AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001282

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001282 MtrunA17_Chr1g0161461 89.124 331 26 4 1 326 30 355 0.0 581
MsaG001282 MtrunA17_Chr4g0038511 57.676 241 85 5 49 282 6 236 3.04e-79 243
MsaG001282 MtrunA17_Chr4g0060591 38.843 121 70 1 29 149 12 128 1.03e-20 89.0
MsaG001282 MtrunA17_Chr4g0042041 37.931 145 79 3 7 146 36 174 6.51e-20 87.0
MsaG001282 MtrunA17_Chr2g0319301 44.681 94 51 1 54 146 74 167 4.52e-19 84.7
MsaG001282 MtrunA17_Chr2g0323031 44.565 92 50 1 54 144 110 201 1.56e-17 80.9
MsaG001282 MtrunA17_Chr1g0167821 34.804 204 104 8 13 215 57 232 3.06e-17 79.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001282 AT3G19860.1 51.230 244 110 4 47 288 3 239 6.61e-74 229
MsaG001282 AT3G19860.3 50.196 255 116 5 36 288 25 270 1.72e-73 229
MsaG001282 AT3G19860.2 51.230 244 110 4 47 288 56 292 7.79e-73 229
MsaG001282 AT4G36060.2 40.486 247 95 8 53 287 30 236 4.01e-47 160
MsaG001282 AT4G36060.1 40.486 247 95 8 53 287 48 254 1.56e-46 159
MsaG001282 AT4G36060.4 40.506 237 90 7 53 278 30 226 5.23e-45 155
MsaG001282 AT4G36060.3 40.506 237 90 7 53 278 48 244 2.12e-44 154
MsaG001282 AT3G23210.2 36.420 162 85 6 37 180 114 275 2.36e-18 84.3
MsaG001282 AT5G54680.1 43.000 100 52 2 54 152 76 171 2.42e-18 83.2
MsaG001282 AT3G23210.1 36.420 162 85 6 37 180 143 304 4.17e-18 84.0
MsaG001282 AT1G51070.1 45.745 94 50 1 54 146 71 164 1.98e-16 77.4
MsaG001282 AT3G47640.1 34.653 101 66 0 48 148 26 126 1.99e-16 77.8
MsaG001282 AT3G47640.3 34.653 101 66 0 48 148 26 126 1.99e-16 77.8
MsaG001282 AT3G47640.2 34.653 101 66 0 48 148 26 126 1.99e-16 77.8
MsaG001282 AT1G51070.2 45.745 94 50 1 54 146 137 230 6.15e-16 77.4
MsaG001282 AT4G14410.2 34.722 144 72 4 54 196 129 251 4.36e-14 71.6
MsaG001282 AT4G14410.3 34.722 144 72 4 54 196 129 251 4.36e-14 71.6
MsaG001282 AT4G14410.1 34.722 144 72 4 54 196 135 257 5.58e-14 71.6

Find 88 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGAATATGACCAGGATTT+TGG 0.212723 1:-17767202 None:intergenic
ATAGGAACGGGGTATGTATA+AGG 0.280119 1:-17767110 None:intergenic
CGCCGTAAGGGATGGTGTTT+TGG 0.296869 1:-17765777 None:intergenic
TTTAGCGGCGGCGGAGGCGG+TGG 0.325664 1:-17765749 None:intergenic
TCAAGCTCTGTTGCCACATC+TGG 0.328370 1:-17767392 None:intergenic
TTGTCATTCCGTGGTCTATC+AGG 0.332142 1:-17766762 None:intergenic
TGAGTTGATGGCATCTCTAT+TGG 0.354531 1:-17767269 None:intergenic
CTCAATGTATATTCCATTCT+CGG 0.354937 1:+17767232 MsaT001282.1:CDS
CATCAATTGGGAAACGTCAT+AGG 0.376740 1:+17766032 MsaT001282.1:CDS
AGGCTGACCGTGAGAAAATC+AGG 0.380020 1:+17765985 MsaT001282.1:CDS
GAGCCGGTATTCTGCATCTC+AGG 0.387361 1:+17767594 MsaT001282.1:CDS
ATCTCTATTGGAGGGATAGC+TGG 0.399284 1:-17767257 None:intergenic
TTGGATTGTCTCTGTGATGA+TGG 0.399425 1:-17766790 None:intergenic
ATTGGCATTGGCATAGGAAC+GGG 0.403675 1:-17767122 None:intergenic
GTGTTTAGCGGCGGCGGAGG+CGG 0.414151 1:-17765752 None:intergenic
GAGGTGTTTAGCGGCGGCGG+AGG 0.426126 1:-17765755 None:intergenic
GCCTGGATCATCCACGCAAC+AGG 0.430260 1:+17767424 MsaT001282.1:CDS
TATATACGAAGTCAATTAAC+CGG 0.439258 1:-17767659 None:intergenic
GTAGAAGGATACTGAGTTGA+TGG 0.439334 1:-17767281 None:intergenic
TTGGAGGTGTTTAGCGGCGG+CGG 0.469494 1:-17765758 None:intergenic
TGGTTTCCATAGTAAGGAAA+AGG 0.470758 1:-17767182 None:intergenic
GGGTGAATGGAAACCGGACC+AGG 0.474052 1:-17767149 None:intergenic
AATGCCAATCCCTCCTGGTC+CGG 0.475088 1:+17767136 MsaT001282.1:CDS
AGGTTGCATAGGTGGGTGAA+TGG 0.481673 1:-17767162 None:intergenic
GAAACCGGACCAGGAGGGAT+TGG 0.482079 1:-17767140 None:intergenic
AATATCTTTACGATTGGTGA+TGG 0.482957 1:-17765819 None:intergenic
TTCGCATGACTCTTCAGAAA+GGG 0.487809 1:-17766865 None:intergenic
TTAGCGGCGGCGGAGGCGGT+GGG 0.487815 1:-17765748 None:intergenic
CTAAACACGTGGGAAGTAGA+AGG 0.488709 1:-17767296 None:intergenic
CCTGACAATATCTTTACGAT+TGG 0.490047 1:-17765825 None:intergenic
CTCCAAAACACCATCCCTTA+CGG 0.490103 1:+17765775 MsaT001282.1:CDS
GAGCTTGAACTTAAGATGCC+TGG 0.490701 1:+17767407 MsaT001282.1:CDS
ACCTGTTGCGTGGATGATCC+AGG 0.492070 1:-17767425 None:intergenic
ATGCCAATGCCAATCCCTCC+TGG 0.495420 1:+17767131 MsaT001282.1:CDS
GGGATAGCTGGAGCCGAGAA+TGG 0.495557 1:-17767245 None:intergenic
ATGTTATGTCCTTTAGCACT+TGG 0.496696 1:-17766809 None:intergenic
TTACGATTGGTGATGGGCAG+CGG 0.497262 1:-17765812 None:intergenic
GAGGTGATTCTGCCGCCGTA+AGG 0.497955 1:-17765790 None:intergenic
TAGGAACGGGGTATGTATAA+GGG 0.499215 1:-17767109 None:intergenic
TACTATGGAAACCAAAATCC+TGG 0.503568 1:+17767191 MsaT001282.1:CDS
TAAGGAAAAGGTTGCATAGG+TGG 0.507917 1:-17767170 None:intergenic
AGAGTCTCGAAGCAAGTCAC+CGG 0.507955 1:+17767325 MsaT001282.1:CDS
GTGTAGAGAGAAGAGTGAGA+TGG 0.512423 1:+17765932 MsaT001282.1:intron
ATCCCTGAGATGCAGAATAC+CGG 0.517790 1:-17767597 None:intergenic
AGGTGATTCTGCCGCCGTAA+GGG 0.518930 1:-17765789 None:intergenic
CCAATCGTAAAGATATTGTC+AGG 0.525025 1:+17765825 MsaT001282.1:CDS
GTTGATGGCATCTCTATTGG+AGG 0.534549 1:-17767266 None:intergenic
CTGTAGGATTGCACATCTAG+AGG 0.537095 1:+17767514 MsaT001282.1:intron
GAAGTCAATTAACCGGCCTT+CGG 0.538027 1:-17767652 None:intergenic
GTCAGCAACACTCCGAAGGC+CGG 0.538078 1:+17767640 MsaT001282.1:CDS
TGTTGCTAGAAAAGTTAAGA+AGG 0.540411 1:+17765965 MsaT001282.1:CDS
AGAGACAATCCAAGTGCTAA+AGG 0.542357 1:+17766800 MsaT001282.1:CDS
GAATGGTCAATTGCAGTCCA+TGG 0.542691 1:-17767071 None:intergenic
CTACATCTTTCTGCATCACT+AGG 0.545949 1:-17767362 None:intergenic
GGAGGGATTGGCATTGGCAT+AGG 0.546018 1:-17767128 None:intergenic
ATAGGTGGGTGAATGGAAAC+CGG 0.548801 1:-17767155 None:intergenic
CTTCGCATGACTCTTCAGAA+AGG 0.552239 1:-17766866 None:intergenic
GACTCAGAGTCATGCCGCCA+TGG 0.559055 1:+17767054 MsaT001282.1:CDS
GGACCAGGAGGGATTGGCAT+TGG 0.561637 1:-17767134 None:intergenic
GATTCTGCCGCCGTAAGGGA+TGG 0.561687 1:-17765785 None:intergenic
TAGTAAGGAAAAGGTTGCAT+AGG 0.564004 1:-17767173 None:intergenic
AAGGAAAAGGTTGCATAGGT+GGG 0.567952 1:-17767169 None:intergenic
GATTGGCATTGGCATAGGAA+CGG 0.568920 1:-17767123 None:intergenic
AGCCGGTATTCTGCATCTCA+GGG 0.576693 1:+17767595 MsaT001282.1:CDS
ATATCTTTACGATTGGTGAT+GGG 0.578157 1:-17765818 None:intergenic
ACTTCACCGGAATGCAACAA+TGG 0.592875 1:+17765723 None:intergenic
ATATACATTGAGGATAGACT+TGG 0.594802 1:-17767221 None:intergenic
CTAGGTCGTCTTCTATGACC+CGG 0.595312 1:-17767344 None:intergenic
TAGATGAGAGTGCTTCGAGC+CGG 0.596820 1:+17767578 MsaT001282.1:CDS
CGAGAATGGAATATACATTG+AGG 0.609687 1:-17767231 None:intergenic
TATATAATATACCTGTTGCG+TGG 0.610882 1:-17767435 None:intergenic
GATAGACTTGGAATATGACC+AGG 0.610908 1:-17767209 None:intergenic
CGATTGGTGATGGGCAGCGG+AGG 0.614010 1:-17765809 None:intergenic
GAGTCTCGAAGCAAGTCACC+GGG 0.616600 1:+17767326 MsaT001282.1:CDS
ATGGTTGCCTTGTCATTCCG+TGG 0.623588 1:-17766771 None:intergenic
TGAATGGAAACCGGACCAGG+AGG 0.624977 1:-17767146 None:intergenic
CAGCGTCAGCAACACTCCGA+AGG 0.627024 1:+17767636 MsaT001282.1:CDS
GGCTACTCATGACAACAGAA+TGG 0.634259 1:-17767088 None:intergenic
GAATGGAAACCGGACCAGGA+GGG 0.634490 1:-17767145 None:intergenic
TTGATGGCATCTCTATTGGA+GGG 0.642814 1:-17767265 None:intergenic
TGATAGACCACGGAATGACA+AGG 0.652628 1:+17766764 MsaT001282.1:CDS
TTGGCATTGGCATAGGAACG+GGG 0.653981 1:-17767121 None:intergenic
ATGTAGTGTGTCTCCAGATG+TGG 0.671060 1:+17767379 MsaT001282.1:CDS
ATGCAGATCCTGATAGACCA+CGG 0.688242 1:+17766754 MsaT001282.1:intron
CAAAACACCATCCCTTACGG+CGG 0.705738 1:+17765778 MsaT001282.1:CDS
TGACCGTGAGAAAATCAGGA+GGG 0.711741 1:+17765989 MsaT001282.1:CDS
CTGACCGTGAGAAAATCAGG+AGG 0.717963 1:+17765988 MsaT001282.1:CDS
TGGTCAATTGCAGTCCATGG+CGG 0.722199 1:-17767068 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 17765734 17767666 17765734 ID=MsaG001282
Chr1 mRNA 17765734 17767666 17765734 ID=MsaT001282.1;Parent=MsaG001282
Chr1 exon 17765734 17765846 17765734 ID=MsaT001282.1.exon1;Parent=MsaT001282.1
Chr1 CDS 17765734 17765846 17765734 ID=cds.MsaT001282.1;Parent=MsaT001282.1
Chr1 exon 17765938 17766053 17765938 ID=MsaT001282.1.exon2;Parent=MsaT001282.1
Chr1 CDS 17765938 17766053 17765938 ID=cds.MsaT001282.1;Parent=MsaT001282.1
Chr1 exon 17766760 17766887 17766760 ID=MsaT001282.1.exon3;Parent=MsaT001282.1
Chr1 CDS 17766760 17766887 17766760 ID=cds.MsaT001282.1;Parent=MsaT001282.1
Chr1 exon 17766969 17767445 17766969 ID=MsaT001282.1.exon4;Parent=MsaT001282.1
Chr1 CDS 17766969 17767445 17766969 ID=cds.MsaT001282.1;Parent=MsaT001282.1
Chr1 exon 17767520 17767666 17767520 ID=MsaT001282.1.exon5;Parent=MsaT001282.1
Chr1 CDS 17767520 17767666 17767520 ID=cds.MsaT001282.1;Parent=MsaT001282.1
Gene Sequence

>MsaT001282.1

ATGCAACAATGGAACCCACCGCCTCCGCCGCCGCTAAACACCTCCAAAACACCATCCCTTACGGCGGCAGAATCACCTCCGCTGCCCATCACCAATCGTAAAGATATTGTCAGAGAGAAGAGTGAGATGGAACCAAGTGTTGTTGCTAGAAAAGTTAAGAAGGCTGACCGTGAGAAAATCAGGAGGGATCGCTTGAATGATCATTTTCATCAATTGGGAAACGTCATAGATCCTGATAGACCACGGAATGACAAGGCAACCATCATCACAGAGACAATCCAAGTGCTAAAGGACATAACATCTGAAGTTGATAGACTGAAAACAGAGCACAAATCCCTTTCTGAAGAGTCATGCGAACTAATACAAGAAAAGAATGAATTGCGAGAAGAGAAAGCGACTTTAAAATCTGATATAGAAAATCTTAATTCTCAGTATCAGCAGAGACTCAGAGTCATGCCGCCATGGACTGCAATTGACCATTCTGTTGTCATGAGTAGCCCTTATACATACCCCGTTCCTATGCCAATGCCAATCCCTCCTGGTCCGGTTTCCATTCACCCACCTATGCAACCTTTTCCTTACTATGGAAACCAAAATCCTGGTCATATTCCAAGTCTATCCTCAATGTATATTCCATTCTCGGCTCCAGCTATCCCTCCAATAGAGATGCCATCAACTCAGTATCCTTCTACTTCCCACGTGTTTAGTCGAAAAGAGTCTCGAAGCAAGTCACCGGGTCATAGAAGACGACCTAGTGATGCAGAAAGATGTAGTGTGTCTCCAGATGTGGCAACAGAGCTTGAACTTAAGATGCCTGGATCATCCACGCAACAGGATTGCACATCTAGAGGAAAAAAGGCAAAACATTCAGTGATGAGTGATAGAATCATCATAGATGAGAGTGCTTCGAGCCGGTATTCTGCATCTCAGGGATTTCAAGATAGCTTCAACAGCGTCAGCAACACTCCGAAGGCCGGTTAA
Protein sequence

>MsaT001282.1

MQQWNPPPPPPLNTSKTPSLTAAESPPLPITNRKDIVREKSEMEPSVVARKVKKADREKIRRDRLNDHFHQLGNVIDPDRPRNDKATIITETIQVLKDITSEVDRLKTEHKSLSEESCELIQEKNELREEKATLKSDIENLNSQYQQRLRVMPPWTAIDHSVVMSSPYTYPVPMPMPIPPGPVSIHPPMQPFPYYGNQNPGHIPSLSSMYIPFSAPAIPPIEMPSTQYPSTSHVFSRKESRSKSPGHRRRPSDAERCSVSPDVATELELKMPGSSTQQDCTSRGKKAKHSVMSDRIIIDESASSRYSASQGFQDSFNSVSNTPKAG*