AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016433


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016433 MtrunA17_Chr3g0128671 93.210 324 8 3 1 324 1 310 0.0 603
MsaG016433 MtrunA17_Chr5g0428351 40.816 294 101 11 5 289 82 311 2.53e-52 174
MsaG016433 MtrunA17_Chr7g0244971 39.000 200 93 5 17 210 15 191 5.53e-38 137
MsaG016433 MtrunA17_Chr7g0244981 37.915 211 100 7 7 210 4 190 2.08e-35 129
MsaG016433 MtrunA17_Chr8g0350621 38.806 201 99 6 18 216 8 186 1.18e-34 127
MsaG016433 MtrunA17_Chr8g0334541 38.571 210 97 6 18 226 6 184 3.57e-31 118
MsaG016433 MtrunA17_Chr3g0126391 33.190 232 123 9 15 229 5 221 8.38e-25 102
MsaG016433 MtrunA17_Chr2g0315361 32.819 259 132 10 14 256 13 245 1.00e-24 101
MsaG016433 MtrunA17_Chr2g0315371 33.772 228 125 7 3 222 5 214 2.10e-24 100
MsaG016433 MtrunA17_Chr2g0315381 34.783 230 115 8 9 222 7 217 3.36e-23 97.4
MsaG016433 MtrunA17_Chr7g0275531 30.097 206 126 4 7 212 2 189 2.54e-21 92.8
MsaG016433 MtrunA17_Chr8g0347251 56.716 67 29 0 134 200 129 195 1.33e-20 90.9
MsaG016433 MtrunA17_Chr8g0387981 33.679 193 106 6 17 200 12 191 5.21e-20 89.4
MsaG016433 MtrunA17_Chr5g0431811 39.706 68 41 0 142 209 673 740 8.76e-13 69.3
MsaG016433 MtrunA17_Chr7g0224801 46.377 69 33 2 131 199 84 148 3.10e-12 64.3
MsaG016433 MtrunA17_Chr4g0071521 40.000 90 44 2 125 206 221 308 5.05e-12 65.9
MsaG016433 MtrunA17_Chr8g0387501 46.154 65 33 1 134 198 122 184 5.80e-12 65.1
MsaG016433 MtrunA17_Chr8g0348311 41.026 78 41 2 125 199 136 211 9.86e-12 65.1
MsaG016433 MtrunA17_Chr1g0147881 38.462 91 44 3 125 205 238 326 1.12e-11 65.1
MsaG016433 MtrunA17_Chr5g0418781 38.372 86 49 2 142 227 125 206 1.54e-11 63.9
MsaG016433 MtrunA17_Chr7g0238921 52.632 57 24 1 142 198 125 178 6.73e-11 62.4
MsaG016433 MtrunA17_Chr8g0386241 32.110 109 64 3 90 198 59 157 9.76e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016433 AT3G56400.1 44.144 222 106 5 13 234 7 210 1.59e-50 170
MsaG016433 AT2G40750.1 34.259 324 185 7 10 310 8 326 1.80e-46 160
MsaG016433 AT5G24110.1 34.715 193 89 7 13 200 12 172 5.19e-23 97.4
MsaG016433 AT2G46400.1 30.357 224 102 5 13 226 4 183 9.03e-22 93.6
MsaG016433 AT4G11070.1 31.280 211 121 7 13 208 7 208 1.30e-21 93.6
MsaG016433 AT1G66550.1 34.054 185 97 4 18 202 10 169 2.78e-21 91.7
MsaG016433 AT1G66550.2 34.595 185 91 6 18 202 10 164 6.89e-21 90.5
MsaG016433 AT5G22570.1 28.704 216 114 4 18 217 11 202 7.42e-20 88.2
MsaG016433 AT1G66560.1 27.642 246 140 6 11 250 3 216 7.49e-20 87.4
MsaG016433 AT1G66600.1 29.752 242 136 5 18 259 10 217 9.50e-20 87.0
MsaG016433 AT5G01900.1 32.973 185 100 4 18 201 9 170 3.46e-19 85.9
MsaG016433 AT4G11070.2 29.126 206 100 6 13 208 7 176 1.27e-18 84.7
MsaG016433 AT2G40740.1 44.186 86 42 1 142 221 174 259 2.42e-18 84.0
MsaG016433 AT2G40740.3 44.186 86 42 1 142 221 183 268 3.06e-18 84.0
MsaG016433 AT4G23810.1 50.704 71 34 1 142 211 159 229 4.91e-18 83.6
MsaG016433 AT5G45260.1 35.714 154 92 4 47 198 1117 1265 2.58e-16 80.5
MsaG016433 AT1G80590.1 32.432 185 77 5 18 202 10 146 1.15e-14 72.8
MsaG016433 AT4G23550.1 49.153 59 28 1 140 198 139 195 7.44e-12 65.5
MsaG016433 AT5G52830.1 41.772 79 40 2 125 199 145 221 7.84e-12 65.9
MsaG016433 AT5G13080.1 43.243 74 38 2 126 199 53 122 2.50e-11 61.2
MsaG016433 AT2G46130.1 42.029 69 35 2 140 206 29 94 2.56e-11 60.5
MsaG016433 AT4G01250.1 38.961 77 42 3 125 198 109 183 5.73e-11 62.8
MsaG016433 AT1G69310.4 30.216 139 78 5 96 229 97 221 8.13e-11 62.4
MsaG016433 AT1G69310.2 30.216 139 78 5 96 229 97 221 8.13e-11 62.4
MsaG016433 AT1G69310.1 30.216 139 78 5 96 229 97 221 8.13e-11 62.4

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAATCTTGAAATTGATTT+TGG 0.027971 3:+97825478 MsaT016433.1:CDS
TATGTAATTTGGTACATTTC+TGG 0.119421 3:-97825145 None:intergenic
TTGTTGGCAGTGACAGTTTC+AGG 0.206708 3:-97823617 None:intergenic
TGCAACCTTGGTCATGCTTC+CGG 0.212153 3:-97825087 None:intergenic
CATTCTCTGAAGATACTAAT+TGG 0.227820 3:+97825218 MsaT016433.1:CDS
TGATGTTACTGACAACTTAT+TGG 0.245112 3:+97825384 MsaT016433.1:CDS
GCAACCTTGGTCATGCTTCC+GGG 0.281835 3:-97825086 None:intergenic
TTCTATCAATTGTACCTGTT+TGG 0.295646 3:-97825116 None:intergenic
TTAAAATCAGACCACAAATT+AGG 0.299410 3:-97825409 None:intergenic
CAGAATCATGTGAATCATTC+AGG 0.322565 3:+97823833 MsaT016433.1:CDS
CATGTGAATCATTCAGGTTC+AGG 0.330373 3:+97823839 MsaT016433.1:CDS
AGTAGTATTGTCGTCGTTGT+TGG 0.342310 3:-97825353 None:intergenic
AAGAATCCTGTTTGTTCTGA+TGG 0.357623 3:+97823707 MsaT016433.1:CDS
GTCTCCTTCTGTTAAGGAAT+TGG 0.359709 3:+97823730 MsaT016433.1:CDS
GTTTGGTTGCTTTGCAACCT+TGG 0.376612 3:-97825099 None:intergenic
TAATTTGCAGGAGTTACTTC+AGG 0.382346 3:+97825059 MsaT016433.1:intron
GAAAGCCAATGTATGTAATT+TGG 0.392701 3:-97825156 None:intergenic
TCAGAGAATGAGACCATTTG+TGG 0.397937 3:-97825205 None:intergenic
TGATGGGTCTCCTTCTGTTA+AGG 0.399624 3:+97823724 MsaT016433.1:CDS
ACTCATAAAAGAGCTTCTTC+AGG 0.399737 3:+97823649 MsaT016433.1:CDS
CAATTGGTGACACTCATTCC+TGG 0.409828 3:+97824181 MsaT016433.1:CDS
GTAGTATTGTCGTCGTTGTT+GGG 0.410207 3:-97825352 None:intergenic
ATTCTCTGAAGATACTAATT+GGG 0.419258 3:+97825219 MsaT016433.1:CDS
CCTCTTCGATCCTTTGTAGT+TGG 0.426598 3:-97823944 None:intergenic
ACCATAGTCTCTAAAACAAT+TGG 0.428053 3:+97824165 MsaT016433.1:CDS
TTCAGGGGAACATGGTTCAT+TGG 0.430865 3:+97823856 MsaT016433.1:CDS
AGAATCCTGTTTGTTCTGAT+GGG 0.439454 3:+97823708 MsaT016433.1:CDS
ACCTTGGGAAATTAGAATTG+AGG 0.441878 3:-97824227 None:intergenic
TCCTTCTGTTAAGGAATTGG+TGG 0.442137 3:+97823733 MsaT016433.1:CDS
AGACCATTTGTGGAGTTTGT+AGG 0.471099 3:-97825195 None:intergenic
CTTCTGACCGTACTTTCTCC+AGG 0.478180 3:-97824199 None:intergenic
ACTTATTGGATCCTAATTTG+TGG 0.485951 3:+97825398 MsaT016433.1:CDS
CACCCTACAAACTCCACAAA+TGG 0.486229 3:+97825192 MsaT016433.1:CDS
ATGTGAATCATTCAGGTTCA+GGG 0.513638 3:+97823840 MsaT016433.1:CDS
CTCATAAAAGAGCTTCTTCA+GGG 0.513650 3:+97823650 MsaT016433.1:CDS
CATTCAGGTTCAGGGGAACA+TGG 0.514743 3:+97823848 MsaT016433.1:CDS
GCAGGAATACACAATATCCT+TGG 0.514816 3:-97825446 None:intergenic
AGGTTGCAAAGCAACCAAAC+AGG 0.523803 3:+97825102 MsaT016433.1:CDS
GACCATTTGTGGAGTTTGTA+GGG 0.524922 3:-97825194 None:intergenic
AGGGGAACATGGTTCATTGG+TGG 0.531988 3:+97823859 MsaT016433.1:CDS
GGAGACCCATCAGAACAAAC+AGG 0.533380 3:-97823713 None:intergenic
CACATGTTATTAGCTCAGAA+AGG 0.537868 3:+97825308 MsaT016433.1:CDS
GAAGAGGTTCCTACAAAAGA+AGG 0.538026 3:+97823960 MsaT016433.1:CDS
GCCACCAATTCCTTAACAGA+AGG 0.556097 3:-97823734 None:intergenic
TGAAGATTGTAGTTTAGATG+AGG 0.565987 3:+97823805 MsaT016433.1:CDS
ATGTACCAAATTACATACAT+TGG 0.567198 3:+97825151 MsaT016433.1:CDS
CTGGAGAAAGTACGGTCAGA+AGG 0.567429 3:+97824200 MsaT016433.1:CDS
TCCTCAATTCTAATTTCCCA+AGG 0.568294 3:+97824226 MsaT016433.1:CDS
GTCAGAACCTCCTTTGAGTG+AGG 0.572819 3:-97825265 None:intergenic
GGAGTTACTTCAGGTGCACC+CGG 0.575709 3:+97825068 MsaT016433.1:intron
ACTCATTCCTGGAGAAAGTA+CGG 0.586004 3:+97824192 MsaT016433.1:CDS
GAGATTGTCGCCAACTACAA+AGG 0.592832 3:+97823934 MsaT016433.1:CDS
GAATTCTAATCCTCACTCAA+AGG 0.633382 3:+97825255 MsaT016433.1:CDS
CATTTGTGGAGTTTGTAGGG+TGG 0.641904 3:-97825191 None:intergenic
TTCTAATCCTCACTCAAAGG+AGG 0.641909 3:+97825258 MsaT016433.1:CDS
TTGTCAGTAACATCACTCCT+CGG 0.646183 3:-97825376 None:intergenic
TGTGAATCATTCAGGTTCAG+GGG 0.655461 3:+97823841 MsaT016433.1:CDS
TGCACCCGGAAGCATGACCA+AGG 0.656558 3:+97825082 MsaT016433.1:CDS
GCAGGAAAACAGATGAGACA+AGG 0.694593 3:+97824142 MsaT016433.1:intron
CCAACTACAAAGGATCGAAG+AGG 0.701163 3:+97823944 MsaT016433.1:CDS
ACGACGACAATACTACTCCG+AGG 0.763721 3:+97825359 MsaT016433.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 97823602 97825561 97823602 ID=MsaG016433
Chr3 mRNA 97823602 97825561 97823602 ID=MsaT016433.1;Parent=MsaG016433
Chr3 exon 97823602 97823981 97823602 ID=MsaT016433.1.exon1;Parent=MsaT016433.1
Chr3 CDS 97823602 97823981 97823602 ID=cds.MsaT016433.1;Parent=MsaT016433.1
Chr3 exon 97824146 97824247 97824146 ID=MsaT016433.1.exon2;Parent=MsaT016433.1
Chr3 CDS 97824146 97824247 97824146 ID=cds.MsaT016433.1;Parent=MsaT016433.1
Chr3 exon 97825069 97825561 97825069 ID=MsaT016433.1.exon3;Parent=MsaT016433.1
Chr3 CDS 97825069 97825561 97825069 ID=cds.MsaT016433.1;Parent=MsaT016433.1
Gene Sequence

>MsaT016433.1

ATGAGTGTTATTTTACCTGAAACTGTCACTGCCAACAAAAAGAAGCTACTCATAAAAGAGCTTCTTCAGGGTAAAGAATATGCTACTCAGCTAAAACTTTTGCTTAAGAATCCTGTTTGTTCTGATGGGTCTCCTTCTGTTAAGGAATTGGTGGCTAATGTGTTGAGATCTTTCTCTGAGACTATTTCTGTGATGAATTCTACTGAAGATTGTAGTTTAGATGAGGTTGCTCAGAATCATGTGAATCATTCAGGTTCAGGGGAACATGGTTCATTGGTGGAAGTTTCTTGTAATGATGATTTGAAGTCTGAAGATACAAGTGAGAGTAAGAAGAGATTGTCGCCAACTACAAAGGATCGAAGAGGTTCCTACAAAAGAAGGAAAACAGATGAGACAAGGACCATAGTCTCTAAAACAATTGGTGACACTCATTCCTGGAGAAAGTACGGTCAGAAGGAAATCCTCAATTCTAATTTCCCAAGGAGTTACTTCAGGTGCACCCGGAAGCATGACCAAGGTTGCAAAGCAACCAAACAGGTACAATTGATAGAAGAGAATCCAGAAATGTACCAAATTACATACATTGGCTTTCACACATGCAAATCCACCCTACAAACTCCACAAATGGTCTCATTCTCTGAAGATACTAATTGGGATTCAATTCTTGTGAATTCTAATCCTCACTCAAAGGAGGTTCTGACAAATTATGATCAACAAGATTCACATGTTATTAGCTCAGAAAGGTCAATTGTGAAACAAGAATATCCCAACAACGACGACAATACTACTCCGAGGAGTGATGTTACTGACAACTTATTGGATCCTAATTTGTGGTCTGATTTTAAGGATTTTGAACTCTCCAAGGATATTGTGTATTCCTGCACTGAATCTCAAAATCTTGAAATTGATTTTGGGGTGTTTTCTTCTGATTTCAGCAATGATTTGATATATTTTGATGAAAGTCATTTGCTTTGA

Protein sequence

>MsaT016433.1

MSVILPETVTANKKKLLIKELLQGKEYATQLKLLLKNPVCSDGSPSVKELVANVLRSFSETISVMNSTEDCSLDEVAQNHVNHSGSGEHGSLVEVSCNDDLKSEDTSESKKRLSPTTKDRRGSYKRRKTDETRTIVSKTIGDTHSWRKYGQKEILNSNFPRSYFRCTRKHDQGCKATKQVQLIEENPEMYQITYIGFHTCKSTLQTPQMVSFSEDTNWDSILVNSNPHSKEVLTNYDQQDSHVISSERSIVKQEYPNNDDNTTPRSDVTDNLLDPNLWSDFKDFELSKDIVYSCTESQNLEIDFGVFSSDFSNDLIYFDESHLL*