AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042171

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042171 MtrunA17_Chr1g0203051 59.567 277 107 2 1 277 1 272 3.99e-111 346
MsaG042171 MtrunA17_Chr1g0203051 54.622 119 54 0 275 393 503 621 9.24e-38 148
MsaG042171 MtrunA17_Chr8g0389811 46.377 138 74 0 58 195 58 195 1.10e-42 152
MsaG042171 MtrunA17_Chr2g0287651 31.604 212 141 2 75 283 66 276 8.12e-33 134
MsaG042171 MtrunA17_Chr2g0287651 32.609 184 109 1 247 415 458 641 6.68e-20 94.4
MsaG042171 MtrunA17_Chr2g0331371 44.961 129 71 0 64 192 35 163 5.05e-31 120
MsaG042171 MtrunA17_Chr2g0308841 41.085 129 76 0 277 405 98 226 8.93e-30 118
MsaG042171 MtrunA17_Chr6g0473421 38.519 135 69 2 33 159 2 130 5.17e-27 107
MsaG042171 MtrunA17_Chr1g0171741 34.899 149 96 1 66 214 115 262 3.44e-26 108
MsaG042171 MtrunA17_Chr1g0172931 41.818 110 64 0 57 166 49 158 2.36e-20 88.2
MsaG042171 MtrunA17_Chr8g0340801 46.988 83 44 0 195 277 1 83 2.52e-20 86.3
MsaG042171 MtrunA17_Chr5g0448511 35.099 151 94 2 278 425 270 419 5.57e-18 87.4
MsaG042171 MtrunA17_Chr2g0290391 26.606 218 138 5 96 292 63 279 1.19e-16 83.6
MsaG042171 MtrunA17_Chr1g0198761 30.348 201 124 6 96 283 59 256 1.90e-15 79.7
MsaG042171 MtrunA17_Chr1g0198761 25.984 254 163 7 300 544 510 747 5.89e-11 65.5
MsaG042171 MtrunA17_Chr5g0448761 30.282 142 98 1 278 419 498 638 2.75e-15 79.3
MsaG042171 MtrunA17_Chr5g0448761 25.243 206 138 5 91 283 60 262 5.25e-12 68.9
MsaG042171 MtrunA17_Chr6g0458391 33.562 146 94 3 262 406 622 765 4.21e-15 79.0
MsaG042171 MtrunA17_Chr2g0276841 34.328 134 81 4 90 218 76 207 5.74e-15 78.2
MsaG042171 MtrunA17_Chr3g0118611 29.310 174 108 3 273 439 369 534 7.27e-15 78.2
MsaG042171 MtrunA17_Chr7g0228061 39.583 96 51 3 479 568 1 95 3.31e-14 68.6
MsaG042171 MtrunA17_Chr5g0431001 27.863 262 167 9 50 292 21 279 3.17e-13 72.4
MsaG042171 MtrunA17_Chr2g0287061 30.714 140 95 2 283 421 578 716 2.22e-12 70.1
MsaG042171 MtrunA17_Chr1g0202341 30.275 109 76 0 300 408 503 611 3.87e-12 69.3
MsaG042171 MtrunA17_Chr1g0202341 23.645 203 141 5 91 283 51 249 4.94e-11 65.9
MsaG042171 MtrunA17_Chr8g0366311 45.763 59 32 0 57 115 52 110 1.07e-11 62.0
MsaG042171 MtrunA17_Chr5g0440451 28.462 130 92 1 278 407 477 605 1.11e-11 68.2
MsaG042171 MtrunA17_Chr7g0258861 26.901 171 116 3 91 254 10 178 7.28e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042171 AT5G28530.1 29.167 192 121 5 96 273 67 257 3.60e-19 92.0
MsaG042171 AT5G28530.3 29.167 192 121 5 96 273 67 257 3.64e-19 92.0
MsaG042171 AT5G28530.2 29.167 192 121 5 96 273 67 257 3.64e-19 92.0
MsaG042171 AT5G28530.4 32.374 139 91 2 96 232 67 204 7.20e-19 90.9
MsaG042171 AT5G28530.5 32.374 139 91 2 96 232 67 204 7.39e-19 90.9
MsaG042171 AT2G27110.2 34.459 148 90 3 279 420 453 599 7.84e-18 88.2
MsaG042171 AT2G27110.1 34.459 148 90 3 279 420 453 599 7.84e-18 88.2
MsaG042171 AT2G27110.3 34.459 148 90 3 279 420 308 454 9.41e-18 87.4
MsaG042171 AT4G38170.1 34.884 129 83 1 278 406 272 399 1.63e-14 77.0
MsaG042171 AT4G38180.1 31.159 138 94 1 278 415 507 643 5.37e-14 75.9
MsaG042171 AT1G10240.2 31.655 139 88 4 90 223 54 190 4.22e-13 72.8
MsaG042171 AT1G10240.1 31.655 139 88 4 90 223 54 190 4.22e-13 72.8

Find 116 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTTGAACTATTACCATTT+TGG 0.109008 8:-17941397 None:intergenic
GAAACTTATGGTTCAGAATT+TGG 0.111820 8:+17942088 MsaT042171.1:CDS
CCTCCACATATTCCACATTT+AGG 0.184860 8:-17941713 None:intergenic
GAAAACATTATAAGTATAAA+TGG 0.211167 8:-17941171 None:intergenic
GACACGTACAATTCGTTCTA+TGG 0.271258 8:+17939613 MsaT042171.1:CDS
GCAGATTATGCATCTTCTTT+TGG 0.286242 8:+17941008 MsaT042171.1:CDS
CAACTCCACGATCCGGAAAA+TGG 0.292979 8:-17939729 None:intergenic
AAACATTGGAATCATTTAAC+AGG 0.307845 8:+17941552 MsaT042171.1:CDS
TCATCATAAAATTCTTGTTC+AGG 0.314024 8:-17941815 None:intergenic
GATGAAATCATTGCCCAAAA+TGG 0.341929 8:+17941383 MsaT042171.1:CDS
TGCAAGAGATTGGAGACATT+TGG 0.353006 8:+17941263 MsaT042171.1:CDS
CTTTGAGAAAATTAATTTCA+AGG 0.360382 8:+17939678 MsaT042171.1:CDS
ATTCCTACGTCACGTATCTA+TGG 0.365780 8:+17940117 MsaT042171.1:CDS
TTTGCGTGTGCTGAAACTTA+TGG 0.369053 8:+17942076 MsaT042171.1:CDS
GGTTGTGTGCATGGATTTGC+TGG 0.371733 8:+17939775 MsaT042171.1:CDS
CCTGAGACAGGAAGAAGTTT+AGG 0.371990 8:+17941605 MsaT042171.1:CDS
ATGTTCCTCGGATGATGATA+TGG 0.372317 8:+17939588 MsaT042171.1:CDS
AACTAGTAGGTGTGGGTGTA+TGG 0.373550 8:+17939924 MsaT042171.1:CDS
ATAAAATTCTTGTTCAGGAT+TGG 0.374692 8:-17941810 None:intergenic
TCAAACGTGAGCAACATAAC+TGG 0.389168 8:+17939375 MsaT042171.1:CDS
TGAATGCTCTTGCAAGAGAT+TGG 0.390662 8:+17941253 MsaT042171.1:CDS
ACTGGGGAAGGCAACATAGC+TGG 0.398079 8:+17939393 MsaT042171.1:CDS
GATTTCATCCTTAGCACGTT+TGG 0.398267 8:-17941369 None:intergenic
TAGGTAATCCGCAGCGGCTT+AGG 0.399760 8:+17941624 MsaT042171.1:CDS
TATGAACATAAGAAAATTGC+CGG 0.401546 8:+17941322 MsaT042171.1:CDS
TATACACAAAACCATGGAAA+TGG 0.430787 8:+17941514 MsaT042171.1:CDS
TTTGTTATAACTGTTCTAGT+TGG 0.436004 8:+17942053 MsaT042171.1:CDS
CTGGGGAAGGCAACATAGCT+GGG 0.441129 8:+17939394 MsaT042171.1:CDS
TGTTAGATTCAGAGAAATAG+AGG 0.446639 8:+17940986 MsaT042171.1:intron
TTTATGATGATTTCGAGGAT+TGG 0.453111 8:+17941828 MsaT042171.1:CDS
CTTGAATTGCTCATTGTACA+TGG 0.453134 8:-17940193 None:intergenic
ACCCTAGAGATGACATTCAT+TGG 0.453922 8:+17941198 MsaT042171.1:CDS
AAGGTATAGTTGCTTCTTGA+CGG 0.456464 8:-17941766 None:intergenic
CGACAAGATCTCTCCAACAT+AGG 0.457573 8:-17941116 None:intergenic
TGTGGAATATGTGGAGGAAA+GGG 0.458368 8:+17941719 MsaT042171.1:CDS
TGAAAACCACACTGAAACAT+TGG 0.467180 8:+17941538 MsaT042171.1:CDS
CGTTCCATCACAATAGATTC+CGG 0.468918 8:-17941341 None:intergenic
CCTAAACTTCTTCCTGTCTC+AGG 0.470378 8:-17941605 None:intergenic
CGAGGATTGGAACGTTCCTA+TGG 0.473241 8:+17941841 MsaT042171.1:CDS
AACTACGTATGTTATGTTTG+TGG 0.474919 8:+17941439 MsaT042171.1:CDS
TGTTTGTGGAGCGTTGTAAG+AGG 0.478007 8:+17941453 MsaT042171.1:CDS
GGAGAGGGAGAGGAAGAGTT+CGG 0.490049 8:+17940215 MsaT042171.1:CDS
ATGGTAATAGTTCAAGTCAC+CGG 0.492201 8:+17941402 MsaT042171.1:CDS
TCACTCATCTTTCTATGTGC+AGG 0.492964 8:-17940054 None:intergenic
ATGAAAGCAATGAGAAAAGC+TGG 0.503092 8:+17940093 MsaT042171.1:CDS
TCTGTGTTGGGTCCTGAGAC+AGG 0.507928 8:+17941593 MsaT042171.1:CDS
AGCAATTCAAGGAGAGGGAG+AGG 0.509393 8:+17940205 MsaT042171.1:CDS
TTGAATGCAACTCCACGATC+CGG 0.516695 8:-17939736 None:intergenic
AATTTCTGAAGGGATTGTCT+AGG 0.518783 8:+17940256 MsaT042171.1:CDS
GAGAGCACAAGCCAACTAGT+AGG 0.519908 8:+17939911 MsaT042171.1:CDS
CAAACGTGAGCAACATAACT+GGG 0.524047 8:+17939376 MsaT042171.1:CDS
GGATCGCAGTAGCTCTTGTT+CGG 0.525126 8:+17939555 MsaT042171.1:intron
ACACCTAAATGTGGAATATG+TGG 0.525604 8:+17941710 MsaT042171.1:CDS
GTCCAATGAATGTCATCTCT+AGG 0.525748 8:-17941200 None:intergenic
AGTTGATGAGATGTCTGTGT+TGG 0.531252 8:+17941580 MsaT042171.1:CDS
GGAATGTCAATAATCTGTCT+AGG 0.533250 8:+17939884 MsaT042171.1:CDS
GTTGATGAGATGTCTGTGTT+GGG 0.534863 8:+17941581 MsaT042171.1:CDS
TTTGAAGAATGAGTTTCTGA+AGG 0.536717 8:-17941785 None:intergenic
ACCTTTGTTTGTCATAGAGA+AGG 0.539558 8:+17939847 MsaT042171.1:CDS
ATGTGGAATATGTGGAGGAA+AGG 0.540284 8:+17941718 MsaT042171.1:CDS
CACAAGCCAACTAGTAGGTG+TGG 0.542797 8:+17939916 MsaT042171.1:CDS
TATTGACATTCCTTGCATCC+CGG 0.543550 8:-17939873 None:intergenic
CATGTACAATGAGCAATTCA+AGG 0.545333 8:+17940194 MsaT042171.1:CDS
TTTGTCATAGAGAAGGTCTC+CGG 0.545529 8:+17939854 MsaT042171.1:CDS
TCCAATGAATGTCATCTCTA+GGG 0.549811 8:-17941199 None:intergenic
AATATGTACGGTTGTGTGCA+TGG 0.553072 8:+17939766 MsaT042171.1:CDS
CCGCAGCGGCTTAGGAAAAG+AGG 0.554134 8:+17941632 MsaT042171.1:CDS
CATAGCTGGGGAAGGTTCAG+AGG 0.556178 8:+17939407 MsaT042171.1:CDS
TGATGCAATTGAATTTCTGA+AGG 0.556876 8:+17940245 MsaT042171.1:CDS
AAAATCTAGGATATTCAAGA+AGG 0.557216 8:+17940169 MsaT042171.1:CDS
ACACGTACAATTCGTTCTAT+GGG 0.559891 8:+17939614 MsaT042171.1:CDS
GAGAAGGTCTCCGGGATGCA+AGG 0.564819 8:+17939863 MsaT042171.1:CDS
ACGATGGACCAAACGTGCTA+AGG 0.564991 8:+17941361 MsaT042171.1:CDS
ACATACGTAGTTACAAAAGC+AGG 0.568046 8:-17941428 None:intergenic
CTATGTTGGAGAGATCTTGT+CGG 0.568238 8:+17941117 MsaT042171.1:CDS
ATACACCCACACCTACTAGT+TGG 0.569760 8:-17939922 None:intergenic
TTTATGATGAGTTTGCAAAA+CGG 0.570070 8:-17941036 None:intergenic
ATTGCCGGAATCTATTGTGA+TGG 0.572596 8:+17941337 MsaT042171.1:CDS
TAGTTACAAAAGCAGGATCC+CGG 0.574230 8:-17941421 None:intergenic
CAGCTGCAAATATTTATACA+AGG 0.579041 8:+17941072 MsaT042171.1:CDS
TGGTAATAGTTCAAGTCACC+GGG 0.580874 8:+17941403 MsaT042171.1:CDS
GATGCAATTGAATTTCTGAA+GGG 0.581745 8:+17940246 MsaT042171.1:CDS
ATCGAAGAAATTGTGAGCAG+TGG 0.583304 8:+17941146 MsaT042171.1:CDS
TAGAGATGACATTCATTGGA+CGG 0.586970 8:+17941202 MsaT042171.1:CDS
CGTGTTGTTAAGAACAAGGA+TGG 0.592808 8:+17939808 MsaT042171.1:CDS
GAAGGCAACATAGCTGGGGA+AGG 0.594260 8:+17939399 MsaT042171.1:CDS
AAACGGAACACACCTAAATG+TGG 0.598704 8:+17941701 MsaT042171.1:CDS
CAATGAGCAATTCAAGGAGA+GGG 0.599379 8:+17940200 MsaT042171.1:CDS
TTGTCATAGAGAAGGTCTCC+GGG 0.600219 8:+17939855 MsaT042171.1:CDS
ATTCAAGTACACGTTGACTA+CGG 0.603567 8:+17939952 MsaT042171.1:CDS
AACATTGGAATCATTTAACA+GGG 0.608838 8:+17941553 MsaT042171.1:CDS
TGGATTGCCACACTTTAACA+CGG 0.614042 8:-17941486 None:intergenic
AGAATATATACACAAAACCA+TGG 0.615777 8:+17941508 MsaT042171.1:CDS
CAGCGGCTTAGGAAAAGAGG+TGG 0.616891 8:+17941635 MsaT042171.1:CDS
ATGTCGTGTTGTTAAGAACA+AGG 0.624039 8:+17939804 MsaT042171.1:CDS
ACCTTCTCTATGACAAACAA+AGG 0.626355 8:-17939848 None:intergenic
TGTGGAGCGTTGTAAGAGGA+TGG 0.636202 8:+17941457 MsaT042171.1:CDS
ACAAGCCAACTAGTAGGTGT+GGG 0.642158 8:+17939917 MsaT042171.1:CDS
GTCACAACCGCGTGTCATGT+CGG 0.644843 8:+17941741 MsaT042171.1:CDS
GTCTTCCATATCATCATCCG+AGG 0.646493 8:-17939593 None:intergenic
CCTAAATGTGGAATATGTGG+AGG 0.647027 8:+17941713 MsaT042171.1:CDS
GTGAGCAACATAACTGGGGA+AGG 0.649113 8:+17939381 MsaT042171.1:CDS
TCTGAAGGGATTGTCTAGGA+CGG 0.649575 8:+17940260 MsaT042171.1:CDS
TGGGGAAGGCAACATAGCTG+GGG 0.651748 8:+17939395 MsaT042171.1:CDS
ACAATGAGCAATTCAAGGAG+AGG 0.660288 8:+17940199 MsaT042171.1:CDS
ATGATTCCAATGTTTCAGTG+TGG 0.670510 8:-17941544 None:intergenic
ACGTTGACTACGGTAGTGAT+CGG 0.671418 8:+17939962 MsaT042171.1:CDS
AATCTATTGTGATGGAACGA+TGG 0.672712 8:+17941345 MsaT042171.1:CDS
GACGGAACCGACATGACACG+CGG 0.679341 8:-17941748 None:intergenic
GAAGTTTAGGTAATCCGCAG+CGG 0.685166 8:+17941618 MsaT042171.1:CDS
AAACCATAGATACGTGACGT+AGG 0.700125 8:-17940120 None:intergenic
ACAGCTACGACATGTTCACA+AGG 0.701874 8:-17941290 None:intergenic
GCAAATGCCGTGTTAAAGTG+TGG 0.703112 8:+17941479 MsaT042171.1:CDS
TTGACTACGGTAGTGATCGG+TGG 0.725493 8:+17939965 MsaT042171.1:CDS
ACATTGGAATCATTTAACAG+GGG 0.730874 8:+17941554 MsaT042171.1:CDS
AAACGTGAGCAACATAACTG+GGG 0.752985 8:+17939377 MsaT042171.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 17939339 17942115 17939339 ID=MsaG042171
Chr8 mRNA 17939339 17942115 17939339 ID=MsaT042171.1;Parent=MsaG042171
Chr8 exon 17939339 17939428 17939339 ID=MsaT042171.1.exon1;Parent=MsaT042171.1
Chr8 CDS 17939339 17939428 17939339 ID=cds.MsaT042171.1;Parent=MsaT042171.1
Chr8 exon 17939556 17940292 17939556 ID=MsaT042171.1.exon2;Parent=MsaT042171.1
Chr8 CDS 17939556 17940292 17939556 ID=cds.MsaT042171.1;Parent=MsaT042171.1
Chr8 exon 17940992 17941862 17940992 ID=MsaT042171.1.exon3;Parent=MsaT042171.1
Chr8 CDS 17940992 17941862 17940992 ID=cds.MsaT042171.1;Parent=MsaT042171.1
Chr8 exon 17942053 17942115 17942053 ID=MsaT042171.1.exon4;Parent=MsaT042171.1
Chr8 CDS 17942053 17942115 17942053 ID=cds.MsaT042171.1;Parent=MsaT042171.1
Gene Sequence

>MsaT042171.1

ATGGATATTGGTGAAATTTTTGATATTTTTGGAGTTTCAAACGTGAGCAACATAACTGGGGAAGGCAACATAGCTGGGGAAGGTTCAGAGGATCGCAGTAGCTCTTGTTCGGAGAGTGTTTTATGTTCCTCGGATGATGATATGGAAGACACGTACAATTCGTTCTATGGGTGCAATTTTGAGGATGAATTTGCGGTTGATTGCACGACTGACTTTGAGAAAATTAATTTCAAGGAATTAAGCTCTGATGAAATAATGATGTACCATTTTCCGGATCGTGGAGTTGCATTCAAGTTTTACAATATGTACGGTTGTGTGCATGGATTTGCTGGTAGAAGATGTCGTGTTGTTAAGAACAAGGATGGCGATGTTATTCAACAAACCTTTGTTTGTCATAGAGAAGGTCTCCGGGATGCAAGGAATGTCAATAATCTGTCTAGGAAAAGAGAGCACAAGCCAACTAGTAGGTGTGGGTGTATGGCAAAAATTCAAGTACACGTTGACTACGGTAGTGATCGGTGGTACATAAAAATGTTTGACGATATTCATAATCACACATTTTTGGATGAGAAGTATGAGGGGATGCTACCTGCACATAGAAAGATGAGTGATTATGACAAATTCCAAATGAAAGCAATGAGAAAAGCTGGCATTCCTACGTCACGTATCTATGGTTTTTTTGCTTCACAAGCTGGTGGATTCAAAAATCTAGGATATTCAAGAAGGACCATGTACAATGAGCAATTCAAGGAGAGGGAGAGGAAGAGTTCGGATGCAGATGATGCAATTGAATTTCTGAAGGGATTGTCTAGGACGGACGATATGATATTCAGAGAAATAGAGGCAGATTATGCATCTTCTTTTGGTGAAACCGTTTTGCAAACTCATCATAAAAGTTTAGAGAAGTCAGCTGCAAATATTTATACAAGGTCAGTTTTCAAGCTTTTTAGGCCTATGTTGGAGAGATCTTGTCGGTGTAAAATCGAAGAAATTGTGAGCAGTGGTTCCATTTATACTTATAATGTTTTCAAATACCCTAGAGATGACATTCATTGGACGGTTTCATATTGCCAAGAACGATTAAAATTTGAATGCTCTTGCAAGAGATTGGAGACATTTGGTATTCCTTGTGAACATGTCGTAGCTGTTTTAGTGTATATGAACATAAGAAAATTGCCGGAATCTATTGTGATGGAACGATGGACCAAACGTGCTAAGGATGAAATCATTGCCCAAAATGGTAATAGTTCAAGTCACCGGGATCCTGCTTTTGTAACTACGTATGTTATGTTTGTGGAGCGTTGTAAGAGGATGGCAAATGCCGTGTTAAAGTGTGGCAATCCAGAATATATACACAAAACCATGGAAATGGTTGAAAACCACACTGAAACATTGGAATCATTTAACAGGGGTGAAGTTGATGAGATGTCTGTGTTGGGTCCTGAGACAGGAAGAAGTTTAGGTAATCCGCAGCGGCTTAGGAAAAGAGGTGGAGCAGCAGCCGATTCTTCAGCTCAAAATGCAAAAGCGAAAAAAAAACGGAACACACCTAAATGTGGAATATGTGGAGGAAAGGGTCACAACCGCGTGTCATGTCGGTTCCGTCAAGAAGCAACTATACCTTCAGAAACTCATTCTTCAAATTCCAATCCTGAACAAGAATTTTATGATGATTTCGAGGATTGGAACGTTCCTATGTTTGTTATAACTGTTCTAGTTGGTTTGCGTGTGCTGAAACTTATGGTTCAGAATTTGGACTAA
Protein sequence

>MsaT042171.1

MDIGEIFDIFGVSNVSNITGEGNIAGEGSEDRSSSCSESVLCSSDDDMEDTYNSFYGCNFEDEFAVDCTTDFEKINFKELSSDEIMMYHFPDRGVAFKFYNMYGCVHGFAGRRCRVVKNKDGDVIQQTFVCHREGLRDARNVNNLSRKREHKPTSRCGCMAKIQVHVDYGSDRWYIKMFDDIHNHTFLDEKYEGMLPAHRKMSDYDKFQMKAMRKAGIPTSRIYGFFASQAGGFKNLGYSRRTMYNEQFKERERKSSDADDAIEFLKGLSRTDDMIFREIEADYASSFGETVLQTHHKSLEKSAANIYTRSVFKLFRPMLERSCRCKIEEIVSSGSIYTYNVFKYPRDDIHWTVSYCQERLKFECSCKRLETFGIPCEHVVAVLVYMNIRKLPESIVMERWTKRAKDEIIAQNGNSSSHRDPAFVTTYVMFVERCKRMANAVLKCGNPEYIHKTMEMVENHTETLESFNRGEVDEMSVLGPETGRSLGNPQRLRKRGGAAADSSAQNAKAKKKRNTPKCGICGGKGHNRVSCRFRQEATIPSETHSSNSNPEQEFYDDFEDWNVPMFVITVLVGLRVLKLMVQNLD*