AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039421

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039421 MtrunA17_Chr7g0258181 90.343 321 22 3 1 314 1 319 0.0 587
MsaG039421 MtrunA17_Chr1g0174271 47.043 372 125 10 4 310 6 370 7.15e-85 260
MsaG039421 MtrunA17_Chr4g0032951 38.314 261 132 3 80 314 174 431 1.14e-48 168
MsaG039421 MtrunA17_Chr2g0329041 41.791 268 104 10 82 314 157 407 8.13e-47 162
MsaG039421 MtrunA17_Chr3g0087771 39.149 235 126 4 87 310 166 394 4.76e-42 150
MsaG039421 MtrunA17_Chr8g0351881 35.430 302 139 5 49 310 103 388 2.22e-34 129
MsaG039421 MtrunA17_Chr4g0014771 69.620 79 24 0 232 310 112 190 1.67e-33 122
MsaG039421 MtrunA17_Chr1g0213791 50.407 123 58 2 193 314 221 341 8.68e-30 115
MsaG039421 MtrunA17_Chr1g0152131 52.113 71 34 0 238 308 260 330 5.91e-16 77.8
MsaG039421 MtrunA17_Chr4g0074161 54.412 68 30 1 238 305 206 272 8.24e-16 77.4
MsaG039421 MtrunA17_Chr1g0190731 50.667 75 36 1 231 305 186 259 1.60e-15 76.3
MsaG039421 MtrunA17_Chr5g0421111 50.000 74 37 0 238 311 365 438 2.91e-15 76.3
MsaG039421 MtrunA17_Chr3g0131771 53.731 67 31 0 238 304 147 213 4.06e-15 74.7
MsaG039421 MtrunA17_Chr7g0234761 48.649 74 38 0 238 311 317 390 7.49e-15 75.1
MsaG039421 MtrunA17_Chr3g0144641 50.000 74 37 0 238 311 191 264 1.52e-14 73.6
MsaG039421 MtrunA17_Chr8g0365941 50.725 69 34 0 238 306 305 373 2.90e-14 73.2
MsaG039421 MtrunA17_Chr8g0339091 45.946 74 40 0 238 311 291 364 3.65e-14 72.8
MsaG039421 MtrunA17_Chr8g0385911 49.275 69 35 0 238 306 145 213 1.27e-13 70.5
MsaG039421 MtrunA17_Chr4g0035101 45.679 81 42 1 231 311 138 216 1.39e-13 70.5
MsaG039421 MtrunA17_Chr8g0363921 47.761 67 35 0 238 304 151 217 7.96e-13 67.8
MsaG039421 MtrunA17_Chr7g0258161 41.892 74 43 0 238 311 173 246 1.38e-11 64.7
MsaG039421 MtrunA17_Chr5g0415291 46.269 67 36 0 238 304 112 178 1.61e-11 63.2
MsaG039421 MtrunA17_Chr1g0152651 53.846 65 29 1 239 303 275 338 3.89e-11 63.2
MsaG039421 MtrunA17_Chr6g0484271 44.776 67 37 0 238 304 155 221 4.37e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039421 AT2G42280.1 48.548 241 105 6 83 314 125 355 3.15e-49 168
MsaG039421 AT2G42280.3 48.899 227 97 6 83 300 125 341 7.24e-43 151
MsaG039421 AT1G51140.1 57.983 119 43 3 192 310 265 376 2.97e-39 142
MsaG039421 AT2G43140.1 57.143 105 44 1 207 310 102 206 1.21e-34 125
MsaG039421 AT2G43140.2 57.143 105 44 1 207 310 199 303 4.38e-34 127
MsaG039421 AT1G35460.1 61.176 85 33 0 230 314 173 257 3.53e-32 120
MsaG039421 AT1G05805.1 56.731 104 43 2 208 310 253 355 1.21e-30 119
MsaG039421 AT4G09180.1 59.341 91 35 1 224 314 172 260 5.69e-30 115
MsaG039421 AT1G35460.2 76.596 47 11 0 230 276 173 219 5.02e-18 82.0
MsaG039421 AT2G24260.2 51.282 78 37 1 228 305 25 101 3.12e-16 77.4
MsaG039421 AT5G58010.1 54.412 68 30 1 238 305 99 165 7.23e-16 77.0
MsaG039421 AT2G24260.1 51.282 78 37 1 228 305 128 204 8.24e-16 77.4
MsaG039421 AT4G30980.1 54.412 68 30 1 238 305 130 196 2.48e-15 75.5
MsaG039421 AT2G42280.2 40.659 182 89 6 83 255 125 296 2.60e-15 75.5
MsaG039421 AT4G30980.2 54.412 68 30 1 238 305 178 244 3.23e-15 75.9
MsaG039421 AT1G10120.2 53.623 69 32 0 238 306 206 274 5.96e-15 75.1
MsaG039421 AT1G10120.1 53.623 69 32 0 238 306 206 274 5.96e-15 75.1
MsaG039421 AT4G34530.1 48.649 74 38 0 238 311 172 245 8.28e-15 74.3
MsaG039421 AT5G50915.1 53.731 67 31 0 238 304 136 202 1.33e-14 73.2
MsaG039421 AT5G50915.2 53.731 67 31 0 238 304 136 202 1.33e-14 73.2
MsaG039421 AT1G68920.3 49.296 71 36 0 238 308 302 372 1.41e-14 74.3
MsaG039421 AT5G50915.3 53.731 67 31 0 238 304 136 202 1.42e-14 72.8
MsaG039421 AT5G50915.4 53.731 67 31 0 238 304 136 202 1.42e-14 72.8
MsaG039421 AT1G68920.1 49.296 71 36 0 238 308 303 373 1.56e-14 74.3
MsaG039421 AT1G68920.4 49.296 71 36 0 238 308 303 373 1.56e-14 74.3
MsaG039421 AT1G68920.2 49.296 71 36 0 238 308 303 373 1.56e-14 74.3
MsaG039421 AT3G07340.1 47.297 74 39 0 238 311 258 331 4.58e-14 72.8
MsaG039421 AT3G07340.2 47.297 74 39 0 238 311 258 331 4.89e-14 72.8
MsaG039421 AT1G26260.4 52.239 67 32 0 238 304 223 289 6.27e-14 72.0
MsaG039421 AT1G26260.1 52.239 67 32 0 238 304 223 289 6.27e-14 72.0
MsaG039421 AT1G26260.6 52.239 67 32 0 238 304 223 289 6.27e-14 72.0
MsaG039421 AT1G26260.2 52.239 67 32 0 238 304 223 289 6.27e-14 72.0
MsaG039421 AT1G26260.5 52.239 67 32 0 238 304 201 267 6.64e-14 72.0
MsaG039421 AT1G26260.3 52.239 67 32 0 238 304 172 238 6.95e-14 71.6
MsaG039421 AT1G25330.1 47.761 67 35 0 238 304 104 170 1.11e-13 69.7
MsaG039421 AT5G48560.1 49.254 67 34 0 238 304 301 367 3.79e-13 70.1
MsaG039421 AT5G48560.2 49.254 67 34 0 238 304 301 367 3.96e-13 70.1
MsaG039421 AT3G23690.1 45.946 74 40 0 238 311 191 264 5.06e-13 69.3
MsaG039421 AT4G36540.1 44.156 77 41 1 228 304 133 207 7.67e-13 68.2
MsaG039421 AT4G36540.2 44.156 77 41 1 228 304 133 207 8.14e-13 68.2
MsaG039421 AT1G18400.2 47.761 67 35 0 238 304 145 211 2.05e-12 66.2
MsaG039421 AT1G18400.1 47.761 67 35 0 238 304 145 211 3.34e-12 65.9
MsaG039421 AT1G59640.1 47.761 67 35 0 238 304 136 202 3.69e-12 65.9
MsaG039421 AT2G18300.2 46.377 69 37 0 238 306 185 253 3.72e-12 66.6
MsaG039421 AT2G18300.1 46.377 69 37 0 238 306 185 253 3.92e-12 66.6
MsaG039421 AT2G42300.1 43.243 74 42 0 238 311 185 258 4.31e-12 66.2
MsaG039421 AT3G57800.2 43.243 74 42 0 238 311 204 277 4.64e-12 66.6
MsaG039421 AT2G18300.3 46.377 69 37 0 238 306 185 253 4.89e-12 66.2
MsaG039421 AT1G73830.2 44.776 67 37 0 238 304 147 213 5.23e-12 65.5
MsaG039421 AT1G73830.1 44.776 67 37 0 238 304 147 213 5.23e-12 65.5
MsaG039421 AT2G42300.4 43.243 74 42 0 238 311 185 258 7.34e-12 65.1
MsaG039421 AT1G59640.2 47.761 67 35 0 238 304 136 202 1.26e-11 65.1
MsaG039421 AT5G62610.2 44.776 67 37 0 238 304 153 219 2.93e-11 63.5
MsaG039421 AT5G62610.1 44.776 67 37 0 238 304 153 219 2.93e-11 63.5

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACGAAGCAACCTTGAATT+TGG 0.214893 7:-88912815 None:intergenic
TTGTCACCTTTATGATTAAA+AGG 0.243027 7:-88912926 None:intergenic
CTCAAGGAAGAAGGACTTCT+TGG 0.270896 7:-88913947 None:intergenic
CTTTATGATTAAAAGGATTA+TGG 0.272914 7:-88912919 None:intergenic
ATCTACCTTTAGAGAATTCA+TGG 0.283481 7:+88912895 MsaT039421.1:CDS
AACATATTGAACAATCAAAT+TGG 0.290694 7:+88913917 MsaT039421.1:CDS
ACCCTTTCGGCAAGGCTTCT+AGG 0.305032 7:-88914345 None:intergenic
CCGAGTTCTTCTTACCCTTT+CGG 0.326997 7:-88914358 None:intergenic
ATGCTGCTCGGAACAGAATC+TGG 0.330247 7:-88914294 None:intergenic
AATGTTTATTGTGGAGAATT+TGG 0.338878 7:+88914263 MsaT039421.1:CDS
AATGAGGATGCTCAATATTA+TGG 0.342968 7:+88914049 MsaT039421.1:CDS
ATTCTGACCTTATCAATGTT+TGG 0.345820 7:-88914417 None:intergenic
GAAGGTTGTGCTACAAATTC+TGG 0.353997 7:+88912860 MsaT039421.1:CDS
AACAACAACATCATCTCCTT+TGG 0.393746 7:+88913076 MsaT039421.1:CDS
TCCTAGAAGCCTTGCCGAAA+GGG 0.399735 7:+88914344 MsaT039421.1:CDS
AACATCATCTCCTTTGGAAA+TGG 0.414195 7:+88913082 MsaT039421.1:CDS
CTCTTTGCTCTGATGCTGCT+CGG 0.438402 7:-88914306 None:intergenic
ACCACTCTGTCTTAAAAGAT+TGG 0.442108 7:-88913032 None:intergenic
AACAAAACCAACCAAATTCA+AGG 0.457834 7:+88912804 MsaT039421.1:CDS
AAAGGAGATGATGTTGTTGT+TGG 0.459546 7:-88913074 None:intergenic
TCGGAACAGAATCTGGAAAC+TGG 0.461159 7:-88914287 None:intergenic
GGTTGTTCCAAACATTGATA+AGG 0.462084 7:+88914410 MsaT039421.1:CDS
CATTTACGATTCTAATGACC+AGG 0.465979 7:+88914081 MsaT039421.1:CDS
AGACAGAGTGGTTCCCATGC+TGG 0.479729 7:+88913043 MsaT039421.1:CDS
AAAGGTGTTGAAAACTATGA+TGG 0.487777 7:+88913857 MsaT039421.1:CDS
CACATCAGAAATGTTAGACT+TGG 0.499859 7:+88914536 MsaT039421.1:CDS
AAGACACATGAATTCTCAGC+AGG 0.502231 7:+88912976 MsaT039421.1:CDS
TTCTCAGCAGGGTTATAGAA+TGG 0.503073 7:+88912988 MsaT039421.1:CDS
ATCATCAGAAATGTTTATTG+TGG 0.507405 7:+88914254 MsaT039421.1:CDS
TTGATGTTACTCAGAACGTA+GGG 0.512000 7:+88914181 MsaT039421.1:intron
GAAGCAACCTTGAATTTGGT+TGG 0.517186 7:-88912811 None:intergenic
GATAACATTCTCAAGGAAGA+AGG 0.538937 7:-88913956 None:intergenic
ATCCTAGAAGCCTTGCCGAA+AGG 0.543719 7:+88914343 MsaT039421.1:CDS
ATGGTCCATGAATTCTCTAA+AGG 0.546307 7:-88912900 None:intergenic
AACTCTAAAACGAGGAGTGA+TGG 0.547308 7:+88913983 MsaT039421.1:CDS
TTCTTCTTACCCTTTCGGCA+AGG 0.550067 7:-88914353 None:intergenic
CCGAAAGGGTAAGAAGAACT+CGG 0.565752 7:+88914358 MsaT039421.1:CDS
CTCCTTGTCTTCGATCATCA+CGG 0.577461 7:-88914021 None:intergenic
AAAACGAGGAGTGATGGCAT+TGG 0.578334 7:+88913989 MsaT039421.1:CDS
TCAAGTATCAAACAAGCTGA+AGG 0.598545 7:+88912842 MsaT039421.1:CDS
GCAGGGTATGAATCTATGAA+AGG 0.606763 7:+88913839 MsaT039421.1:intron
TTTGATGTTACTCAGAACGT+AGG 0.607876 7:+88914180 MsaT039421.1:intron
AAGGTGTTGAAAACTATGAT+GGG 0.612325 7:+88913858 MsaT039421.1:CDS
GTTATGTGATAACATTCTCA+AGG 0.612399 7:-88913963 None:intergenic
TACTACAATACCATTTCCAA+AGG 0.613692 7:-88913092 None:intergenic
AGCAGCATCAGAGCAAAGAG+AGG 0.624459 7:+88914309 MsaT039421.1:CDS
ACGAATGAGAAAATTGCAAG+AGG 0.630200 7:+88914389 MsaT039421.1:CDS
TATAGAATGGATCAACACAA+AGG 0.657311 7:+88913001 MsaT039421.1:CDS
AGCCGTGATGATCGAAGACA+AGG 0.662100 7:+88914019 MsaT039421.1:CDS
GTTGGAGAAATGACCAGCAT+GGG 0.675608 7:-88913056 None:intergenic
TGTTGGAGAAATGACCAGCA+TGG 0.677077 7:-88913057 None:intergenic
CGTGATGATCGAAGACAAGG+AGG 0.691311 7:+88914022 MsaT039421.1:CDS
AGACACATGAATTCTCAGCA+GGG 0.696388 7:+88912977 MsaT039421.1:CDS
GATGGGGTGAATGACAGTGA+TGG 0.701721 7:+88913875 MsaT039421.1:CDS
TGATGTTACTCAGAACGTAG+GGG 0.704763 7:+88914182 MsaT039421.1:intron
AAGACAAGGAGGTAGCAATG+AGG 0.720936 7:+88914033 MsaT039421.1:CDS
AGGTGTTGAAAACTATGATG+GGG 0.756832 7:+88913859 MsaT039421.1:CDS
TATCACATAACTCTAAAACG+AGG 0.781502 7:+88913975 MsaT039421.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 88912773 88914756 88912773 ID=MsaG039421
Chr7 mRNA 88912773 88914756 88912773 ID=MsaT039421.1;Parent=MsaG039421
Chr7 exon 88912773 88913103 88912773 ID=MsaT039421.1.exon1;Parent=MsaT039421.1
Chr7 CDS 88912773 88913103 88912773 ID=cds.MsaT039421.1;Parent=MsaT039421.1
Chr7 exon 88913843 88914102 88913843 ID=MsaT039421.1.exon2;Parent=MsaT039421.1
Chr7 CDS 88913843 88914102 88913843 ID=cds.MsaT039421.1;Parent=MsaT039421.1
Chr7 exon 88914195 88914431 88914195 ID=MsaT039421.1.exon3;Parent=MsaT039421.1
Chr7 CDS 88914195 88914431 88914195 ID=cds.MsaT039421.1;Parent=MsaT039421.1
Chr7 exon 88914528 88914596 88914528 ID=MsaT039421.1.exon4;Parent=MsaT039421.1
Chr7 CDS 88914528 88914596 88914528 ID=cds.MsaT039421.1;Parent=MsaT039421.1
Chr7 exon 88914709 88914756 88914709 ID=MsaT039421.1.exon5;Parent=MsaT039421.1
Chr7 CDS 88914709 88914756 88914709 ID=cds.MsaT039421.1;Parent=MsaT039421.1
Gene Sequence

>MsaT039421.1

ATGGATTTGAATTCTCATTATCAACAACTCCAACAAAACCAACCAAATTCAAGGTTGCTTCGTTTTCGTTCAAGTATCAAACAAGCTGAAGGTTGTGCTACAAATTCTGGTGAAACTTCTTCATCTACCTTTAGAGAATTCATGGACCATAATCCTTTTAATCATAAAGGTGACAACAACAACAACGAGTCTTCATTATCTCAAAGACACATGAATTCTCAGCAGGGTTATAGAATGGATCAACACAAAGGTTTTTATACCAATCTTTTAAGACAGAGTGGTTCCCATGCTGGTCATTTCTCCAACAACAACATCATCTCCTTTGGAAATGGGTATGAATCTATGAAAGGTGTTGAAAACTATGATGGGGTGAATGACAGTGATGGTGAACTTACTCTATCTATGAACATATTGAACAATCAAATTGGCTTCTCACCAAGAAGTCCTTCTTCCTTGAGAATGTTATCACATAACTCTAAAACGAGGAGTGATGGCATTGGAACAACTAGCCGTGATGATCGAAGACAAGGAGGTAGCAATGAGGATGCTCAATATTATGGTCATAAATTCATTTACGATTCTAATGACCAGAACGTAGGGGTACGAAATCAAGTTGATACACTATCACATCACTTGAGTTTGCCAAGAAAATCATCAGAAATGTTTATTGTGGAGAATTTGGTCCAGTTTCCAGATTCTGTTCCGAGCAGCATCAGAGCAAAGAGAGGCTTTGCAACACATCCTAGAAGCCTTGCCGAAAGGGTAAGAAGAACTCGGATAAGTGAACGAATGAGAAAATTGCAAGAGGTTGTTCCAAACATTGATAAGCAAACTTGCACATCAGAAATGTTAGACTTGGCTGTAGAGTACATTAAAGATCTTCAAAAACAATTAAAGACTATGAGTGCAAAAAGAGCTAAGTGCAGATGCAGAAACAAGAAATGA
Protein sequence

>MsaT039421.1

MDLNSHYQQLQQNQPNSRLLRFRSSIKQAEGCATNSGETSSSTFREFMDHNPFNHKGDNNNNESSLSQRHMNSQQGYRMDQHKGFYTNLLRQSGSHAGHFSNNNIISFGNGYESMKGVENYDGVNDSDGELTLSMNILNNQIGFSPRSPSSLRMLSHNSKTRSDGIGTTSRDDRRQGGSNEDAQYYGHKFIYDSNDQNVGVRNQVDTLSHHLSLPRKSSEMFIVENLVQFPDSVPSSIRAKRGFATHPRSLAERVRRTRISERMRKLQEVVPNIDKQTCTSEMLDLAVEYIKDLQKQLKTMSAKRAKCRCRNKK*