AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034879

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034879 MtrunA17_Chr1g0203051 37.066 259 148 4 28 285 14 258 9.27e-46 170
MsaG034879 MtrunA17_Chr1g0203051 29.032 217 138 4 187 401 419 621 3.29e-18 88.2
MsaG034879 MtrunA17_Chr2g0308841 50.000 128 64 0 286 413 99 226 1.21e-41 150
MsaG034879 MtrunA17_Chr1g0171741 34.137 249 142 5 7 234 13 260 3.48e-36 135
MsaG034879 MtrunA17_Chr8g0389811 38.519 135 83 0 83 217 61 195 2.63e-30 117
MsaG034879 MtrunA17_Chr2g0331371 38.608 158 95 1 55 210 2 159 8.85e-27 108
MsaG034879 MtrunA17_Chr2g0287651 30.769 208 139 2 83 285 47 254 3.60e-26 113
MsaG034879 MtrunA17_Chr2g0287651 37.500 128 80 0 287 414 505 632 4.77e-19 91.3
MsaG034879 MtrunA17_Chr6g0473421 37.984 129 78 1 55 181 2 130 2.78e-23 96.3
MsaG034879 MtrunA17_Chr1g0202341 28.846 208 135 4 78 276 15 218 4.89e-18 87.8
MsaG034879 MtrunA17_Chr5g0448761 31.737 167 112 2 110 274 64 230 9.86e-18 87.0
MsaG034879 MtrunA17_Chr1g0198761 34.857 175 97 8 112 273 53 223 4.74e-16 81.6
MsaG034879 MtrunA17_Chr1g0172931 37.234 94 59 0 88 181 58 151 9.33e-16 75.1
MsaG034879 MtrunA17_Chr2g0294841 34.932 146 81 5 111 246 50 191 3.72e-15 79.0
MsaG034879 MtrunA17_Chr2g0290391 28.139 231 138 8 62 287 26 233 2.73e-14 75.9
MsaG034879 MtrunA17_Chr2g0276841 31.395 172 106 6 112 275 76 243 3.33e-14 75.9
MsaG034879 MtrunA17_Chr5g0431001 30.769 169 106 4 112 270 67 234 3.65e-14 75.1
MsaG034879 MtrunA17_Chr7g0258861 28.743 167 117 2 110 276 14 178 1.85e-12 68.6
MsaG034879 MtrunA17_Chr8g0340801 40.580 69 41 0 217 285 1 69 6.96e-12 62.4
MsaG034879 MtrunA17_Chr6g0458391 25.681 257 161 10 36 269 10 259 3.84e-11 65.9
MsaG034879 MtrunA17_Chr2g0324011 29.091 165 114 2 112 276 16 177 7.77e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034879 AT5G28530.5 27.523 218 146 5 118 325 67 282 3.30e-17 85.5
MsaG034879 AT5G28530.4 27.523 218 146 5 118 325 67 282 3.35e-17 85.5
MsaG034879 AT4G38180.1 30.939 181 120 4 98 276 67 244 4.14e-17 85.5
MsaG034879 AT5G28530.3 31.410 156 103 3 118 270 67 221 6.62e-17 84.7
MsaG034879 AT5G28530.2 31.410 156 103 3 118 270 67 221 6.62e-17 84.7
MsaG034879 AT5G28530.1 31.410 156 103 3 118 270 67 221 6.95e-17 84.7
MsaG034879 AT1G10240.2 27.313 227 141 10 63 280 14 225 1.42e-14 77.4
MsaG034879 AT1G10240.1 27.313 227 141 10 63 280 14 225 1.42e-14 77.4

Find 114 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGGTTTGCAAAGATTAA+TGG 0.219551 7:+2657147 MsaT034879.1:CDS
GGTACGTTCTGTCCTTAAAA+AGG 0.230162 7:+2658491 MsaT034879.1:CDS
GAGTATCTGATAATGATATT+AGG 0.253443 7:-2658518 None:intergenic
CTTACTAAGATTCACCAAAT+TGG 0.273526 7:-2658832 None:intergenic
GCTGATCACCAATCTCAATA+TGG 0.303020 7:+2658390 MsaT034879.1:CDS
AGTACATATTGATATAAATT+CGG 0.304248 7:+2657338 MsaT034879.1:CDS
GGTTGCGAGACACGCCAATT+TGG 0.319259 7:+2658818 MsaT034879.1:CDS
TTGATATAAATTCGGGTTGT+TGG 0.349680 7:+2657346 MsaT034879.1:CDS
TAGTAAGGAAGTTTCTGATA+TGG 0.351398 7:+2658848 MsaT034879.1:CDS
CCACACCTGGTTTCGTGTCT+TGG 0.351926 7:-2657297 None:intergenic
AGTTTCTGATATGGCATATC+AGG 0.358551 7:+2658857 MsaT034879.1:CDS
ATCAAGATGGTTCACACTAC+TGG 0.359918 7:+2658784 MsaT034879.1:CDS
TGTGTAATCTAGAAGGATTT+AGG 0.362208 7:+2657235 MsaT034879.1:CDS
ACACTACTGGGATTCACATT+TGG 0.373928 7:+2658797 MsaT034879.1:CDS
TGACACCGTTGGTGACGATT+TGG 0.376721 7:+2656954 MsaT034879.1:CDS
AGTATCTGATAATGATATTA+GGG 0.383145 7:-2658517 None:intergenic
AAAATTCAAATCGATAACTA+TGG 0.391402 7:+2657465 MsaT034879.1:CDS
TAAATGCACTTGTCTTAGAA+TGG 0.394455 7:+2658635 MsaT034879.1:CDS
TCCAGATGTACTATTACTGC+TGG 0.402035 7:-2659039 None:intergenic
ATCGATAACTATGGCAATGC+TGG 0.402549 7:+2657474 MsaT034879.1:CDS
TCGAAGTTTAGCCATGAAAA+TGG 0.403734 7:+2658939 MsaT034879.1:CDS
GGTGACAGTGAAAGTGGTTC+TGG 0.405769 7:+2656877 MsaT034879.1:CDS
CTTTAATAACATGACCTTTG+CGG 0.407593 7:-2657179 None:intergenic
AAATATCGAGACGAGGGATA+TGG 0.410059 7:+2658576 MsaT034879.1:CDS
CAGTGTTGCAGACCAGTCTA+AGG 0.410627 7:+2658418 MsaT034879.1:CDS
TGTTAACGGAGAAGCATTGC+GGG 0.415988 7:+2657406 MsaT034879.1:CDS
GGAGAAGCATTGCGGGTTGT+TGG 0.417986 7:+2657413 MsaT034879.1:CDS
CACAAAAGAAATATTCATCT+TGG 0.422432 7:+2658470 MsaT034879.1:CDS
CCCTTGCTTCTTGAACATAC+AGG 0.430191 7:-2659008 None:intergenic
CCCAGCAGTAATAGTACATC+TGG 0.433434 7:+2659038 MsaT034879.1:CDS
GCTTCTCCGTTAACATATCA+TGG 0.434809 7:-2657398 None:intergenic
AACATTATTCTCATCAGAAC+CGG 0.439485 7:-2656803 None:intergenic
GTACATATTGATATAAATTC+GGG 0.439653 7:+2657339 MsaT034879.1:CDS
TCAATTAAGTAAGATTCGTC+TGG 0.440807 7:-2657024 None:intergenic
ATAAAAGTTACTCAAATGAT+TGG 0.447601 7:+2657498 MsaT034879.1:CDS
ATTATCAGATACTCAACATA+TGG 0.464483 7:+2658527 MsaT034879.1:CDS
CCAGATGTACTATTACTGCT+GGG 0.465974 7:-2659038 None:intergenic
CAGATGCTAAAGGTGCTGTT+AGG 0.468032 7:+2657616 MsaT034879.1:CDS
ACAGGAACATGTGAATTCTC+TGG 0.470451 7:-2658963 None:intergenic
CAATTTGGTGAATCTTAGTA+AGG 0.472298 7:+2658833 MsaT034879.1:CDS
TGTGGTAGATGCGGTGCAAT+CGG 0.478001 7:+2659083 MsaT034879.1:CDS
GCACAACCATGATATGTTAA+CGG 0.481076 7:+2657392 MsaT034879.1:CDS
TGCTGCTGGCGGGTATGATA+AGG 0.481305 7:+2657533 MsaT034879.1:CDS
CTGATCACCAATCTCAATAT+GGG 0.482888 7:+2658391 MsaT034879.1:CDS
GTCTTAGAATGGAATCTATC+GGG 0.493967 7:+2658646 MsaT034879.1:CDS
CGATTCAGCACAAGAGACTC+AGG 0.498083 7:-2658723 None:intergenic
CCTTGCTTCTTGAACATACA+GGG 0.500505 7:-2659007 None:intergenic
GCCTACTCAGTTCATCAGTA+AGG 0.506109 7:-2658911 None:intergenic
CACGAAACCAGGTGTGGTTG+TGG 0.506910 7:+2657303 MsaT034879.1:CDS
TTTCACGCCACAACCACACC+TGG 0.510809 7:-2657310 None:intergenic
TGTCTTAGAATGGAATCTAT+CGG 0.513869 7:+2658645 MsaT034879.1:CDS
TTCACATGTTCCTGTGGACA+TGG 0.516307 7:+2658971 MsaT034879.1:CDS
CCCTGTATGTTCAAGAAGCA+AGG 0.521172 7:+2659007 MsaT034879.1:CDS
CTGCCTGCCCATATTGAGAT+TGG 0.525441 7:-2658398 None:intergenic
GGTGCATTTGCAAATGCTGC+TGG 0.528023 7:+2657519 MsaT034879.1:CDS
CTGGCGGGTATGATAAGGTC+GGG 0.529621 7:+2657538 MsaT034879.1:CDS
GACTATGATGATAACGAGTC+TGG 0.538027 7:+2656856 MsaT034879.1:CDS
CCTCTCGAGCAACCTTAGAC+TGG 0.541356 7:-2658430 None:intergenic
GGTGATAGCGATTCTGCTGA+TGG 0.543247 7:+2656898 MsaT034879.1:CDS
TAATGTTAACGTTGAAGATG+AGG 0.547011 7:+2656819 MsaT034879.1:CDS
TCAAGATGGTTCACACTACT+GGG 0.549463 7:+2658785 MsaT034879.1:CDS
TGTAGACGATATTGTGAAGA+TGG 0.550317 7:+2657050 MsaT034879.1:CDS
AACCATCTTGATAGTTTCCA+CGG 0.556190 7:-2658773 None:intergenic
AGTCTCTTGTGCTGAATCGT+TGG 0.557147 7:+2658727 MsaT034879.1:CDS
CCAGTCTAAGGTTGCTCGAG+AGG 0.559338 7:+2658430 MsaT034879.1:CDS
CATTTAAATTCATCGTTGAG+TGG 0.559914 7:-2658618 None:intergenic
GCTGGCGGGTATGATAAGGT+CGG 0.561451 7:+2657537 MsaT034879.1:CDS
GAAGATGAGGAATTTCAAGT+AGG 0.561903 7:+2656832 MsaT034879.1:CDS
CATTTGCAAATGCTGCTGGC+GGG 0.567462 7:+2657523 MsaT034879.1:CDS
CTTGTCTGAAGTAGGAGACA+TGG 0.567720 7:+2659130 MsaT034879.1:CDS
GAAGTAGGAGACATGGGCGC+TGG 0.567977 7:+2659137 MsaT034879.1:CDS
GAGTCTGGTGACAGTGAAAG+TGG 0.571742 7:+2656871 MsaT034879.1:CDS
TCACCAATCTCAATATGGGC+AGG 0.573156 7:+2658395 MsaT034879.1:CDS
GATCCCTTGTGAGCATATTG+TGG 0.574378 7:+2658668 MsaT034879.1:CDS
TGTTCAAGAAGCAAGGGATG+TGG 0.576476 7:+2659014 MsaT034879.1:CDS
ATCCGTGGAAACTATCAAGA+TGG 0.579257 7:+2658771 MsaT034879.1:CDS
CAAATGTCTTCAGATGCTAA+AGG 0.583404 7:+2657606 MsaT034879.1:CDS
GTAGGAGACATGGGCGCTGG+TGG 0.583529 7:+2659140 MsaT034879.1:CDS
TGTCCTACCTTGTCTGAAGT+AGG 0.598661 7:+2659122 MsaT034879.1:CDS
TTCATCCAAATCGTCACCAA+CGG 0.601989 7:-2656959 None:intergenic
ATAGTACATCTGGAAGGCAT+AGG 0.608472 7:+2659048 MsaT034879.1:CDS
CCTGTATGTTCAAGAAGCAA+GGG 0.609324 7:+2659008 MsaT034879.1:CDS
TCGTTGGTCACAATTTGCAA+AGG 0.617164 7:+2658743 MsaT034879.1:CDS
CATGTCTCCTACTTCAGACA+AGG 0.617625 7:-2659129 None:intergenic
GCATTTGCAAATGCTGCTGG+CGG 0.620224 7:+2657522 MsaT034879.1:CDS
AATAACATGACCTTTGCGGA+CGG 0.624720 7:-2657175 None:intergenic
CTTGACAAAATATCGAGACG+AGG 0.625437 7:+2658569 MsaT034879.1:CDS
GTGGTCCAAGACACGAAACC+AGG 0.627041 7:+2657292 MsaT034879.1:CDS
ACCGCCACAATATGCTCACA+AGG 0.627656 7:-2658672 None:intergenic
ATGTTAACGGAGAAGCATTG+CGG 0.632345 7:+2657405 MsaT034879.1:CDS
ACCTTACTGATGAACTGAGT+AGG 0.637584 7:+2658910 MsaT034879.1:CDS
ATCGAGACGAGGGATATGGT+TGG 0.639945 7:+2658580 MsaT034879.1:CDS
ACATCAGAGCAACGCAATCG+TGG 0.640229 7:+2657273 MsaT034879.1:CDS
GCGGGTTGTTGGCTGCACAC+AGG 0.640601 7:+2657424 MsaT034879.1:CDS
GCAAACGACAATGACACCGT+TGG 0.645850 7:+2656943 MsaT034879.1:CDS
AGAGAATTCACATGTTCCTG+TGG 0.649749 7:+2658965 MsaT034879.1:CDS
TTGTCTGAAGTAGGAGACAT+GGG 0.651118 7:+2659131 MsaT034879.1:CDS
GGTTCTCTTCAATCAAAGAG+TGG 0.652587 7:+2659161 MsaT034879.1:CDS
CAGATGTACTATTACTGCTG+GGG 0.652823 7:-2659037 None:intergenic
AAGGATTTAGGTATGACAGA+GGG 0.653871 7:+2657247 MsaT034879.1:CDS
TCTCCTACTTCAGACAAGGT+AGG 0.655403 7:-2659125 None:intergenic
TAGCGATTCTGCTGATGGTG+AGG 0.657931 7:+2656903 MsaT034879.1:CDS
TTGACAAAATATCGAGACGA+GGG 0.659491 7:+2658570 MsaT034879.1:CDS
CCCTTGTGAGCATATTGTGG+CGG 0.661298 7:+2658671 MsaT034879.1:CDS
GCAGTAATAGTACATCTGGA+AGG 0.662092 7:+2659042 MsaT034879.1:CDS
GTACATCTGGAAGGCATAGG+CGG 0.663392 7:+2659051 MsaT034879.1:CDS
ATACATACATGTGGTAGATG+CGG 0.663768 7:+2659074 MsaT034879.1:CDS
TTTGCAAAGGAGTCTATCCG+TGG 0.667803 7:+2658756 MsaT034879.1:CDS
GAAGGATTTAGGTATGACAG+AGG 0.687850 7:+2657246 MsaT034879.1:CDS
CCAAGACACGAAACCAGGTG+TGG 0.688722 7:+2657297 MsaT034879.1:CDS
GATTCAGCACAAGAGACTCA+GGG 0.694765 7:-2658722 None:intergenic
CATAGGCGGATACATACATG+TGG 0.723142 7:+2659065 MsaT034879.1:CDS
CCGCCACAATATGCTCACAA+GGG 0.726641 7:-2658671 None:intergenic
GATTTGAATATTGACGACGC+CGG 0.755639 7:+2656784 MsaT034879.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 2656781 2659187 2656781 ID=MsaG034879
Chr7 mRNA 2656781 2659187 2656781 ID=MsaT034879.1;Parent=MsaG034879
Chr7 exon 2656781 2657637 2656781 ID=MsaT034879.1.exon1;Parent=MsaT034879.1
Chr7 CDS 2656781 2657637 2656781 ID=cds.MsaT034879.1;Parent=MsaT034879.1
Chr7 exon 2658380 2659187 2658380 ID=MsaT034879.1.exon2;Parent=MsaT034879.1
Chr7 CDS 2658380 2659187 2658380 ID=cds.MsaT034879.1;Parent=MsaT034879.1
Gene Sequence

>MsaT034879.1

ATGGATTTGAATATTGACGACGCCGGTTCTGATGAGAATAATGTTAACGTTGAAGATGAGGAATTTCAAGTAGGTGACTATGATGATAACGAGTCTGGTGACAGTGAAAGTGGTTCTGGTGATAGCGATTCTGCTGATGGTGAGGAGTGTTCTGACAGAGATGCAAACGACAATGACACCGTTGGTGACGATTTGGATGAAAATTCAAACAGCTTCAATGAATCAACACACTCAGATCAAAATCCAGACGAATCTTACTTAATTGATGATGTAGACGATATTGTGAAGATGGATATGTTTAACTTGAAGAATAAAGATGTTTCGAAGTTGCGATTTCGTAGTCTTGAAATTGCGTACTCATTTTACTGTTGGTTTGCAAAGATTAATGGTTTTGCCGTCCGCAAAGGTCATGTTATTAAAGATAAAAATGGAGATGTTGTGCAGCAAACTTTTGTGTGTAATCTAGAAGGATTTAGGTATGACAGAGGGTTAACATCAGAGCAACGCAATCGTGGTCCAAGACACGAAACCAGGTGTGGTTGTGGCGTGAAATTTCGAGTACATATTGATATAAATTCGGGTTGTTGGTACATCACACTTTTCAGTTATGAGCACAACCATGATATGTTAACGGAGAAGCATTGCGGGTTGTTGGCTGCACACAGGAAGCTGACAAAGTCAGATAAAATTCAAATCGATAACTATGGCAATGCTGGAATAAAAGTTACTCAAATGATTGGTGCATTTGCAAATGCTGCTGGCGGGTATGATAAGGTCGGGTTTTTGAAGAAAGATGTTCATAATCAAATTCTCAGACAAAGAAAACAAATGTCTTCAGATGCTAAAGGTGCTGTTAGAGAGGTTCAAGCTGATCACCAATCTCAATATGGGCAGGCAGTGTTGCAGACCAGTCTAAGGTTGCTCGAGAGGTCAGCTTCAAAACAATTCACAAAAGAAATATTCATCTTGGTACGTTCTGTCCTTAAAAAGGTTTCCCTAATATCATTATCAGATACTCAACATATGGCATCTTTTGATATTTATTCCTTGACAAAATATCGAGACGAGGGATATGGTTGGCGAGTTTCGCATTGTCCACTCAACGATGAATTTAAATGCACTTGTCTTAGAATGGAATCTATCGGGATCCCTTGTGAGCATATTGTGGCGGTGCTAGTATATCTTGATTTTTCTGATTTCCCTGAGTCTCTTGTGCTGAATCGTTGGTCACAATTTGCAAAGGAGTCTATCCGTGGAAACTATCAAGATGGTTCACACTACTGGGATTCACATTTGGTTGCGAGACACGCCAATTTGGTGAATCTTAGTAAGGAAGTTTCTGATATGGCATATCAGGATGTCGATGATTATAAAAATTATTTAAATTACCTTACTGATGAACTGAGTAGGCTGAAATCGAAGTTTAGCCATGAAAATGGTCCAGAGAATTCACATGTTCCTGTGGACATGGAAAACATACTCAACCCTGTATGTTCAAGAAGCAAGGGATGTGGCCCCAGCAGTAATAGTACATCTGGAAGGCATAGGCGGATACATACATGTGGTAGATGCGGTGCAATCGGTCACAACAGAAGATGTTGTCCTACCTTGTCTGAAGTAGGAGACATGGGCGCTGGTGGTTCTCTTCAATCAAAGAGTGGCTAG
Protein sequence

>MsaT034879.1

MDLNIDDAGSDENNVNVEDEEFQVGDYDDNESGDSESGSGDSDSADGEECSDRDANDNDTVGDDLDENSNSFNESTHSDQNPDESYLIDDVDDIVKMDMFNLKNKDVSKLRFRSLEIAYSFYCWFAKINGFAVRKGHVIKDKNGDVVQQTFVCNLEGFRYDRGLTSEQRNRGPRHETRCGCGVKFRVHIDINSGCWYITLFSYEHNHDMLTEKHCGLLAAHRKLTKSDKIQIDNYGNAGIKVTQMIGAFANAAGGYDKVGFLKKDVHNQILRQRKQMSSDAKGAVREVQADHQSQYGQAVLQTSLRLLERSASKQFTKEIFILVRSVLKKVSLISLSDTQHMASFDIYSLTKYRDEGYGWRVSHCPLNDEFKCTCLRMESIGIPCEHIVAVLVYLDFSDFPESLVLNRWSQFAKESIRGNYQDGSHYWDSHLVARHANLVNLSKEVSDMAYQDVDDYKNYLNYLTDELSRLKSKFSHENGPENSHVPVDMENILNPVCSRSKGCGPSSNSTSGRHRRIHTCGRCGAIGHNRRCCPTLSEVGDMGAGGSLQSKSG*