AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025670

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025670 MtrunA17_Chr5g0404321 97.596 416 10 0 1 416 1 416 0.0 841
MsaG025670 MtrunA17_Chr8g0373001 74.519 416 102 2 1 416 1 412 0.0 649
MsaG025670 MtrunA17_Chr1g0155301 62.903 434 131 8 1 416 1 422 0.0 527
MsaG025670 MtrunA17_Chr8g0373361 58.111 413 151 9 1 409 11 405 1.97e-159 455
MsaG025670 MtrunA17_Chr2g0278511 55.069 434 170 12 1 416 1 427 1.07e-153 441
MsaG025670 MtrunA17_Chr2g0286441 57.182 369 151 3 48 416 32 393 1.57e-149 429
MsaG025670 MtrunA17_Chr1g0201891 53.182 440 173 12 1 416 1 431 6.26e-149 429
MsaG025670 MtrunA17_Chr1g0196071 52.871 418 179 7 1 416 1 402 3.18e-146 421
MsaG025670 MtrunA17_Chr8g0373331 51.090 413 129 9 1 407 1 346 8.66e-132 382
MsaG025670 MtrunA17_Chr2g0315641 50.829 362 146 2 55 416 42 371 2.35e-127 372
MsaG025670 MtrunA17_Chr2g0315651 44.772 373 167 6 48 416 30 367 4.20e-101 305
MsaG025670 MtrunA17_Chr8g0373351 45.663 392 95 11 37 413 3 291 9.75e-95 286
MsaG025670 MtrunA17_Chr1g0156151 51.982 227 101 2 1 223 1 223 3.32e-76 236
MsaG025670 MtrunA17_Chr8g0373341 53.333 225 59 6 1 207 1 197 1.16e-55 186
MsaG025670 MtrunA17_Chr8g0373341 55.556 117 51 1 291 406 204 320 4.43e-34 129
MsaG025670 MtrunA17_Chr3g0091401 71.134 97 22 1 98 194 9 99 2.84e-37 131
MsaG025670 MtrunA17_Chr2g0334041 36.697 109 54 4 313 415 260 359 1.55e-12 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025670 AT2G18280.2 63.876 418 124 7 1 416 1 393 0.0 518
MsaG025670 AT2G18280.1 63.876 418 124 7 1 416 1 393 0.0 518
MsaG025670 AT1G47270.3 58.333 396 131 9 32 416 16 388 9.58e-155 442
MsaG025670 AT1G47270.1 58.333 396 131 9 32 416 41 413 1.23e-154 443
MsaG025670 AT1G47270.2 58.333 396 131 9 32 416 40 412 1.40e-154 443
MsaG025670 AT1G25280.1 53.795 448 172 9 1 416 1 445 1.42e-153 442
MsaG025670 AT2G47900.3 53.589 418 181 5 1 416 1 407 6.76e-152 436
MsaG025670 AT2G47900.2 53.717 417 181 5 1 416 1 406 1.27e-151 436
MsaG025670 AT2G47900.1 53.717 417 181 5 1 416 1 406 1.27e-151 436
MsaG025670 AT1G76900.2 50.866 462 174 9 1 416 1 455 3.52e-145 421
MsaG025670 AT1G76900.1 50.866 462 174 9 1 416 1 455 3.52e-145 421
MsaG025670 AT1G76900.3 50.866 462 174 9 1 416 1 455 3.52e-145 421
MsaG025670 AT1G43640.1 50.000 442 182 12 1 416 1 429 1.51e-142 413
MsaG025670 AT5G18680.1 53.887 373 147 7 51 416 35 389 2.56e-130 380
MsaG025670 AT1G43640.2 52.151 372 147 9 67 416 1 363 1.84e-128 375
MsaG025670 AT3G06380.1 51.671 389 168 7 31 416 9 380 4.05e-128 375
MsaG025670 AT1G53320.1 51.934 362 148 3 55 416 44 379 1.60e-124 365
MsaG025670 AT5G18680.2 54.369 309 117 6 114 416 7 297 1.69e-105 314
MsaG025670 AT3G06380.2 54.153 301 119 6 118 416 5 288 2.10e-101 303
MsaG025670 AT1G25280.3 56.180 267 93 6 174 416 1 267 1.05e-94 285
MsaG025670 AT1G25280.2 56.180 267 93 6 174 416 1 267 1.05e-94 285
MsaG025670 AT1G61940.2 50.575 87 43 0 58 144 1 87 4.21e-26 106
MsaG025670 AT1G61940.1 54.098 61 28 0 58 118 1 61 6.01e-16 77.4

Find 110 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCTGCTGGACCGGCTATT+TGG 0.209525 5:+11261685 None:intergenic
CCAATTGGATCTTTACCTTT+TGG 0.222216 5:+11261439 None:intergenic
TAACACGGCCCTTGAAATTT+AGG 0.254077 5:+11261302 None:intergenic
CCAGCAGGAGATTTCATTCT+AGG 0.267212 5:-11261672 MsaT025670.1:CDS
TGGAAAAGATATATTTACTA+TGG 0.274718 5:-11261176 MsaT025670.1:CDS
CACAGACTTCATCATATCTT+TGG 0.281729 5:-11261918 MsaT025670.1:CDS
ATCACCTGCTTTAACGAAAT+AGG 0.313540 5:+11263210 None:intergenic
TTGCAGCTGTTCATGCCATC+TGG 0.337933 5:+11261333 None:intergenic
ATCTTGCAGTTTGGAAAGAT+TGG 0.342353 5:-11261196 MsaT025670.1:CDS
CGTCAATCTTCCACACTCTT+CGG 0.347596 5:+11263236 None:intergenic
TTCAACCCTCGCAGAGTTGC+CGG 0.349688 5:-11261404 MsaT025670.1:CDS
GTCAATCTTCCACACTCTTC+GGG 0.352453 5:+11263237 None:intergenic
GAGAAGGTTATCTTGCAGTT+TGG 0.354935 5:-11261205 MsaT025670.1:CDS
TATACCTGTCTCAGCTGTTC+AGG 0.357164 5:-11261539 MsaT025670.1:CDS
TAGAAGAGACCGAGACTTCT+TGG 0.372683 5:-11263338 MsaT025670.1:CDS
TCTGCATATCTATTGTACTA+TGG 0.382229 5:-11263034 MsaT025670.1:CDS
ATGATGCAATTCATTCTTCT+CGG 0.382856 5:+11261568 None:intergenic
CCAAGGGCCATTTGAGTCTC+TGG 0.405945 5:-11261374 MsaT025670.1:CDS
ATAACCTTCTCTTGCTCTGC+AGG 0.415381 5:+11261217 None:intergenic
ATGCTGGTGCCTAAATTTCA+AGG 0.430024 5:-11261311 MsaT025670.1:CDS
TGAGGAAAAGATGTAGGAGT+TGG 0.437219 5:+11261502 None:intergenic
ACCTATTCAGCAGGGACAAT+GGG 0.444059 5:-11263403 MsaT025670.1:CDS
AGTGATGTTAGAGTGATATC+AGG 0.447610 5:+11263429 None:intergenic
GAATTGCTTAAATCTCCAAT+TGG 0.451744 5:+11261424 None:intergenic
TGGAGGTTGGCTGTCATATA+TGG 0.452519 5:+11261726 None:intergenic
CTCCGATACAGTGCTTCATC+AGG 0.459633 5:-11263072 MsaT025670.1:CDS
GCCCATTGTCCCTGCTGAAT+AGG 0.468212 5:+11263402 None:intergenic
CCAAAAGGTAAAGATCCAAT+TGG 0.470093 5:-11261439 MsaT025670.1:CDS
ATCACTTGAACCTATTCAGC+AGG 0.471218 5:-11263412 MsaT025670.1:CDS
TAGTTACACGCTGGAACTCT+TGG 0.471948 5:+11261640 None:intergenic
AGCCAACCTCCACACGGAGC+TGG 0.473234 5:-11261715 MsaT025670.1:CDS
GGCATGAACAGCTGCAATGC+TGG 0.474704 5:-11261327 MsaT025670.1:CDS
AATGAAATCTCCTGCTGGAC+CGG 0.476146 5:+11261677 None:intergenic
GCGGAGAACATTCAGCTCAT+AGG 0.477645 5:+11261600 None:intergenic
AACTCAAGGAGATGAGGGAT+GGG 0.484739 5:-11263521 MsaT025670.1:CDS
CTGAATGTTCTCCGCACTAG+AGG 0.484848 5:-11261592 MsaT025670.1:CDS
CGTTCCAGCAATGCGTATGT+TGG 0.488866 5:-11261878 MsaT025670.1:CDS
AACCAAATAGCCGGTCCAGC+AGG 0.493265 5:-11261687 MsaT025670.1:CDS
AATGGCCCTTGGCTCTGAAC+CGG 0.498889 5:+11261385 None:intergenic
GTAATTTGAGGAAAAGATGT+AGG 0.503684 5:+11261496 None:intergenic
GAACTCAAGGAGATGAGGGA+TGG 0.505860 5:-11263522 MsaT025670.1:CDS
TGCAGCTGTTCATGCCATCT+GGG 0.506117 5:+11261334 None:intergenic
GTTTCCTATTTCGTTAAAGC+AGG 0.506221 5:-11263214 MsaT025670.1:intron
CCTTCCTGAACAGCTGAGAC+AGG 0.514005 5:+11261535 None:intergenic
GAGTTGCCGGTTCAGAGCCA+AGG 0.518280 5:-11261391 MsaT025670.1:CDS
CAGGAGATTTCATTCTAGGC+AGG 0.528326 5:-11261668 MsaT025670.1:CDS
CATGGATCTCATTCACATGC+TGG 0.528401 5:+11261088 None:intergenic
TTGAGTACCAGAGACTCAAA+TGG 0.530012 5:+11261367 None:intergenic
AGTTAAGAACTTTCAACTTG+TGG 0.534362 5:-11261269 MsaT025670.1:CDS
GAAACGACAACAGCACGTGC+AGG 0.536741 5:+11263315 None:intergenic
CCTAGAATGAAATCTCCTGC+TGG 0.538624 5:+11261672 None:intergenic
AAATGCTCATCAGTAATTTG+AGG 0.539761 5:+11261484 None:intergenic
CCTGTCTCAGCTGTTCAGGA+AGG 0.540458 5:-11261535 MsaT025670.1:CDS
TGTCGTTGAGAAGCATAGTA+CGG 0.541748 5:-11263545 MsaT025670.1:CDS
CTGTCTCAGCTGTTCAGGAA+GGG 0.541956 5:-11261534 MsaT025670.1:CDS
CGAGGAGAGGTGTGGCAAGT+AGG 0.542255 5:-11263485 MsaT025670.1:CDS
GCATATCGCAAAGGCTTGGA+AGG 0.543599 5:+11261132 None:intergenic
GCTGTCATATATGGTGAACT+TGG 0.544644 5:+11261735 None:intergenic
GTGCTTCTGTGTGTAAATCA+TGG 0.549837 5:-11263290 MsaT025670.1:CDS
CCAGAGACTCAAATGGCCCT+TGG 0.550663 5:+11261374 None:intergenic
TTCCAGCTCCGTGTGGAGGT+TGG 0.551308 5:+11261713 None:intergenic
AACCTATTCAGCAGGGACAA+TGG 0.551680 5:-11263404 MsaT025670.1:CDS
ACGTGCAGGCCAAGAAGTCT+CGG 0.554427 5:+11263329 None:intergenic
AAGCATAGTACGGGAACTCA+AGG 0.555180 5:-11263535 MsaT025670.1:CDS
TCTGAACCGGCAACTCTGCG+AGG 0.556736 5:+11261398 None:intergenic
AAGGAGATGAGGGATGGGAT+TGG 0.557067 5:-11263516 MsaT025670.1:CDS
TGCTACTTGATATAATTCGA+AGG 0.558581 5:-11263362 MsaT025670.1:CDS
TGTCTCAGCTGTTCAGGAAG+GGG 0.560697 5:-11261533 MsaT025670.1:CDS
ATCGGAGAATCACGAGGACC+CGG 0.561657 5:+11263088 None:intergenic
CTCCTGATGAAGCACTGTAT+CGG 0.562380 5:+11263070 None:intergenic
TTCTTCTCGGCCCTCTAGTG+CGG 0.564773 5:+11261581 None:intergenic
GTCTCAGCTGTTCAGGAAGG+GGG 0.566290 5:-11261532 MsaT025670.1:CDS
CTGAACCGGCAACTCTGCGA+GGG 0.569008 5:+11261399 None:intergenic
GTCGTTGAGAAGCATAGTAC+GGG 0.569276 5:-11263544 MsaT025670.1:CDS
ATATCTATTGTACTATGGAC+TGG 0.572719 5:-11263029 MsaT025670.1:CDS
GCTACTTGATATAATTCGAA+GGG 0.575810 5:-11263361 MsaT025670.1:CDS
GCGTCAGCACCAGAGCCAAA+AGG 0.578551 5:-11261454 MsaT025670.1:CDS
TCAAGCATATCGCAAAGGCT+TGG 0.579509 5:+11261128 None:intergenic
CTGGAATACAACCAAATAGC+CGG 0.589720 5:-11261696 MsaT025670.1:CDS
CGATACAGTGCTTCATCAGG+AGG 0.590035 5:-11263069 MsaT025670.1:CDS
TACGGGAACTCAAGGAGATG+AGG 0.591073 5:-11263527 MsaT025670.1:CDS
CTGAACAATCTCTTGTGTAA+CGG 0.594307 5:+11263263 None:intergenic
ACGGGAACTCAAGGAGATGA+GGG 0.594362 5:-11263526 MsaT025670.1:CDS
TTCTCCTGCAGAGCAAGAGA+AGG 0.597006 5:-11261221 MsaT025670.1:CDS
ATGCGTATGTTGGAAAACTC+AGG 0.602255 5:-11261868 MsaT025670.1:intron
AGTTGCCGGTTCAGAGCCAA+GGG 0.602888 5:-11261390 MsaT025670.1:CDS
GCAGGAGAAACATTATGAGA+TGG 0.604319 5:+11261235 None:intergenic
CAAGTAGGCATTCACAGCGT+CGG 0.608761 5:-11263470 MsaT025670.1:CDS
GGAAGGCAGAGAGTGGATAA+CGG 0.610357 5:+11261149 None:intergenic
GCTGCTCAAGCATATCGCAA+AGG 0.610612 5:+11261123 None:intergenic
TTTCAAGGGCCGTGTTACAG+TGG 0.611483 5:-11261296 MsaT025670.1:CDS
TGAATGTTCTCCGCACTAGA+GGG 0.618617 5:-11261591 MsaT025670.1:CDS
AAGGCTTGGAAGGCAGAGAG+TGG 0.622272 5:+11261142 None:intergenic
TTCTGTGTGTAAATCATGGA+GGG 0.630242 5:-11263286 MsaT025670.1:CDS
AGATATGATGAAGTCTGTGC+CGG 0.635175 5:+11261922 None:intergenic
GTTCAGACTCCCGAAGAGTG+TGG 0.642949 5:-11263246 MsaT025670.1:CDS
TGCTGGTGCCTAAATTTCAA+GGG 0.642974 5:-11261310 MsaT025670.1:CDS
TAACTGAAGCCACTGTAACA+CGG 0.643817 5:+11261287 None:intergenic
TGTATTCCAGCTCCGTGTGG+AGG 0.645160 5:+11261709 None:intergenic
CTTCTGTGTGTAAATCATGG+AGG 0.649209 5:-11263287 MsaT025670.1:CDS
ATTGGTAATACGTCGAGGAG+AGG 0.649495 5:-11263498 MsaT025670.1:CDS
ATATCAAGTAGCAATTCAGA+TGG 0.650336 5:+11263372 None:intergenic
GGTTGTATTCCAGCTCCGTG+TGG 0.669899 5:+11261706 None:intergenic
CACTGTATCGGAGAATCACG+AGG 0.670191 5:+11263082 None:intergenic
GATACAGTGCTTCATCAGGA+GGG 0.688983 5:-11263068 MsaT025670.1:CDS
TCACTTGAACCTATTCAGCA+GGG 0.690245 5:-11263411 MsaT025670.1:CDS
TAATACGTCGAGGAGAGGTG+TGG 0.694801 5:-11263493 MsaT025670.1:CDS
ATGGGATTGGTAATACGTCG+AGG 0.700501 5:-11263503 MsaT025670.1:CDS
CTAACAATATAGTTACACGC+TGG 0.700643 5:+11261631 None:intergenic
TATGACAGCCAACCTCCACA+CGG 0.700970 5:-11261721 MsaT025670.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 11261096 11263568 11261096 ID=MsaG025670
Chr5 mRNA 11261096 11263568 11261096 ID=MsaT025670.1;Parent=MsaG025670
Chr5 exon 11261096 11261774 11261096 ID=MsaT025670.1.exon4;Parent=MsaT025670.1
Chr5 CDS 11261096 11261774 11261096 ID=cds.MsaT025670.1;Parent=MsaT025670.1
Chr5 exon 11261869 11261998 11261869 ID=MsaT025670.1.exon3;Parent=MsaT025670.1
Chr5 CDS 11261869 11261998 11261869 ID=cds.MsaT025670.1;Parent=MsaT025670.1
Chr5 exon 11263023 11263110 11263023 ID=MsaT025670.1.exon2;Parent=MsaT025670.1
Chr5 CDS 11263023 11263110 11263023 ID=cds.MsaT025670.1;Parent=MsaT025670.1
Chr5 exon 11263215 11263568 11263215 ID=MsaT025670.1.exon1;Parent=MsaT025670.1
Chr5 CDS 11263215 11263568 11263215 ID=cds.MsaT025670.1;Parent=MsaT025670.1
Gene Sequence

>MsaT025670.1

ATGTCGTTGAGAAGCATAGTACGGGAACTCAAGGAGATGAGGGATGGGATTGGTAATACGTCGAGGAGAGGTGTGGCAAGTAGGCATTCACAGCGTCGGACAAAGTCGCATATTGTTCCTGATATCACTCTAACATCACTTGAACCTATTCAGCAGGGACAATGGGCGAATATACCATCTGAATTGCTACTTGATATAATTCGAAGGGTAGAAGAGACCGAGACTTCTTGGCCTGCACGTGCTGTTGTCGTTTCTTGTGCTTCTGTGTGTAAATCATGGAGGGCCGTTACACAAGAGATTGTTCAGACTCCCGAAGAGTGTGGAAGATTGACGTTTCCTATTTCGTTAAAGCAGCCGGGTCCTCGTGATTCTCCGATACAGTGCTTCATCAGGAGGGACAGAGAAACTTCTGCATATCTATTGTACTATGGACTGGTGCCATCGGAAAATGAGACTGATAAGCTGTTATTAGCTGCCAAAAAGATAAGGAGGGCAACCGGCACAGACTTCATCATATCTTTGGTTGCTGATGATTTTTCTCGTTCCAGCAATGCGTATGTTGGAAAACTCAGGTCTAACTTTTTGGGAACCAAGTTCACCATATATGACAGCCAACCTCCACACGGAGCTGGAATACAACCAAATAGCCGGTCCAGCAGGAGATTTCATTCTAGGCAGGTGTCTCCAAGAGTTCCAGCGTGTAACTATATTGTTAGCACTATTGCCTATGAGCTGAATGTTCTCCGCACTAGAGGGCCGAGAAGAATGAATTGCATCATGAATTCTATACCTGTCTCAGCTGTTCAGGAAGGGGGCAATGCTCCAACTCCTACATCTTTTCCTCAAATTACTGATGAGCATTTTTGTTCTGCGTCAGCACCAGAGCCAAAAGGTAAAGATCCAATTGGAGATTTAAGCAATTCAACCCTCGCAGAGTTGCCGGTTCAGAGCCAAGGGCCATTTGAGTCTCTGGTACTCAAAAACAAGTCTCCCAGATGGCATGAACAGCTGCAATGCTGGTGCCTAAATTTCAAGGGCCGTGTTACAGTGGCTTCAGTTAAGAACTTTCAACTTGTGGCTGCTGTTGAGCCATCTCATAATGTTTCTCCTGCAGAGCAAGAGAAGGTTATCTTGCAGTTTGGAAAGATTGGAAAAGATATATTTACTATGGATTACCGTTATCCACTCTCTGCCTTCCAAGCCTTTGCGATATGCTTGAGCAGCTTTGATACAAAACCAGCATGTGAATGA
Protein sequence

>MsaT025670.1

MSLRSIVRELKEMRDGIGNTSRRGVASRHSQRRTKSHIVPDITLTSLEPIQQGQWANIPSELLLDIIRRVEETETSWPARAVVVSCASVCKSWRAVTQEIVQTPEECGRLTFPISLKQPGPRDSPIQCFIRRDRETSAYLLYYGLVPSENETDKLLLAAKKIRRATGTDFIISLVADDFSRSSNAYVGKLRSNFLGTKFTIYDSQPPHGAGIQPNSRSSRRFHSRQVSPRVPACNYIVSTIAYELNVLRTRGPRRMNCIMNSIPVSAVQEGGNAPTPTSFPQITDEHFCSASAPEPKGKDPIGDLSNSTLAELPVQSQGPFESLVLKNKSPRWHEQLQCWCLNFKGRVTVASVKNFQLVAAVEPSHNVSPAEQEKVILQFGKIGKDIFTMDYRYPLSAFQAFAICLSSFDTKPACE*