AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008559

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008559 MtrunA17_Chr2g0304101 98.333 300 5 0 1 300 14 313 0.0 597
MsaG008559 MtrunA17_Chr5g0417641 42.910 268 147 1 30 291 25 292 2.47e-67 212
MsaG008559 MtrunA17_Chr2g0311181 39.916 238 138 2 56 293 69 301 1.63e-59 192
MsaG008559 MtrunA17_Chr7g0250261 40.870 230 125 6 72 291 51 279 4.13e-43 149
MsaG008559 MtrunA17_Chr0c29g0494001 40.870 230 125 6 72 291 51 279 4.13e-43 149
MsaG008559 MtrunA17_Chr3g0094341 34.286 175 110 2 56 230 31 200 9.22e-32 118
MsaG008559 MtrunA17_Chr2g0294671 29.752 242 155 6 57 297 261 488 2.79e-24 102
MsaG008559 MtrunA17_Chr4g0034981 28.514 249 169 6 55 296 344 590 2.12e-23 100
MsaG008559 MtrunA17_Chr5g0428941 26.515 264 153 7 69 293 223 484 2.79e-20 90.9
MsaG008559 MtrunA17_Chr6g0448821 25.439 228 158 4 70 291 135 356 1.85e-19 87.4
MsaG008559 MtrunA17_Chr4g0043941 24.000 250 180 4 52 291 69 318 3.08e-18 83.6
MsaG008559 MtrunA17_Chr1g0212691 25.926 270 159 5 63 293 185 452 7.82e-18 83.6
MsaG008559 MtrunA17_Chr5g0445491 24.215 223 154 4 57 268 227 445 3.85e-17 81.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008559 AT2G34620.1 66.212 293 92 3 9 295 3 294 2.81e-128 367
MsaG008559 AT2G03050.2 47.679 237 123 1 56 291 33 269 4.23e-69 216
MsaG008559 AT2G03050.1 47.679 237 123 1 56 291 32 268 4.67e-69 216
MsaG008559 AT2G36000.1 37.860 243 142 4 58 296 75 312 4.07e-53 177
MsaG008559 AT2G36000.2 37.190 242 145 3 58 296 75 312 4.35e-53 176
MsaG008559 AT3G18870.1 38.115 244 142 4 51 291 31 268 1.55e-46 158
MsaG008559 AT2G21710.1 28.745 247 167 6 57 296 353 597 3.88e-25 105
MsaG008559 AT4G14605.2 30.583 206 139 4 86 291 266 467 1.23e-21 95.1
MsaG008559 AT4G14605.1 30.583 206 139 4 86 291 266 467 1.23e-21 95.1
MsaG008559 AT1G78930.1 25.764 229 166 3 65 291 348 574 5.88e-20 90.5
MsaG008559 AT4G02990.2 27.037 270 156 8 63 293 225 492 9.50e-17 80.9
MsaG008559 AT4G02990.1 27.037 270 156 8 63 293 225 492 9.50e-17 80.9
MsaG008559 AT4G38160.4 24.901 253 179 4 52 293 70 322 1.38e-16 79.3
MsaG008559 AT4G38160.1 24.901 253 179 4 52 293 70 322 1.38e-16 79.3
MsaG008559 AT4G38160.3 24.901 253 179 4 52 293 70 322 1.64e-16 79.3
MsaG008559 AT5G55580.2 24.771 218 160 4 60 273 120 337 2.18e-16 79.3
MsaG008559 AT5G55580.1 24.771 218 160 4 60 273 226 443 2.34e-16 79.7
MsaG008559 AT4G38160.2 24.901 253 179 4 52 293 70 322 2.41e-16 79.0
MsaG008559 AT2G44020.1 24.444 270 163 5 63 293 190 457 1.09e-15 77.4
MsaG008559 AT2G21710.2 25.728 206 144 6 57 255 353 556 3.04e-14 73.2
MsaG008559 AT2G21710.3 25.366 205 144 6 57 254 353 555 2.37e-13 70.9

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCACTGATGATGAATTT+AGG 0.164075 2:-37174297 MsaT008559.1:CDS
ACTTAAGCATTTGGAGAGTA+TGG 0.202455 2:-37174557 MsaT008559.1:CDS
ATGCTTGAAGTTAGAATCTT+AGG 0.203161 2:+37174814 None:intergenic
TTATCAAGATTGTGTTCTTT+TGG 0.240932 2:-37174611 MsaT008559.1:CDS
CTGTATGAAGGTTAGGGTTT+TGG 0.245384 2:+37174926 None:intergenic
TTTGGGTTTGGGAGTTAAAT+TGG 0.262027 2:+37175065 None:intergenic
GAAGTAATGGGCATTGATTC+AGG 0.276282 2:-37174961 MsaT008559.1:CDS
TAGTTTGGAGAATAGGATTA+AGG 0.288294 2:-37174377 MsaT008559.1:CDS
TGTGGAAATGAAGAGGAAAT+TGG 0.300179 2:-37174434 MsaT008559.1:CDS
GTCTTTATGTTGGATACCTT+TGG 0.310081 2:+37174861 None:intergenic
GGACACATGCCAAAGATTCT+TGG 0.310114 2:+37174835 None:intergenic
AAGCACTGATGATGAATTTA+GGG 0.313178 2:-37174296 MsaT008559.1:CDS
AAAGACCTTCCAAGAATCTT+TGG 0.314251 2:-37174844 MsaT008559.1:CDS
AATGTAGCTGTATGAAGGTT+AGG 0.329816 2:+37174919 None:intergenic
TATTCCTAAACTTAAGCATT+TGG 0.349186 2:-37174566 MsaT008559.1:CDS
CTCTCCAAATGCTTAAGTTT+AGG 0.351147 2:+37174562 None:intergenic
ATTCTTTGTCTTGAAGTAAT+GGG 0.356794 2:-37174973 MsaT008559.1:CDS
GGAAACAAGAAAGGTTATAA+TGG 0.358255 2:+37174882 None:intergenic
GATTCTTTGTCTTGAAGTAA+TGG 0.416623 2:-37174974 MsaT008559.1:CDS
ACACTAGAAGTAAGCAATCT+TGG 0.430968 2:+37174703 None:intergenic
AAAGGTTATAATGGAATGAA+TGG 0.434056 2:+37174891 None:intergenic
ATTAAGAGATTTAGAAGCAT+TGG 0.444652 2:-37174635 MsaT008559.1:CDS
GATACCTTTGGAAACAAGAA+AGG 0.447305 2:+37174873 None:intergenic
GGTTAGACACATGGAGGTTG+TGG 0.452524 2:-37174356 MsaT008559.1:CDS
TTTAGGGAGTTGATAAAGAA+GGG 0.454349 2:-37174280 MsaT008559.1:CDS
AGAGCTATGGTTCTAGCAGC+TGG 0.458017 2:+37175144 None:intergenic
TTCTTGGAAGGTCTTTATGT+TGG 0.468294 2:+37174851 None:intergenic
ATGTAGCTGTATGAAGGTTA+GGG 0.471857 2:+37174920 None:intergenic
CACATGGAGGTTGTGGAAAG+TGG 0.473398 2:-37174349 MsaT008559.1:CDS
TTGGTTGAAGGAGGTGATGA+TGG 0.480821 2:+37175084 None:intergenic
TAAAGAAGAGGCTAGGTGTA+TGG 0.485234 2:-37174527 MsaT008559.1:CDS
CTTAAGCATTTGGAGAGTAT+GGG 0.487893 2:-37174556 MsaT008559.1:CDS
AATAAGTGTCCTTTCAACAT+TGG 0.489396 2:+37174585 None:intergenic
ATTTAGGGAGTTGATAAAGA+AGG 0.499226 2:-37174281 MsaT008559.1:CDS
TTGGGAGTTAAATTGGTTGA+AGG 0.501320 2:+37175072 None:intergenic
GGAGTTAAATTGGTTGAAGG+AGG 0.504389 2:+37175075 None:intergenic
TCATGAGTTGGTGTGTAAAG+TGG 0.520744 2:+37175024 None:intergenic
ATAACCTTTCTTGTTTCCAA+AGG 0.524436 2:-37174877 MsaT008559.1:CDS
CTGTTAAGATAAAACAAAGC+TGG 0.538212 2:+37174664 None:intergenic
AGGCTAGGTGTATGGTGTTG+AGG 0.553273 2:-37174519 MsaT008559.1:CDS
ATTCTAATGTAGCTGTATGA+AGG 0.553387 2:+37174914 None:intergenic
ATTGCTTACTTCTAGTGTGG+TGG 0.553869 2:-37174698 MsaT008559.1:CDS
ATACTAAAAGTCAACAATGC+AGG 0.557976 2:+37174493 None:intergenic
AAGATTGCTTACTTCTAGTG+TGG 0.564951 2:-37174701 MsaT008559.1:CDS
TGAAGATGAGTGTAGAGCTA+TGG 0.568612 2:+37175131 None:intergenic
TAGGGAGTTGATAAAGAAGG+GGG 0.580226 2:-37174278 MsaT008559.1:CDS
ACATGGAGGTTGTGGAAAGT+GGG 0.587398 2:-37174348 MsaT008559.1:CDS
GGAAATGAAGAGGAAATTGG+AGG 0.591697 2:-37174431 MsaT008559.1:CDS
GAGCTATGGTTCTAGCAGCT+GGG 0.599605 2:+37175145 None:intergenic
TATGGGATTTACTAAAGAAG+AGG 0.599972 2:-37174539 MsaT008559.1:CDS
TTAGGGAGTTGATAAAGAAG+GGG 0.610325 2:-37174279 MsaT008559.1:CDS
GAGTTGGTGTGTAAAGTGGA+TGG 0.622825 2:+37175028 None:intergenic
GATTTACTAAAGAAGAGGCT+AGG 0.635507 2:-37174534 MsaT008559.1:CDS
TAGGATTAAGGTTAGACACA+TGG 0.648833 2:-37174365 MsaT008559.1:CDS
ACATGCCAAAGATTCTTGGA+AGG 0.652767 2:+37174839 None:intergenic
AAACTAAAAGAGAAATACTG+AGG 0.668925 2:+37174394 None:intergenic
GATTAAGGTTAGACACATGG+AGG 0.697654 2:-37174362 MsaT008559.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 37174270 37175172 37174270 ID=MsaG008559
Chr2 mRNA 37174270 37175172 37174270 ID=MsaT008559.1;Parent=MsaG008559
Chr2 exon 37174270 37175172 37174270 ID=MsaT008559.1.exon1;Parent=MsaT008559.1
Chr2 CDS 37174270 37175172 37174270 ID=cds.MsaT008559.1;Parent=MsaT008559.1
Gene Sequence

>MsaT008559.1

ATGTTCCCAGCTGCTAGAACCATAGCTCTACACTCATCTTCACTATGTTCAGTCTCATCTGATAAACCATCATCACCTCCTTCAACCAATTTAACTCCCAAACCCAAAAGTCTCCTTCAAAACCATCCACTTTACACACCAACTCATGAAAAACTCTCACTTCAATTCAAAGAAAAGATTCTTTGTCTTGAAGTAATGGGCATTGATTCAGGTAAAGCACTCTCCCAAAACCCTAACCTTCATACAGCTACATTAGAATCCATTCATTCCATTATAACCTTTCTTGTTTCCAAAGGTATCCAACATAAAGACCTTCCAAGAATCTTTGGCATGTGTCCTAAGATTCTAACTTCAAGCATCAAAACTGATCTTATCCCAGTTTTTGATTTTCTCATACATGATCTTAAAGTGCCTGATCATAGCTTTAGAAAAGTTATCAAAAAGTGTCCAAGATTGCTTACTTCTAGTGTGGTGGATCAGCTTAAACCAGCTTTGTTTTATCTTAACAGATTAGGATTAAGAGATTTAGAAGCATTGGCTTATCAAGATTGTGTTCTTTTGGTTTCCAATGTTGAAAGGACACTTATTCCTAAACTTAAGCATTTGGAGAGTATGGGATTTACTAAAGAAGAGGCTAGGTGTATGGTGTTGAGGTGTCCTGCATTGTTGACTTTTAGTATTGAGAATAATTTTCAGCCTAAATTTGAGTATTTTTCTGTGGAAATGAAGAGGAAATTGGAGGAGTTGAAAGAGTTTCCTCAGTATTTCTCTTTTAGTTTGGAGAATAGGATTAAGGTTAGACACATGGAGGTTGTGGAAAGTGGGATCAATTTGCCTTTGTCATTGATGCTTAAAAGCACTGATGATGAATTTAGGGAGTTGATAAAGAAGGGGGCTGGATGA
Protein sequence

>MsaT008559.1

MFPAARTIALHSSSLCSVSSDKPSSPPSTNLTPKPKSLLQNHPLYTPTHEKLSLQFKEKILCLEVMGIDSGKALSQNPNLHTATLESIHSIITFLVSKGIQHKDLPRIFGMCPKILTSSIKTDLIPVFDFLIHDLKVPDHSFRKVIKKCPRLLTSSVVDQLKPALFYLNRLGLRDLEALAYQDCVLLVSNVERTLIPKLKHLESMGFTKEEARCMVLRCPALLTFSIENNFQPKFEYFSVEMKRKLEELKEFPQYFSFSLENRIKVRHMEVVESGINLPLSLMLKSTDDEFRELIKKGAG*