AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011712

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011712 MtrunA17_Chr3g0086321 93.915 378 19 1 11 384 16 393 0.0 712
MsaG011712 MtrunA17_Chr5g0447971 69.432 229 70 0 156 384 304 532 3.57e-103 315
MsaG011712 MtrunA17_Chr5g0447971 69.655 145 35 1 46 190 53 188 1.48e-55 191
MsaG011712 MtrunA17_Chr5g0447971 31.602 231 114 9 156 378 240 434 5.40e-15 76.6
MsaG011712 MtrunA17_Chr5g0447971 29.457 129 69 3 113 220 397 524 4.99e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011712 AT5G61190.1 30.412 194 104 4 189 382 240 402 9.13e-22 97.8
MsaG011712 AT5G61190.1 25.352 213 115 6 112 284 289 497 1.71e-13 72.8
MsaG011712 AT5G61190.1 25.442 283 155 10 119 374 242 495 2.44e-13 72.4
MsaG011712 AT5G61190.10 30.412 194 104 4 189 382 240 402 1.02e-21 97.8
MsaG011712 AT5G61190.10 24.434 221 115 6 112 284 289 505 1.93e-12 69.3
MsaG011712 AT5G61190.10 25.086 291 154 11 119 374 242 503 3.62e-12 68.6
MsaG011712 AT5G61190.7 30.412 194 104 4 189 382 146 308 1.03e-21 97.8
MsaG011712 AT5G61190.7 24.434 221 115 6 112 284 195 411 2.19e-12 69.3
MsaG011712 AT5G61190.7 25.256 293 151 12 119 374 148 409 4.08e-12 68.6
MsaG011712 AT5G61190.3 30.412 194 104 4 189 382 146 308 1.03e-21 97.8
MsaG011712 AT5G61190.3 24.434 221 115 6 112 284 195 411 2.19e-12 69.3
MsaG011712 AT5G61190.3 25.256 293 151 12 119 374 148 409 4.08e-12 68.6
MsaG011712 AT5G61190.11 30.412 194 104 4 189 382 240 402 1.32e-21 97.4
MsaG011712 AT5G61190.11 24.434 221 115 6 112 284 289 505 2.07e-12 69.3
MsaG011712 AT5G61190.11 25.086 291 154 11 119 374 242 503 3.01e-12 68.9
MsaG011712 AT5G61190.5 30.412 194 104 4 189 382 240 402 1.32e-21 97.4
MsaG011712 AT5G61190.5 24.434 221 115 6 112 284 289 505 2.08e-12 69.3
MsaG011712 AT5G61190.5 25.086 291 154 11 119 374 242 503 3.57e-12 68.6
MsaG011712 AT5G61190.9 30.412 194 104 4 189 382 240 402 1.34e-21 97.4
MsaG011712 AT5G61190.9 24.434 221 115 6 112 284 289 505 2.18e-12 69.3
MsaG011712 AT5G61190.9 25.086 291 154 11 119 374 242 503 3.69e-12 68.6
MsaG011712 AT5G61190.6 30.412 194 104 4 189 382 240 402 1.44e-21 97.4
MsaG011712 AT5G61190.6 24.434 221 115 6 112 284 289 505 2.21e-12 69.3
MsaG011712 AT5G61190.6 25.086 291 154 11 119 374 242 503 3.97e-12 68.6
MsaG011712 AT5G61190.8 30.412 194 104 4 189 382 240 402 1.84e-21 97.1
MsaG011712 AT5G61190.8 24.434 221 115 6 112 284 289 505 1.88e-12 69.3
MsaG011712 AT5G61190.8 25.086 291 154 11 119 374 242 503 2.57e-12 68.9
MsaG011712 AT5G61190.4 30.412 194 104 4 189 382 240 402 2.13e-21 96.7
MsaG011712 AT5G61190.4 24.434 221 115 6 112 284 289 505 1.97e-12 69.3
MsaG011712 AT5G61190.4 25.086 291 154 11 119 374 242 503 2.49e-12 68.9
MsaG011712 AT5G61190.2 30.412 194 104 4 189 382 240 402 2.13e-21 96.7
MsaG011712 AT5G61190.2 24.434 221 115 6 112 284 289 505 1.97e-12 69.3
MsaG011712 AT5G61190.2 25.086 291 154 11 119 374 242 503 2.49e-12 68.9

Find 86 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACCATAGCAGCATGTTTC+TGG 0.170828 3:-10382349 None:intergenic
AACCAACAGATTATCAAAAT+TGG 0.227652 3:+10377985 MsaT011712.1:CDS
TCTGATGCCTTCTTTGGTTT+TGG 0.255884 3:-10382200 None:intergenic
ACATGGCCACCACAAATTTA+TGG 0.268191 3:+10379685 MsaT011712.1:CDS
ACCGCAACAAATACTTTAAT+CGG 0.278525 3:+10382149 MsaT011712.1:CDS
TCAAGTTCTGATGCCTTCTT+TGG 0.279559 3:-10382206 None:intergenic
GCAGAATCAACCTGTTTCTT+AGG 0.337690 3:-10379949 None:intergenic
CGCTTGAATTCGGCAATAGA+TGG 0.359328 3:-10381930 None:intergenic
ATCAGGGAATGATGAATAAT+AGG 0.360615 3:-10377883 None:intergenic
AACACCGTTACGCTTGAATT+CGG 0.361255 3:-10381940 None:intergenic
AAGCTTTGGTGACTTTGGTT+TGG 0.371601 3:-10379735 None:intergenic
ATCCAAGGACAAGCGTTAAT+TGG 0.381545 3:+10379904 MsaT011712.1:CDS
CACGCAGAAGGTAAACTTGC+AGG 0.393751 3:-10379655 None:intergenic
GGAGGATGAAGTGAAGGATC+AGG 0.403946 3:-10377900 None:intergenic
GCAATCCGAGCCTAAGAAAC+AGG 0.404268 3:+10379939 MsaT011712.1:CDS
TCTCAAAGCTTTGGTGACTT+TGG 0.404347 3:-10379740 None:intergenic
TAAAGTATTTGTTGCGGTGG+CGG 0.415658 3:-10382144 None:intergenic
GCATATATCAAACATCTTGC+TGG 0.416947 3:+10380015 MsaT011712.1:CDS
CACTTCACATCTCAAAGCTT+TGG 0.420423 3:-10379749 None:intergenic
TTGTTGTTGCTGGAAATTGT+AGG 0.427790 3:-10377853 None:intergenic
GACCAATTAACGCTTGTCCT+TGG 0.436576 3:-10379906 None:intergenic
CTTCTAATATTGCAGGCTGT+TGG 0.438137 3:+10379607 MsaT011712.1:intron
GCAAGATTAATTGTAACAGC+AGG 0.443520 3:+10382024 MsaT011712.1:CDS
TGGGAGAAAGCACGCTGCTC+AGG 0.446737 3:+10380035 MsaT011712.1:CDS
GTTGCCTTGATGTCTAATAA+TGG 0.452518 3:+10381900 MsaT011712.1:CDS
TGGGCGGTGTAAAGAGAAAC+AGG 0.453372 3:-10377963 None:intergenic
CTTACAAGATCATATCTGAT+AGG 0.461948 3:-10378026 None:intergenic
ATCAACCTGTTTCTTAGGCT+CGG 0.472485 3:-10379944 None:intergenic
GGTGAAAATTGAAAACTGTC+TGG 0.474169 3:-10382319 None:intergenic
GTCTCGTTGCCATAAATTTG+TGG 0.477870 3:-10379694 None:intergenic
GAGCTTGGTATTGTTGTTGA+GGG 0.489208 3:-10377827 None:intergenic
GGCTCGGATTGCTTGACTAC+GGG 0.489539 3:-10379928 None:intergenic
AGTATTTGTTGCGGTGGCGG+TGG 0.490137 3:-10382141 None:intergenic
GCAGGGTCAGTCACTGGTTG+AGG 0.494322 3:+10382377 MsaT011712.1:CDS
TTTGCAAGTGGGTCAGTGCC+AGG 0.495030 3:-10377921 None:intergenic
TGAGCTTGGTATTGTTGTTG+AGG 0.503622 3:-10377828 None:intergenic
TTGGTGACTTTGGTTTGGTT+AGG 0.506602 3:-10379730 None:intergenic
CATATATCAAACATCTTGCT+GGG 0.508931 3:+10380016 MsaT011712.1:CDS
AGGCTCGGATTGCTTGACTA+CGG 0.513657 3:-10379929 None:intergenic
TAAGAAACACTTGAAGAACT+TGG 0.514681 3:+10382073 MsaT011712.1:CDS
GAAGGAGGAGCTGCAGTTGA+TGG 0.516170 3:+10382257 MsaT011712.1:CDS
TGTTGTTGCTGGAAATTGTA+GGG 0.518373 3:-10377852 None:intergenic
TCTTATGAAAGTCACATAGC+TGG 0.520481 3:+10379799 MsaT011712.1:CDS
GAATTCAAGCGTAACGGTGT+TGG 0.521387 3:+10381942 MsaT011712.1:CDS
GATCCTTCACTTCATCCTCC+TGG 0.522615 3:+10377903 MsaT011712.1:CDS
ACATGCTGCTATGGTGAAGA+AGG 0.523999 3:+10382355 MsaT011712.1:CDS
TTCGCATGAGATGTAATAGT+AGG 0.525742 3:-10379859 None:intergenic
CTTCTGCGTGGAATGGTACA+TGG 0.535273 3:+10379668 MsaT011712.1:CDS
AAGAAGGCAGGGTCAGTCAC+TGG 0.535623 3:+10382371 MsaT011712.1:CDS
AATGCCATTATTAGACATCA+AGG 0.537375 3:-10381904 None:intergenic
ATCTACATTACACACTTAGC+TGG 0.537529 3:+10382050 MsaT011712.1:CDS
GCTGCTATGGTGAAGAAGGC+AGG 0.537781 3:+10382359 MsaT011712.1:CDS
AAAAGCTGCTAAGAAAATCA+AGG 0.540668 3:+10381974 MsaT011712.1:CDS
CCGCAACAAATACTTTAATC+GGG 0.541756 3:+10382150 MsaT011712.1:CDS
CAGCATGTTTCTGGCCAACA+AGG 0.542850 3:-10382340 None:intergenic
CAATCAACCAAAACCAAAGA+AGG 0.546969 3:+10382193 MsaT011712.1:CDS
AGTTTACCTTCTGCGTGGAA+TGG 0.550393 3:+10379661 MsaT011712.1:CDS
CAAGATTAATTGTAACAGCA+GGG 0.550872 3:+10382025 MsaT011712.1:CDS
AAAATCGATGTCGGCACTAG+TGG 0.557209 3:+10382113 MsaT011712.1:CDS
CCCGATTAAAGTATTTGTTG+CGG 0.558626 3:-10382150 None:intergenic
GAAACAGGTTGATTCTGCAA+CGG 0.579888 3:+10379954 MsaT011712.1:CDS
TTGATGTCTAATAATGGCAT+TGG 0.582144 3:+10381906 MsaT011712.1:CDS
TTGATAATCTGTTGGTTGGG+CGG 0.583308 3:-10377979 None:intergenic
TATCTGATAGGTTCAGATTG+TGG 0.585811 3:-10378014 None:intergenic
GTCAAAGAAACGTAAAGTTG+TGG 0.587310 3:+10382235 MsaT011712.1:CDS
GATTAAAGTATTTGTTGCGG+TGG 0.590642 3:-10382147 None:intergenic
GGAAATTGTAGGGTTGAGCT+TGG 0.593362 3:-10377842 None:intergenic
GTGCCAGGAGGATGAAGTGA+AGG 0.595047 3:-10377906 None:intergenic
TGGCCAGAAACATGCTGCTA+TGG 0.598112 3:+10382346 MsaT011712.1:CDS
ATCGGGCCACAAGAAAAGCC+AGG 0.598973 3:+10382167 MsaT011712.1:CDS
CATGTACCATTCCACGCAGA+AGG 0.601401 3:-10379667 None:intergenic
GAGGATGAAGTGAAGGATCA+GGG 0.602017 3:-10377899 None:intergenic
TAAACTTGCAGGTGCTGCTG+AGG 0.602867 3:-10379644 None:intergenic
ACTGACACAAGTAGTATCCA+AGG 0.607332 3:+10379889 MsaT011712.1:CDS
CTGCTATGGTGAAGAAGGCA+GGG 0.613128 3:+10382360 MsaT011712.1:CDS
TCAAGGTTGCTCAATCTGCA+TGG 0.613642 3:+10381991 MsaT011712.1:CDS
AAGAAACGTAAAGTTGTGGA+AGG 0.617548 3:+10382239 MsaT011712.1:CDS
AAAGATGTTGAATTTGCAAG+TGG 0.619628 3:-10377933 None:intergenic
AAACGTAAAGTTGTGGAAGG+AGG 0.636655 3:+10382242 MsaT011712.1:CDS
TCGTTGCCATAAATTTGTGG+TGG 0.644262 3:-10379691 None:intergenic
AAGATGTTGAATTTGCAAGT+GGG 0.649561 3:-10377932 None:intergenic
CTGCAAGTTTACCTTCTGCG+TGG 0.655416 3:+10379656 MsaT011712.1:CDS
AATGTGCACTTTATGCAATG+TGG 0.705637 3:+10382286 MsaT011712.1:CDS
ATTGCCGAATTCAAGCGTAA+CGG 0.711887 3:+10381936 MsaT011712.1:CDS
GCAAGTGGGTCAGTGCCAGG+AGG 0.726366 3:-10377918 None:intergenic
GCGGTGTAAAGAGAAACAGG+AGG 0.820151 3:-10377960 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 10377822 10382397 10377822 ID=MsaG011712
Chr3 mRNA 10377822 10382397 10377822 ID=MsaT011712.1;Parent=MsaG011712
Chr3 exon 10377822 10378043 10377822 ID=MsaT011712.1.exon1;Parent=MsaT011712.1
Chr3 CDS 10377822 10378043 10377822 ID=cds.MsaT011712.1;Parent=MsaT011712.1
Chr3 exon 10379622 10380056 10379622 ID=MsaT011712.1.exon2;Parent=MsaT011712.1
Chr3 CDS 10379622 10380056 10379622 ID=cds.MsaT011712.1;Parent=MsaT011712.1
Chr3 exon 10381900 10382397 10381900 ID=MsaT011712.1.exon3;Parent=MsaT011712.1
Chr3 CDS 10381900 10382397 10381900 ID=cds.MsaT011712.1;Parent=MsaT011712.1
Gene Sequence

>MsaT011712.1

ATGTACCCTCAACAACAATACCAAGCTCAACCCTACAATTTCCAGCAACAACAACAACAAGCCTATTATTCATCATTCCCTGATCCTTCACTTCATCCTCCTGGCACTGACCCACTTGCAAATTCAACATCTTTTGCACCTCCTGTTTCTCTTTACACCGCCCAACCAACAGATTATCAAAATTGGATCGTTCCACAATCTGAACCTATCAGATATGATCTTGCTGTTGGTTCATCACTCGAGACCTCAGCAGCACCTGCAAGTTTACCTTCTGCGTGGAATGGTACATGGCCACCACAAATTTATGGCAACGAGACTACGACAATGTTGCCTAACCAAACCAAAGTCACCAAAGCTTTGAGATGTGAAGTGTGTAAACTTGATGTCAATAGCAAAGACTCTTATGAAAGTCACATAGCTGGAAAGAAACACAAGAAGAATTTGCAGCTACAGACTAATCCTACTATTACATCTCATGCGAATGTACAAACTGACACAAGTAGTATCCAAGGACAAGCGTTAATTGGTCCCGTAGTCAAGCAATCCGAGCCTAAGAAACAGGTTGATTCTGCAACGGTTTGCTCAACTTGCAATGTTTTGTGCACTAGTCAAGATGCATATATCAAACATCTTGCTGGGAGAAAGCACGCTGCTCAGGTTGCCTTGATGTCTAATAATGGCATTGGTCCATCTATTGCCGAATTCAAGCGTAACGGTGTTGGTCCATTTCAAAAAGCTGCTAAGAAAATCAAGGTTGCTCAATCTGCATGGTGTGAAGTTTGCAAGATTAATTGTAACAGCAGGGATATCTACATTACACACTTAGCTGGTAAGAAACACTTGAAGAACTTGGAGAAACTGTCAAATCCAAAAATCGATGTCGGCACTAGTGGCACTTCCACCGCCACCGCAACAAATACTTTAATCGGGCCACAAGAAAAGCCAGGTACCAATCAACCAAAACCAAAGAAGGCATCAGAACTTGATATTGAGTCAAAGAAACGTAAAGTTGTGGAAGGAGGAGCTGCAGTTGATGGTATTAAAATGTGCACTTTATGCAATGTGGTGTGCAATAGCCAGACAGTTTTCAATTTTCACCTTGTTGGCCAGAAACATGCTGCTATGGTGAAGAAGGCAGGGTCAGTCACTGGTTGA
Protein sequence

>MsaT011712.1

MYPQQQYQAQPYNFQQQQQQAYYSSFPDPSLHPPGTDPLANSTSFAPPVSLYTAQPTDYQNWIVPQSEPIRYDLAVGSSLETSAAPASLPSAWNGTWPPQIYGNETTTMLPNQTKVTKALRCEVCKLDVNSKDSYESHIAGKKHKKNLQLQTNPTITSHANVQTDTSSIQGQALIGPVVKQSEPKKQVDSATVCSTCNVLCTSQDAYIKHLAGRKHAAQVALMSNNGIGPSIAEFKRNGVGPFQKAAKKIKVAQSAWCEVCKINCNSRDIYITHLAGKKHLKNLEKLSNPKIDVGTSGTSTATATNTLIGPQEKPGTNQPKPKKASELDIESKKRKVVEGGAAVDGIKMCTLCNVVCNSQTVFNFHLVGQKHAAMVKKAGSVTG*