AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027411

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027411 MtrunA17_Chr5g0422571 87.956 274 21 2 1 274 1 262 1.61e-175 488
MsaG027411 MtrunA17_Chr1g0198651 70.120 251 60 5 21 269 23 260 6.67e-116 337
MsaG027411 MtrunA17_Chr2g0328921 65.801 231 65 4 68 287 84 311 6.76e-109 320
MsaG027411 MtrunA17_Chr1g0173841 60.474 253 62 4 71 294 144 387 4.21e-107 318
MsaG027411 MtrunA17_Chr7g0258011 64.545 220 56 2 76 274 118 336 8.18e-104 308
MsaG027411 MtrunA17_Chr8g0352011 63.594 217 61 4 76 275 112 327 2.29e-102 304
MsaG027411 MtrunA17_Chr2g0321291 59.836 244 78 5 63 290 68 307 1.22e-101 301
MsaG027411 MtrunA17_Chr4g0026521 65.566 212 61 4 77 279 75 283 1.34e-99 295
MsaG027411 MtrunA17_Chr4g0053341 64.390 205 63 3 68 269 32 229 1.34e-94 280
MsaG027411 MtrunA17_Chr1g0200421 38.596 171 87 8 108 264 226 392 5.01e-24 102
MsaG027411 MtrunA17_Chr1g0181381 30.568 229 141 5 76 295 9 228 3.64e-23 99.8
MsaG027411 MtrunA17_Chr8g0382121 40.278 144 80 5 128 267 127 268 9.41e-23 96.7
MsaG027411 MtrunA17_Chr4g0029521 33.000 200 123 6 64 261 4 194 4.22e-22 96.7
MsaG027411 MtrunA17_Chr2g0320341 38.312 154 87 5 117 264 236 387 1.31e-21 94.7
MsaG027411 MtrunA17_Chr1g0151351 35.057 174 101 6 89 260 33 196 1.89e-21 94.7
MsaG027411 MtrunA17_Chr4g0040571 31.980 197 123 4 72 267 14 200 2.50e-21 94.4
MsaG027411 MtrunA17_Chr7g0263941 33.889 180 106 6 86 263 23 191 4.80e-21 93.2
MsaG027411 MtrunA17_Chr1g0185121 34.810 158 91 5 118 273 61 208 6.43e-21 93.2
MsaG027411 MtrunA17_Chr1g0199101 36.306 157 87 6 113 267 63 208 6.98e-21 93.2
MsaG027411 MtrunA17_Chr8g0342421 34.868 152 86 5 120 269 85 225 9.51e-21 92.8
MsaG027411 MtrunA17_Chr8g0373541 34.254 181 105 6 93 269 26 196 9.57e-21 92.8
MsaG027411 MtrunA17_Chr7g0268961 37.500 144 77 6 120 261 45 177 1.51e-20 92.0
MsaG027411 MtrunA17_Chr2g0330171 35.443 158 88 6 108 263 58 203 1.89e-20 91.7
MsaG027411 MtrunA17_Chr2g0326381 39.286 140 75 5 120 258 55 185 3.28e-20 90.9
MsaG027411 MtrunA17_Chr1g0191991 35.443 158 83 6 114 263 74 220 7.22e-20 90.5
MsaG027411 MtrunA17_Chr1g0210821 35.374 147 84 4 118 263 65 201 7.51e-20 90.5
MsaG027411 MtrunA17_Chr1g0162971 37.671 146 78 5 120 263 64 198 1.19e-19 89.4
MsaG027411 MtrunA17_Chr3g0123941 36.047 172 101 7 128 295 139 305 1.55e-19 87.8
MsaG027411 MtrunA17_Chr1g0163001 35.811 148 82 5 118 263 64 200 3.65e-19 88.2
MsaG027411 MtrunA17_Chr3g0141431 33.721 172 102 6 92 261 17 178 8.61e-19 86.7
MsaG027411 MtrunA17_Chr2g0324991 36.806 144 78 7 113 253 8 141 2.54e-17 77.8
MsaG027411 MtrunA17_Chr6g0479921 30.612 147 89 6 118 261 50 186 2.48e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027411 AT1G13290.1 69.444 252 52 5 21 267 12 243 1.15e-117 342
MsaG027411 AT3G57670.1 73.656 186 46 3 108 291 199 383 4.12e-102 305
MsaG027411 AT1G51220.1 53.608 291 103 5 7 269 34 320 2.15e-100 299
MsaG027411 AT3G20880.1 60.173 231 59 4 59 283 209 412 5.65e-98 296
MsaG027411 AT1G08290.1 70.690 174 51 0 110 283 164 337 1.97e-96 289
MsaG027411 AT1G34790.1 63.850 213 58 5 76 273 83 291 7.85e-92 276
MsaG027411 AT1G34370.3 38.728 173 86 6 108 264 9 177 2.22e-26 106
MsaG027411 AT1G34370.2 40.909 154 78 5 120 264 238 387 8.82e-26 107
MsaG027411 AT1G34370.1 40.909 154 78 5 120 264 238 387 8.82e-26 107
MsaG027411 AT5G22890.1 39.785 186 94 11 91 264 181 360 2.82e-24 102
MsaG027411 AT5G66730.1 34.171 199 115 7 69 263 3 189 8.64e-23 99.4
MsaG027411 AT3G50700.1 31.905 210 130 5 71 277 6 205 6.38e-22 96.3
MsaG027411 AT1G55110.3 37.013 154 85 5 118 269 84 227 1.57e-21 95.1
MsaG027411 AT1G55110.1 37.013 154 85 5 118 269 84 227 1.57e-21 95.1
MsaG027411 AT1G55110.2 37.013 154 85 5 118 269 84 227 1.57e-21 95.1
MsaG027411 AT5G03150.1 37.063 143 80 4 120 261 76 209 4.51e-21 94.4
MsaG027411 AT5G44160.1 33.523 176 106 4 94 268 34 199 1.28e-20 92.8
MsaG027411 AT2G02070.2 38.514 148 78 5 118 263 73 209 1.31e-20 93.2
MsaG027411 AT2G02070.1 38.514 148 78 5 118 263 73 209 1.31e-20 93.2
MsaG027411 AT2G02080.1 38.356 146 77 5 118 261 75 209 1.58e-20 92.8
MsaG027411 AT2G02080.4 38.356 146 77 5 118 261 75 209 1.58e-20 92.8
MsaG027411 AT2G02080.5 38.356 146 77 5 118 261 75 209 1.58e-20 92.8
MsaG027411 AT2G02080.3 38.356 146 77 5 118 261 75 209 1.58e-20 92.8
MsaG027411 AT1G03840.1 33.714 175 105 5 94 267 38 202 2.11e-20 92.4
MsaG027411 AT5G44160.2 36.000 150 85 4 120 268 21 160 3.08e-20 91.3
MsaG027411 AT1G03840.2 34.286 175 102 7 94 267 38 200 3.52e-20 91.7
MsaG027411 AT2G02080.6 37.086 151 82 5 121 269 1 140 5.52e-20 90.5
MsaG027411 AT2G02080.2 37.086 151 82 5 121 269 1 140 5.52e-20 90.5
MsaG027411 AT5G60470.1 37.241 145 81 5 120 263 58 193 1.53e-19 89.4
MsaG027411 AT3G45260.2 36.552 145 82 4 120 263 62 197 1.75e-19 89.4
MsaG027411 AT3G45260.1 36.552 145 82 4 120 263 62 197 1.75e-19 89.4
MsaG027411 AT1G14580.1 36.986 146 79 5 118 261 74 208 1.87e-19 89.4
MsaG027411 AT1G14580.2 36.986 146 79 5 118 261 74 208 1.87e-19 89.4
MsaG027411 AT1G14580.3 36.986 146 79 5 118 261 88 222 1.93e-19 89.4
MsaG027411 AT5G60470.3 32.039 206 127 6 59 263 5 198 2.04e-19 89.0
MsaG027411 AT5G60470.2 32.039 206 127 6 59 263 9 202 2.16e-19 89.0
MsaG027411 AT3G13810.2 34.615 156 92 4 113 267 87 233 5.35e-19 88.2
MsaG027411 AT3G13810.4 35.099 151 88 4 118 267 91 232 5.39e-19 88.2
MsaG027411 AT3G13810.1 35.099 151 88 4 118 267 91 232 5.39e-19 88.2
MsaG027411 AT3G13810.5 35.099 151 88 4 118 267 86 227 5.63e-19 88.2
MsaG027411 AT3G13810.6 35.099 151 88 4 118 267 72 213 6.12e-19 87.8
MsaG027411 AT3G13810.3 34.615 156 92 4 113 267 73 219 6.23e-19 87.8
MsaG027411 AT4G02670.1 34.211 152 90 4 113 263 69 211 3.09e-18 85.1
MsaG027411 AT4G02670.2 34.211 152 90 4 113 263 71 213 3.12e-18 85.1
MsaG027411 AT1G25250.1 30.216 139 88 4 118 254 31 162 1.26e-11 65.5
MsaG027411 AT1G25250.3 30.216 139 88 4 118 254 54 185 1.52e-11 65.1

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACTCCCCTTAGAGATTC+TGG 0.179929 5:+44269123 None:intergenic
CTCCTATTCAAGGTCAATAT+TGG 0.253994 5:-44269803 MsaT027411.1:CDS
TCAACAGTGTCATTACTATT+AGG 0.287208 5:+44270077 None:intergenic
AAAGATCATGTTCGTGCTTT+CGG 0.314009 5:-44268835 MsaT027411.1:CDS
GGTTTGTGGTTGTGTGTTCC+AGG 0.317646 5:+44270023 None:intergenic
GAAAAGGACCAGAATCTCTA+AGG 0.322420 5:-44269131 MsaT027411.1:CDS
TCACTCTCACTTGGCCCTCC+TGG 0.348650 5:-44270041 MsaT027411.1:CDS
TGATGGTCAGGTTTACTAAT+AGG 0.357579 5:+44269837 None:intergenic
TTTAATGTGGAGGATAGTTT+AGG 0.370427 5:+44270002 None:intergenic
AGCATGGAGCGAAGCCATTC+GGG 0.401651 5:-44268975 MsaT027411.1:CDS
TGGAGGATAGTTTAGGTTTG+TGG 0.408461 5:+44270009 None:intergenic
GGGAAACCATTTGCAGTTAG+AGG 0.410419 5:-44268940 MsaT027411.1:CDS
TAGTAAACCTGACCATCATT+TGG 0.411145 5:-44269832 MsaT027411.1:CDS
TTGGCTTCAGCTCCTATTCA+AGG 0.424273 5:-44269813 MsaT027411.1:CDS
AAGCATGGAGCGAAGCCATT+CGG 0.440022 5:-44268976 MsaT027411.1:CDS
TGAGAGAGTGACGAAGGTTA+AGG 0.444488 5:-44267909 MsaT027411.1:CDS
CATGTTCGTGCTTTCGGTGA+TGG 0.445219 5:-44268829 MsaT027411.1:CDS
AGAAAAGGAGTGTAAGAAGA+TGG 0.457426 5:-44268058 MsaT027411.1:CDS
CGTCGAGAGTTGTGAAGATC+AGG 0.460359 5:-44268791 MsaT027411.1:CDS
TCACCTGCTCAAATCCTCAT+TGG 0.461696 5:-44269774 MsaT027411.1:CDS
CAGTCACCTCTAACTGCAAA+TGG 0.466119 5:+44268934 None:intergenic
AGTAGAAGAGTGATTTAATG+TGG 0.470478 5:+44269989 None:intergenic
TCTTCCATTTCACTCTCACT+TGG 0.472544 5:-44270050 MsaT027411.1:CDS
ATCCAATATTGACCTTGAAT+AGG 0.474167 5:+44269801 None:intergenic
TCCTTGAGTGGCCTTGACCT+TGG 0.476401 5:+44269030 None:intergenic
AGGTTCAATTGAGGATATGT+AGG 0.476900 5:+44270097 None:intergenic
AGTCTTAACATTGATGAAGC+TGG 0.481814 5:+44269099 None:intergenic
AGGGCCAAGTGAGAGTGAAA+TGG 0.483147 5:+44270046 None:intergenic
GCTGAAGCCAAATGATGGTC+AGG 0.486435 5:+44269825 None:intergenic
GTATATATCAGATGCATATG+TGG 0.492007 5:-44269173 MsaT027411.1:intron
ATTACTATTAGGTTCAATTG+AGG 0.492152 5:+44270088 None:intergenic
GACTATGAGTGAGAGAGAAA+AGG 0.499857 5:-44268073 MsaT027411.1:intron
CAACCGTTTCAACAATATGC+AGG 0.503252 5:-44269712 MsaT027411.1:intron
CCTTGCTATTGCTGTGCAGA+GGG 0.509164 5:-44269075 MsaT027411.1:CDS
TATATATCAGATGCATATGT+GGG 0.512415 5:-44269172 MsaT027411.1:intron
ACCACTTTGATCATCATCAA+TGG 0.515814 5:+44269914 None:intergenic
TCCTTGCTATTGCTGTGCAG+AGG 0.519467 5:-44269076 MsaT027411.1:CDS
TGAGAGTGAGAGAGTGACGA+AGG 0.520522 5:-44267915 MsaT027411.1:CDS
CAGATGCATATGTGGGGACA+TGG 0.520986 5:-44269165 MsaT027411.1:CDS
CATGGATCACAATACAGAAA+AGG 0.532079 5:-44269147 MsaT027411.1:CDS
TAACCTGCATATTGTTGAAA+CGG 0.536762 5:+44269709 None:intergenic
CACTTCAAACACACTACAAG+AGG 0.550716 5:-44268999 MsaT027411.1:CDS
TGTGGTTGTGTGTTCCAGGA+GGG 0.551458 5:+44270027 None:intergenic
TCACAACTCTCGACGGTGTG+TGG 0.553384 5:+44268799 None:intergenic
AAAAGGACCAGAATCTCTAA+GGG 0.555739 5:-44269130 MsaT027411.1:CDS
TCCAAGGTCAAGGCCACTCA+AGG 0.567553 5:-44269031 MsaT027411.1:CDS
CATTTGCAGTTAGAGGTGAC+TGG 0.568578 5:-44268933 MsaT027411.1:CDS
AAGAGACAGACATGCAGACA+AGG 0.570259 5:-44267854 MsaT027411.1:CDS
TAGGAGCTGAAGCCAAATGA+TGG 0.573194 5:+44269820 None:intergenic
AAACAGTGAAATGAAAGCTA+AGG 0.578487 5:-44268031 MsaT027411.1:intron
GGAGAATGTGTGAGCTTGCA+TGG 0.580463 5:+44270118 None:intergenic
CCCTCTGCACAGCAATAGCA+AGG 0.583701 5:+44269075 None:intergenic
ATGAGGATTTGAGCAGGTGA+AGG 0.587509 5:+44269777 None:intergenic
CCATTCGGGTGTAGAAAGTG+TGG 0.590964 5:-44268961 MsaT027411.1:CDS
ACACACTACAAGAGGAAGCA+TGG 0.591744 5:-44268991 MsaT027411.1:CDS
AGAACAACATAGAGCATCCA+AGG 0.593445 5:-44269047 MsaT027411.1:CDS
CCACACTTTCTACACCCGAA+TGG 0.593700 5:+44268961 None:intergenic
CTGATCTTCACAACTCTCGA+CGG 0.614391 5:+44268792 None:intergenic
ACAGTGCAAGAGAACTGTGT+TGG 0.625514 5:+44269750 None:intergenic
AGAAGAGTGATTTAATGTGG+AGG 0.629008 5:+44269992 None:intergenic
GGTCCAATGAGGATTTGAGC+AGG 0.629341 5:+44269771 None:intergenic
ACATAGAGCATCCAAGGTCA+AGG 0.630952 5:-44269041 MsaT027411.1:CDS
ACCATTGATGATGATCAAAG+TGG 0.636581 5:-44269915 MsaT027411.1:CDS
TTGTGGTTGTGTGTTCCAGG+AGG 0.639378 5:+44270026 None:intergenic
AGAACTGTGTTGGTCCAATG+AGG 0.645090 5:+44269760 None:intergenic
AGTGTTCTGAAATCCTTGAG+TGG 0.647415 5:+44269018 None:intergenic
GTAACAGTTGCACTTCACAT+TGG 0.647512 5:-44269891 MsaT027411.1:CDS
AGAGACAGACATGCAGACAA+GGG 0.655908 5:-44267853 MsaT027411.1:CDS
CATTCGGGTGTAGAAAGTGT+GGG 0.658306 5:-44268960 MsaT027411.1:CDS
AGAGTGACGAAGGTTAAGGA+CGG 0.683555 5:-44267905 MsaT027411.1:CDS
ATATATCAGATGCATATGTG+GGG 0.720271 5:-44269171 MsaT027411.1:intron
AAAGGACCAGAATCTCTAAG+GGG 0.721082 5:-44269129 MsaT027411.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 44267811 44270138 44267811 ID=MsaG027411
Chr5 mRNA 44267811 44270138 44267811 ID=MsaT027411.1;Parent=MsaG027411
Chr5 exon 44267811 44267939 44267811 ID=MsaT027411.1.exon4;Parent=MsaT027411.1
Chr5 CDS 44267811 44267939 44267811 ID=cds.MsaT027411.1;Parent=MsaT027411.1
Chr5 exon 44268032 44268082 44268032 ID=MsaT027411.1.exon3;Parent=MsaT027411.1
Chr5 CDS 44268032 44268082 44268032 ID=cds.MsaT027411.1;Parent=MsaT027411.1
Chr5 exon 44268789 44269184 44268789 ID=MsaT027411.1.exon2;Parent=MsaT027411.1
Chr5 CDS 44268789 44269184 44268789 ID=cds.MsaT027411.1;Parent=MsaT027411.1
Chr5 exon 44269713 44270138 44269713 ID=MsaT027411.1.exon1;Parent=MsaT027411.1
Chr5 CDS 44269713 44270138 44269713 ID=cds.MsaT027411.1;Parent=MsaT027411.1
Gene Sequence

>MsaT027411.1

ATGCAAGCTCACACATTCTCCTACATATCCTCAATTGAACCTAATAGTAATGACACTGTTGATGAGTCTTCCATTTCACTCTCACTTGGCCCTCCTGGAACACACAACCACAAACCTAAACTATCCTCCACATTAAATCACTCTTCTACTACTCTTCATCATCATCATCATAATCATAATCACCACCAAAAGCAAAACTTTACCATTGATGATGATCAAAGTGGTGTAACAGTTGCACTTCACATTGGTCTTCCAACCAACATTTCACAAAACACAACACCTATTAGTAAACCTGACCATCATTTGGCTTCAGCTCCTATTCAAGGTCAATATTGGATTCCTTCACCTGCTCAAATCCTCATTGGACCAACACAGTTCTCTTGCACTGTTTGCAATAAAATGTTCAACCGTTTCAACAATATGCAGATGCATATGTGGGGACATGGATCACAATACAGAAAAGGACCAGAATCTCTAAGGGGAGTAAAACCAGCTTCATCAATGTTAAGACTTCCTTGCTATTGCTGTGCAGAGGGATGCAAGAACAACATAGAGCATCCAAGGTCAAGGCCACTCAAGGATTTCAGAACACTTCAAACACACTACAAGAGGAAGCATGGAGCGAAGCCATTCGGGTGTAGAAAGTGTGGGAAACCATTTGCAGTTAGAGGTGACTGGAGAACACATGAGAAAAACTGTGGAAAGCTTTGGTTTTGTATCTGTGGATCTGATTTCAAACACAAGAGATCTCTTAAAGATCATGTTCGTGCTTTCGGTGATGGTCATGCTCCACACACCGTCGAGAGTTGTGAAGATCAGGAAAGAGAAAAGGAGTGTAAGAAGATGGAGACAAACAGTGAAATGAAAGCTAAGAGTGAGAGTGAGAGAGTGACGAAGGTTAAGGACGGTAGTCAAGAGTATTCAGTGACTGCAGATAAGAGACAGACATGCAGACAAGGGCAGTCACAGATTCTACTGTTCACAACTTTGCATTTGCCATAG
Protein sequence

>MsaT027411.1

MQAHTFSYISSIEPNSNDTVDESSISLSLGPPGTHNHKPKLSSTLNHSSTTLHHHHHNHNHHQKQNFTIDDDQSGVTVALHIGLPTNISQNTTPISKPDHHLASAPIQGQYWIPSPAQILIGPTQFSCTVCNKMFNRFNNMQMHMWGHGSQYRKGPESLRGVKPASSMLRLPCYCCAEGCKNNIEHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFCICGSDFKHKRSLKDHVRAFGDGHAPHTVESCEDQEREKECKKMETNSEMKAKSESERVTKVKDGSQEYSVTADKRQTCRQGQSQILLFTTLHLP*