AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016792

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016792 MtrunA17_Chr3g0132761 90.291 309 8 1 1 287 1 309 0.0 570
MsaG016792 MtrunA17_Chr5g0427661 60.784 255 80 7 22 273 37 274 1.38e-96 286
MsaG016792 MtrunA17_Chr3g0132751 53.591 181 78 3 71 246 69 248 2.77e-57 187
MsaG016792 MtrunA17_Chr4g0049741 51.471 204 90 5 50 245 20 222 3.53e-57 186
MsaG016792 MtrunA17_Chr4g0002231 55.670 97 29 3 149 234 42 135 3.80e-27 103
MsaG016792 MtrunA17_Chr4g0002261 76.471 51 11 1 124 173 16 66 6.39e-18 76.3
MsaG016792 MtrunA17_Chr4g0002251 55.556 54 24 0 196 249 5 58 1.91e-14 67.0
MsaG016792 MtrunA17_Chr3g0102511 40.000 90 52 2 156 244 4 92 3.41e-14 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016792 AT4G24470.1 57.658 222 83 5 69 285 81 296 6.66e-77 236
MsaG016792 AT4G24470.2 57.658 222 83 5 69 285 81 296 6.66e-77 236
MsaG016792 AT4G24470.3 66.286 175 57 2 69 241 81 255 2.92e-75 233
MsaG016792 AT1G51600.1 53.165 237 96 4 22 243 30 266 1.30e-71 223
MsaG016792 AT1G51600.2 53.165 237 96 4 22 243 30 266 1.30e-71 223
MsaG016792 AT3G21175.2 53.138 239 91 6 18 241 26 258 1.69e-69 217
MsaG016792 AT3G21175.1 53.086 243 87 8 18 241 26 260 8.49e-68 213
MsaG016792 AT3G21175.3 48.619 181 75 5 18 186 26 200 4.43e-40 139

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAAAATGTTTATGTTTC+TGG 0.023502 3:-102232243 MsaT016792.1:CDS
ATTTATACCCTCTGATTTAG+AGG 0.285177 3:+102231947 None:intergenic
CAAGCATTGCATAGTGTCCT+AGG 0.349491 3:+102228619 None:intergenic
CAATCAGTGCTGTTACTGTT+AGG 0.349587 3:-102232013 MsaT016792.1:CDS
GATCTTCGTTGTTCTTGATC+TGG 0.354455 3:+102232355 None:intergenic
AAATCCGGGTTCACAATGTT+TGG 0.357196 3:-102231978 MsaT016792.1:CDS
CAAGGGTTTGTGACTCGAAA+TGG 0.375722 3:+102232310 None:intergenic
AATTGTTGAACAGACATATC+AGG 0.381434 3:+102232207 None:intergenic
CAGCTCACACTTTCGTTTCG+TGG 0.383098 3:-102232171 MsaT016792.1:CDS
ATGTGATTGTTGTTGTTGTC+AGG 0.413713 3:+102232333 None:intergenic
AGGTGGATGTGAATTAAATC+CGG 0.414699 3:-102231993 MsaT016792.1:CDS
ATGCAGGATGCAACGTAGTA+AGG 0.415365 3:-102228887 MsaT016792.1:intron
TGGGGTTCTGATCCAGAGTC+AGG 0.423406 3:-102228823 MsaT016792.1:CDS
AGCGAGCAGCGTCCTTGATT+AGG 0.424197 3:-102231782 MsaT016792.1:CDS
TGATTCTGTTACCCCTGAAA+AGG 0.450890 3:-102232133 MsaT016792.1:intron
CTTCGCCGGAAGCATCTTCA+AGG 0.452359 3:+102232292 None:intergenic
CAAACCCTTGAAGATGCTTC+CGG 0.470159 3:-102232297 MsaT016792.1:CDS
TGCGGCTGACTACATCTTGT+AGG 0.472012 3:+102231804 None:intergenic
ACCACATCTTGCCCTGACTC+TGG 0.474085 3:+102228811 None:intergenic
CTTGAAGATGCTTCCGGCGA+AGG 0.485541 3:-102232291 MsaT016792.1:CDS
TACTCTTGCGTCACCTGAGC+AGG 0.489078 3:-102227248 MsaT016792.1:intron
ACAAGATGGAGGTAACAGTT+GGG 0.494657 3:-102228842 MsaT016792.1:CDS
TTCGTTGTTCTTGATCTGGT+CGG 0.496317 3:+102232359 None:intergenic
GGACACTATGCAATGCTTGT+GGG 0.497362 3:-102228615 MsaT016792.1:CDS
AATGTTTATGTTTCTGGCGA+TGG 0.501439 3:-102232237 MsaT016792.1:CDS
GAATGACAGCATACCTGCTC+AGG 0.503321 3:+102227235 None:intergenic
GGTGGATGTGAATTAAATCC+GGG 0.508148 3:-102231992 MsaT016792.1:CDS
CAGAATCAAAGACATAAACT+TGG 0.537080 3:+102232148 None:intergenic
TGCAGGATGCAACGTAGTAA+GGG 0.540856 3:-102228886 MsaT016792.1:intron
AACAAGATGGAGGTAACAGT+TGG 0.546569 3:-102228843 MsaT016792.1:CDS
TGATTAGGTTTAGTCAGAAG+AGG 0.554716 3:-102231767 MsaT016792.1:CDS
CTTCTGACTAAACCTAATCA+AGG 0.558415 3:+102231770 None:intergenic
AGGACACTATGCAATGCTTG+TGG 0.559699 3:-102228616 MsaT016792.1:CDS
GATTTGACCTTCACCTTCGC+CGG 0.560805 3:+102232278 None:intergenic
ATTTGATGATCAGGTAGGTG+AGG 0.571223 3:-102226998 MsaT016792.1:intron
GATGCTTCCGGCGAAGGTGA+AGG 0.572469 3:-102232285 MsaT016792.1:CDS
GTGTCCAAACATTGTGAACC+CGG 0.578316 3:+102231974 None:intergenic
ATCTACCCCTATGATGCGAA+GGG 0.578843 3:-102228653 MsaT016792.1:CDS
TCAACAGATTCGCTATGCGC+AGG 0.581126 3:+102226946 None:intergenic
ACATCAGCTAAGAAACAAGA+TGG 0.581906 3:-102228856 MsaT016792.1:CDS
GGTAATGATGACTTGAACTG+TGG 0.583016 3:-102226976 MsaT016792.1:CDS
AATCTACCCCTATGATGCGA+AGG 0.583232 3:-102228654 MsaT016792.1:CDS
CACGAAACGAAAGTGTGAGC+TGG 0.585055 3:+102232172 None:intergenic
TGAGGGATCTATCTACTGCT+AGG 0.587426 3:-102227288 MsaT016792.1:CDS
TGCGTCAAGAAGTTGCACTA+AGG 0.587793 3:-102231707 MsaT016792.1:intron
TTTGATGATCAGGTAGGTGA+GGG 0.591013 3:-102226997 MsaT016792.1:intron
ATTGTTGAACAGACATATCA+GGG 0.601227 3:+102232208 None:intergenic
TTCGCCGGAAGCATCTTCAA+GGG 0.605756 3:+102232293 None:intergenic
TGATTGGAAAACTCATTGAT+CGG 0.607060 3:+102226903 None:intergenic
AAGCATTGCATAGTGTCCTA+GGG 0.609871 3:+102228620 None:intergenic
ATCAAGGACGCTGCTCGCTG+CGG 0.621624 3:+102231786 None:intergenic
CATAGTGTCCTAGGGCCAGA+CGG 0.626210 3:+102228628 None:intergenic
GGGGTTCTGATCCAGAGTCA+GGG 0.627539 3:-102228822 MsaT016792.1:CDS
ACACATCGCCTCTAAATCAG+AGG 0.633670 3:-102231955 MsaT016792.1:CDS
CAAGATGGAGGTAACAGTTG+GGG 0.641381 3:-102228841 MsaT016792.1:CDS
TCCAGAGTCAGGGCAAGATG+TGG 0.649132 3:-102228812 MsaT016792.1:CDS
CTACCCCTATGATGCGAAGG+GGG 0.652912 3:-102228651 MsaT016792.1:CDS
CACATCGCCTCTAAATCAGA+GGG 0.653063 3:-102231954 MsaT016792.1:intron
TCAGTGCTGTTACTGTTAGG+TGG 0.658523 3:-102232010 MsaT016792.1:CDS
GTAATGATGACTTGAACTGT+GGG 0.659254 3:-102226975 MsaT016792.1:CDS
TCTACCCCTATGATGCGAAG+GGG 0.692075 3:-102228652 MsaT016792.1:CDS
TCAGCTAAGAAACAAGATGG+AGG 0.698334 3:-102228853 MsaT016792.1:CDS
TGTTGATGATAAAACAGCTG+TGG 0.705190 3:-102226929 MsaT016792.1:CDS
GTTGAACAGACATATCAGGG+TGG 0.749016 3:+102232211 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 102226915 102232403 102226915 ID=MsaG016792
Chr3 mRNA 102226915 102232403 102226915 ID=MsaT016792.1;Parent=MsaG016792
Chr3 exon 102226915 102227007 102226915 ID=MsaT016792.1.exon7;Parent=MsaT016792.1
Chr3 CDS 102226915 102227007 102226915 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102227249 102227317 102227249 ID=MsaT016792.1.exon6;Parent=MsaT016792.1
Chr3 CDS 102227249 102227317 102227249 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102228597 102228702 102228597 ID=MsaT016792.1.exon5;Parent=MsaT016792.1
Chr3 CDS 102228597 102228702 102228597 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102228796 102228903 102228796 ID=MsaT016792.1.exon4;Parent=MsaT016792.1
Chr3 CDS 102228796 102228903 102228796 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102231708 102231841 102231708 ID=MsaT016792.1.exon3;Parent=MsaT016792.1
Chr3 CDS 102231708 102231841 102231708 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102231955 102232038 102231955 ID=MsaT016792.1.exon2;Parent=MsaT016792.1
Chr3 CDS 102231955 102232038 102231955 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Chr3 exon 102232134 102232403 102232134 ID=MsaT016792.1.exon1;Parent=MsaT016792.1
Chr3 CDS 102232134 102232403 102232134 ID=cds.MsaT016792.1;Parent=MsaT016792.1
Gene Sequence

>MsaT016792.1

ATGTACAACTCTATGAACATGTCCGACCAGATCAAGAACAACGAAGATCCTGACAACAACAACAATCACATCCATTTCGAGTCACAAACCCTTGAAGATGCTTCCGGCGAAGGTGAAGGTCAAATCACTGATGTTTCACTTGAAAATGTTTATGTTTCTGGCGATGGAAACCACCCTGATATGTCTGTTCAACAATTCGACGATTCTAGCCAGCTCACACTTTCGTTTCGTGGCCAAGTTTATGTCTTTGATTCTGTTACCCCTGAAAAGGTTCAATCAGTGCTGTTACTGTTAGGTGGATGTGAATTAAATCCGGGTTCACAATGTTTGGACACATCGCCTCTAAATCAGAGGAGTGGTGCTGAATTTCCTACAAGATGTAGTCAGCCGCAGCGAGCAGCGTCCTTGATTAGGTTTAGTCAGAAGAGGAAAGAGCGAAACTTTGATAAGAAAGTTAGATATGAAGTGCGTCAAGAAGTTGCACTAAGGATGCAACGTAGTAAGGGTCAATTTACATCAGCTAAGAAACAAGATGGAGGTAACAGTTGGGGTTCTGATCCAGAGTCAGGGCAAGATGTGGTTCAATCAGAAACGTCATGCACACACTGTGGAATCAGTTCAAAATCTACCCCTATGATGCGAAGGGGGCCGTCTGGCCCTAGGACACTATGCAATGCTTGTGGGCTTTTCTGGGCAAATAGGGGTACTTTGAGGGATCTATCTACTGCTAGGAGAAATCACGAACAACATACTCTTGCGTCACCTGAGCAGGTAGGTGAGGGTAATGATGACTTGAACTGTGGGACTGCTCCTGCGCATAGCGAATCTGTTGATGATAAAACAGCTGTGGTATCCGATCAATGA
Protein sequence

>MsaT016792.1

MYNSMNMSDQIKNNEDPDNNNNHIHFESQTLEDASGEGEGQITDVSLENVYVSGDGNHPDMSVQQFDDSSQLTLSFRGQVYVFDSVTPEKVQSVLLLLGGCELNPGSQCLDTSPLNQRSGAEFPTRCSQPQRAASLIRFSQKRKERNFDKKVRYEVRQEVALRMQRSKGQFTSAKKQDGGNSWGSDPESGQDVVQSETSCTHCGISSKSTPMMRRGPSGPRTLCNACGLFWANRGTLRDLSTARRNHEQHTLASPEQVGEGNDDLNCGTAPAHSESVDDKTAVVSDQ*