AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009933

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009933 MtrunA17_Chr2g0308841 66.667 135 45 0 186 320 92 226 5.02e-62 203
MsaG009933 MtrunA17_Chr1g0203051 33.708 178 112 2 13 190 3 174 3.89e-26 112
MsaG009933 MtrunA17_Chr1g0203051 37.821 156 86 3 163 308 467 621 4.70e-24 105
MsaG009933 MtrunA17_Chr1g0171741 42.520 127 71 2 64 190 103 227 8.94e-24 100
MsaG009933 MtrunA17_Chr8g0389811 36.441 118 75 0 73 190 62 179 1.61e-23 98.2
MsaG009933 MtrunA17_Chr2g0287651 29.730 259 162 5 190 443 501 744 8.02e-23 102
MsaG009933 MtrunA17_Chr2g0287651 34.021 97 64 0 94 190 74 170 8.83e-15 77.4
MsaG009933 MtrunA17_Chr6g0473421 38.760 129 75 2 45 170 3 130 1.35e-21 91.3
MsaG009933 MtrunA17_Chr2g0331371 32.955 176 105 3 45 217 3 168 1.40e-21 92.8
MsaG009933 MtrunA17_Chr1g0172931 39.655 116 66 2 63 177 46 158 2.53e-19 85.1
MsaG009933 MtrunA17_Chr3g0118611 29.193 161 110 2 193 353 374 530 2.57e-14 75.9
MsaG009933 MtrunA17_Chr5g0440451 27.473 182 126 4 193 373 477 653 7.41e-13 71.2
MsaG009933 MtrunA17_Chr2g0277171 56.250 80 34 1 1 80 1 79 2.79e-12 62.4
MsaG009933 MtrunA17_Chr5g0448511 30.233 129 89 1 193 321 270 397 2.99e-12 68.9
MsaG009933 MtrunA17_Chr6g0458391 28.889 135 94 2 187 321 633 765 4.30e-11 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009933 AT2G27110.2 30.534 131 90 1 194 324 453 582 9.11e-14 74.3
MsaG009933 AT2G27110.1 30.534 131 90 1 194 324 453 582 9.11e-14 74.3
MsaG009933 AT2G27110.3 30.534 131 90 1 194 324 308 437 1.31e-13 73.9
MsaG009933 AT4G38170.1 31.061 132 90 1 190 321 269 399 4.94e-12 68.6

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAATTGTGTTTAACGATA+TGG 0.229082 2:-66402574 MsaT009933.1:CDS
TAAAGAAAGCATTGCTTATC+AGG 0.267259 2:-66401103 MsaT009933.1:CDS
CGATGAGCTTCCCAATTGTT+TGG 0.309675 2:-66400895 MsaT009933.1:CDS
CAATCTGCAGCAAGATATTC+TGG 0.314174 2:-66400795 MsaT009933.1:CDS
TCATTTACCGTAGGCAAAAC+TGG 0.325615 2:+66400636 None:intergenic
TGTAGTAATTGTGGTGTAAT+AGG 0.325728 2:-66400519 MsaT009933.1:CDS
CAGCTAAATTTAAATCTTCC+TGG 0.331544 2:-66400474 MsaT009933.1:CDS
ATTCAAGTGGTTCTTTGTAC+TGG 0.339799 2:-66400824 MsaT009933.1:CDS
GTTTCAATGTACCGTCTTGC+TGG 0.354894 2:-66401038 MsaT009933.1:CDS
CAGCAACTTCTTTGCACAAC+TGG 0.354915 2:+66400766 None:intergenic
TACGTAAGGGTCAAATGATT+AGG 0.360442 2:-66402428 MsaT009933.1:CDS
TCTGATTTCCAATCTAACTA+TGG 0.363449 2:-66401218 MsaT009933.1:CDS
TGTTGGTTTGCTAGAATGTC+CGG 0.368843 2:-66402459 MsaT009933.1:CDS
CAGGTTGACCATAGTTAGAT+TGG 0.371643 2:+66401210 None:intergenic
TCTAGGCAAAACCAAACAAT+TGG 0.377581 2:+66400884 None:intergenic
GAAGATGGATTAGATGGTTC+AGG 0.385947 2:-66402603 MsaT009933.1:CDS
GCAATTGTGTTTAACGATAT+GGG 0.394378 2:-66402573 MsaT009933.1:CDS
ACATAAAATGTTCTTGTTTG+AGG 0.406668 2:-66400977 MsaT009933.1:CDS
GATAAACGATTGTCAAGAAA+TGG 0.410498 2:-66401081 MsaT009933.1:CDS
TCTGTTGAAGATGGATTAGA+TGG 0.422289 2:-66402609 MsaT009933.1:CDS
CGTTGCGTGGCTCACGCCTT+CGG 0.424339 2:+66402322 None:intergenic
TGAAGGGTTTAGAGAGGATA+GGG 0.425140 2:-66402361 MsaT009933.1:CDS
ACGTAAGGGTCAAATGATTA+GGG 0.438100 2:-66402427 MsaT009933.1:CDS
GTCCGGGTTCTCTGTACGTA+AGG 0.442552 2:-66402442 MsaT009933.1:CDS
TTCAAATTCGTCTTCACCAT+TGG 0.445525 2:+66400434 None:intergenic
ATTGCCATGTGATCATATAA+TGG 0.447629 2:-66400940 MsaT009933.1:CDS
GTCAACCGGTTCTTCGCAAA+AGG 0.448183 2:+66400998 None:intergenic
TAGCAAACCAACAATAAAAC+AGG 0.448653 2:+66402469 None:intergenic
TGCGTGCGTTTGCGCCTGCC+TGG 0.457056 2:+66400546 None:intergenic
TTTGCAAATTTCGACCATCT+AGG 0.458519 2:+66400867 None:intergenic
AAACTCACAAGTATCTTTGC+CGG 0.460720 2:-66402655 MsaT009933.1:CDS
GAGGCAAATTCTGTTGAAGA+TGG 0.463355 2:-66402618 MsaT009933.1:CDS
AATTCGTCTTCACCATTGGC+AGG 0.467391 2:+66400438 None:intergenic
CCACATCTTGTTTCGTTGCG+TGG 0.468890 2:+66402309 None:intergenic
GGGTCAAATGATTAGGGATC+GGG 0.473894 2:-66402421 MsaT009933.1:CDS
CGAAACAAGATGTGGATGTA+AGG 0.474068 2:-66402301 MsaT009933.1:CDS
AAAATGTTCTTGTTTGAGGA+TGG 0.482756 2:-66400973 MsaT009933.1:CDS
TTCAAGTGGTTCTTTGTACT+GGG 0.484456 2:-66400823 MsaT009933.1:CDS
CCTTTCGTTCTAACAACCTC+AGG 0.487809 2:+66400594 None:intergenic
GATTGTCAAGAAATGGCTAC+AGG 0.494454 2:-66401074 MsaT009933.1:CDS
CAGTTGTGCAAAGAAGTTGC+TGG 0.503687 2:-66400765 MsaT009933.1:CDS
TTCTAACAACCTCAGGATCA+AGG 0.512314 2:+66400601 None:intergenic
GCCTCTTCTTCAGATTCGAC+CGG 0.514599 2:+66402636 None:intergenic
TTGCTACGGGTACTCCAGGC+AGG 0.522386 2:-66400560 MsaT009933.1:CDS
CCTGAGGTTGTTAGAACGAA+AGG 0.527309 2:-66400594 MsaT009933.1:CDS
AGGATGTGGTTCAATTGCTA+CGG 0.528366 2:-66400574 MsaT009933.1:CDS
CGTAGACTGGTTTGTAACAC+AGG 0.531887 2:+66401191 None:intergenic
ACCGTCTTGCTGGCAGTGAA+TGG 0.533903 2:-66401028 MsaT009933.1:CDS
TCAATTGCTACGGGTACTCC+AGG 0.535102 2:-66400564 MsaT009933.1:CDS
AACAAACGATCTCCACCCTC+TGG 0.540136 2:+66402889 None:intergenic
CTAGGCAAAACCAAACAATT+GGG 0.553863 2:+66400885 None:intergenic
AGGGTCAAATGATTAGGGAT+CGG 0.556672 2:-66402422 MsaT009933.1:CDS
TAGACATTGTTACAAAGCGT+TGG 0.557208 2:-66402260 MsaT009933.1:intron
GTTGTTAGAACGAAAGGATG+TGG 0.560820 2:-66400588 MsaT009933.1:CDS
GTTGGTTTGCTAGAATGTCC+GGG 0.563741 2:-66402458 MsaT009933.1:CDS
TTTCTCGATAGAACGTAGAC+TGG 0.573149 2:+66401178 None:intergenic
GGATGTGGTTCAATTGCTAC+GGG 0.579078 2:-66400573 MsaT009933.1:CDS
GCCGGTCGAATCTGAAGAAG+AGG 0.579413 2:-66402637 MsaT009933.1:CDS
GGAAGATTTAAATTTAGCTG+TGG 0.581102 2:+66400477 None:intergenic
TTGTAGGATATTGGCACACA+AGG 0.581110 2:-66400260 MsaT009933.1:intron
GTGGACAACATCGTCTATTG+TGG 0.581267 2:+66400496 None:intergenic
TCGTCTTCCTCATTTACCGT+AGG 0.582575 2:+66400627 None:intergenic
GTGAAGGGTTTAGAGAGGAT+AGG 0.583533 2:-66402362 MsaT009933.1:CDS
ACCCTTACGTACAGAGAACC+CGG 0.584162 2:+66402440 None:intergenic
TTCATGTGAAGGGTTTAGAG+AGG 0.585894 2:-66402367 MsaT009933.1:CDS
AGTTATGGATTGTAGACCAG+AGG 0.597894 2:-66402905 None:intergenic
GAAGGGTTTAGAGAGGATAG+GGG 0.605796 2:-66402360 MsaT009933.1:CDS
AGCTGCAAAGTTGTTTACGA+AGG 0.607404 2:-66401153 MsaT009933.1:CDS
GGTTAACAAGGGAGAACCGA+AGG 0.608301 2:-66402338 MsaT009933.1:CDS
ATTCGTGAGAAGTATTCAAG+TGG 0.612122 2:-66400837 MsaT009933.1:CDS
AAGGGTTTAGAGAGGATAGG+GGG 0.612598 2:-66402359 MsaT009933.1:CDS
ACGCAAACATGTAGTAATTG+TGG 0.613207 2:-66400528 MsaT009933.1:CDS
TCCGGGTTCTCTGTACGTAA+GGG 0.618976 2:-66402441 MsaT009933.1:CDS
TGTTTGAGGATGGAGTCACT+CGG 0.621163 2:-66400963 MsaT009933.1:CDS
AGACGAACTCCTTGATCCTG+AGG 0.627835 2:-66400610 MsaT009933.1:CDS
GATGGTAGCAACACGTCAAG+CGG 0.631845 2:-66402711 MsaT009933.1:CDS
ATTGTCAAGAAATGGCTACA+GGG 0.634645 2:-66401073 MsaT009933.1:CDS
CATACACTTAATCCTGCCAA+TGG 0.635369 2:-66400450 MsaT009933.1:CDS
TTTGCATTGATGATGTTGGA+AGG 0.635495 2:-66402521 MsaT009933.1:CDS
TGATATAATGAAGTTTGACA+TGG 0.637415 2:-66402550 MsaT009933.1:CDS
GTTATGGATTGTAGACCAGA+GGG 0.639635 2:-66402904 MsaT009933.1:CDS
GCCATTCACTGCCAGCAAGA+CGG 0.641429 2:+66401027 None:intergenic
AAACCAACAATAAAACAGGT+AGG 0.641669 2:+66402473 None:intergenic
ACTGCCATTATATGATCACA+TGG 0.646963 2:+66400936 None:intergenic
CTACTATAGTCAGACTCAGA+CGG 0.647730 2:-66400391 MsaT009933.1:intron
CCACGCAACGAAACAAGATG+TGG 0.660406 2:-66402309 MsaT009933.1:CDS
GGTAGCAACACGTCAAGCGG+TGG 0.661636 2:-66402708 MsaT009933.1:CDS
GATGGATTAGATGGTTCAGG+TGG 0.676772 2:-66402600 MsaT009933.1:CDS
GCAGGATTAAGTGTATGACC+AGG 0.677736 2:+66400456 None:intergenic
ATGGATTGTAGACCAGAGGG+TGG 0.690600 2:-66402901 MsaT009933.1:CDS
GACACGACAGAAGAAAGTGA+TGG 0.695407 2:-66402729 MsaT009933.1:CDS
CAAATGATTAGGGATCGGGA+AGG 0.764049 2:-66402417 MsaT009933.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 66400256 66402923 66400256 ID=MsaG009933
Chr2 mRNA 66400256 66402923 66400256 ID=MsaT009933.1;Parent=MsaG009933
Chr2 exon 66400256 66400276 66400256 ID=MsaT009933.1.exon4;Parent=MsaT009933.1
Chr2 CDS 66400256 66400276 66400256 ID=cds.MsaT009933.1;Parent=MsaT009933.1
Chr2 exon 66400392 66401274 66400392 ID=MsaT009933.1.exon3;Parent=MsaT009933.1
Chr2 CDS 66400392 66401274 66400392 ID=cds.MsaT009933.1;Parent=MsaT009933.1
Chr2 exon 66402261 66402751 66402261 ID=MsaT009933.1.exon2;Parent=MsaT009933.1
Chr2 CDS 66402261 66402751 66402261 ID=cds.MsaT009933.1;Parent=MsaT009933.1
Chr2 exon 66402861 66402923 66402861 ID=MsaT009933.1.exon1;Parent=MsaT009933.1
Chr2 CDS 66402861 66402923 66402861 ID=cds.MsaT009933.1;Parent=MsaT009933.1
Gene Sequence

>MsaT009933.1

ATGGATTGTAGACCAGAGGGTGGAGATCGTTTGTTTTTGGATGCAGGACTGGGTATCACAAATGACACGACAGAAGAAAGTGATGGTAGCAACACGTCAAGCGGTGGTTGTAGTACTACAGTCGAAACTGAAAACTCAAACTCACAAGTATCTTTGCCGGTCGAATCTGAAGAAGAGGCAAATTCTGTTGAAGATGGATTAGATGGTTCAGGTGGTCAAGCAATTGTGTTTAACGATATGGGTGATATAATGAAGTTTGACATGGAAAAGTTTTGCATTGATGATGTTGGAAGGTATGATTTTGCTAGTTTGGATGTTGCCTACCTGTTTTATTGTTGGTTTGCTAGAATGTCCGGGTTCTCTGTACGTAAGGGTCAAATGATTAGGGATCGGGAAGGTGTTGTTTTGCAGCAAACGTTTTTATGTTCATGTGAAGGGTTTAGAGAGGATAGGGGGTTAACAAGGGAGAACCGAAGGCGTGAGCCACGCAACGAAACAAGATGTGGATGTAAGGCAAAATTTAGAGTTCATGTAGACATTGTTACAAAGCGTTGGTGTCTAACTTATTTTCGTTTCAGGGAAATTGAATCTGATTTCCAATCTAACTATGGTCAACCTGTGTTACAAACCAGTCTACGTTCTATCGAGAAATCAGCTGCAAAGTTGTTTACGAAGGAGATCTTTTTCTTGTTTAGGTCGGTACTAAAGAAAGCATTGCTTATCAGGATAAACGATTGTCAAGAAATGGCTACAGGGTGCATCTTTAAAGTTTCAATGTACCGTCTTGCTGGCAGTGAATGGCTTGTTTCCTTTTGCGAAGAACCGGTTGACATAAAATGTTCTTGTTTGAGGATGGAGTCACTCGGATTGCCATGTGATCATATAATGGCAGTGTTGTTGTATCTTGATTTCGATGAGCTTCCCAATTGTTTGGTTTTGCCTAGATGGTCGAAATTTGCAAAAGATTTAATTCGTGAGAAGTATTCAAGTGGTTCTTTGTACTGGGATTCACAATCTGCAGCAAGATATTCTGGTATAGTCCAGTTGTGCAAAGAAGTTGCTGGATTAGTTTATGAAGATCTTGATGAGTATAATGATTTTGTTGAAAGCTTGAGTGGGGAAATCCATAGATTAAAATTAAAGAAAAATGTTGAATCTTCTGGATTATCTCCAGTTTTGCCTACGGTAAATGAGGAAGACGAACTCCTTGATCCTGAGGTTGTTAGAACGAAAGGATGTGGTTCAATTGCTACGGGTACTCCAGGCAGGCGCAAACGCACGCAAACATGTAGTAATTGTGGTGTAATAGGCCACAATAGACGATGTTGTCCACAGCTAAATTTAAATCTTCCTGGTCATACACTTAATCCTGCCAATGGTGAAGACGAATTTGAAGAAGACGATGACAACTACTACTACTATAGTCAGACTCAGACGGATATTGGCACACAAGGTTGA
Protein sequence

>MsaT009933.1

MDCRPEGGDRLFLDAGLGITNDTTEESDGSNTSSGGCSTTVETENSNSQVSLPVESEEEANSVEDGLDGSGGQAIVFNDMGDIMKFDMEKFCIDDVGRYDFASLDVAYLFYCWFARMSGFSVRKGQMIRDREGVVLQQTFLCSCEGFREDRGLTRENRRREPRNETRCGCKAKFRVHVDIVTKRWCLTYFRFREIESDFQSNYGQPVLQTSLRSIEKSAAKLFTKEIFFLFRSVLKKALLIRINDCQEMATGCIFKVSMYRLAGSEWLVSFCEEPVDIKCSCLRMESLGLPCDHIMAVLLYLDFDELPNCLVLPRWSKFAKDLIREKYSSGSLYWDSQSAARYSGIVQLCKEVAGLVYEDLDEYNDFVESLSGEIHRLKLKKNVESSGLSPVLPTVNEEDELLDPEVVRTKGCGSIATGTPGRRKRTQTCSNCGVIGHNRRCCPQLNLNLPGHTLNPANGEDEFEEDDDNYYYYSQTQTDIGTQG*