID=MsaT004673.1;Parent=MsaG004673
Chr1 exon 72513089 72513301 72513089 ID=MsaT004673.1.exon1;Parent=MsaT004673.1
Chr1 CDS 72513089 72513301 72513089 ID=cds.MsaT004673.1;Parent=MsaT004673.1
Chr1 exon 72515075 72515857 72515075 ID=MsaT004673.1.exon2;Parent=MsaT004673.1
Chr1 CDS 72515075 72515857 72515075 ID=cds.MsaT004673.1;Parent=MsaT004673.1
Gene Sequence

>MsaT004673.1

ATGGCTGGAACAATGAACGAGATTGATTGCTTCAACTTATTTGACAACATTGATGACATCTACCCCGTCGACGACGTTGACACCGCTGCCGCTTCATTGCCCTCCTCCGCGGCAAACTACAACTCGTTGGCGAGTATCTGGCCGAATGAGTCTGACTCGGTGTTTTCTGGCAATAGTACTTCAGACCTCTCGGCGGAGCTCCCCGTTGATCCGTTCGAAGATCTTCTTTCATTGGAGTGGGTGTCCAATATTGTGGACGATTCATTTTGTGAGGAGAGTCTCACAATGAAAGTGGAGCAGCAGCCATCATCATCAGCTGTCAGCAAGGAGGACTCTGGGCATTATCAATTTCAGACACCAAGTCCTATTTCTGTCCTTGAAAGCAGTAGTTCCTGCTCTGGTGGAAAGACCACAGGGATTTACGTCCCCATTCCGGTGCCTTGCGGACGTGCACGCACCAAGCGTCCACGCCCCACAGCCTTCAACCCTCGTTCTGCTATGCAACTCATTTCCCCTACTTCCTCTTCTGTTGAGGAGAACATGCAGCCTAATGTTATCTCCACCAAGGCGCTTTCTTCAGATTTTGAAAATTTTGCTGAGTCCCGGATTATTGTCAAGAAACCAAAGCTCTCTTCTGGAGAGACCAAGAAGAAAAAGAAAATCAAGGCACCACTTCCTACTGCTCCAGCTGACAGTGGCGAACAGAATGGTTCACTACCTGTTAGGAAATGCATGCATTGTGAGATAACCAAGACTCCACAATGGAGGGCAGGTCCAATGGGGCCAAAAACACTCTGCAATGCTTGCGGTGTACGCTACAAGTCGGGCCGACTATTCCCCGAATACCGGCCTGCTGCTAGTCCAACGTTTTGTCCAGCTGTGCACTCCAATTCGCACAAAAAGGTCCTTGAAATGAGATGCAAGGATAGTTTTGAATCAGATTCAGCTGAACTCATTCCAAACACCAATGTTCTCGCCTTGGAATACAACATTTGA
Protein sequence

>MsaT004673.1

MAGTMNEIDCFNLFDNIDDIYPVDDVDTAAASLPSSAANYNSLASIWPNESDSVFSGNSTSDLSAELPVDPFEDLLSLEWVSNIVDDSFCEESLTMKVEQQPSSSAVSKEDSGHYQFQTPSPISVLESSSSCSGGKTTGIYVPIPVPCGRARTKRPRPTAFNPRSAMQLISPTSSSVEENMQPNVISTKALSSDFENFAESRIIVKKPKLSSGETKKKKKIKAPLPTAPADSGEQNGSLPVRKCMHCEITKTPQWRAGPMGPKTLCNACGVRYKSGRLFPEYRPAASPTFCPAVHSNSHKKVLEMRCKDSFESDSAELIPNTNVLALEYNI*