AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029731


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029731 MtrunA17_Chr5g0447381 98.450 387 6 0 38 424 6 392 0.0 774
MsaG029731 MtrunA17_Chr5g0447371 97.561 41 1 0 1 41 57 97 1.54e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029731 AT5G35770.1 46.370 427 207 7 2 421 32 443 1.58e-112 338

Find 133 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACTCTTCTATACATTTAT+TGG 0.108359 5:+80694097 MsaT029731.1:CDS
TTATTAGGGTGCATGAATTT+AGG 0.164199 5:+80693909 MsaT029731.1:CDS
GTCTACATTGCTATTATTAA+TGG 0.164360 5:+80693387 MsaT029731.1:CDS
TCATGGTTAAGAGGTTTATT+AGG 0.167477 5:+80693894 MsaT029731.1:CDS
TGCCATCCTTGAACCGTTTC+CGG 0.223972 5:-80693606 None:intergenic
GCGTGAGTAGGTTTAGATTA+AGG 0.227131 5:+80693868 MsaT029731.1:CDS
CCTGCACGACGGGCAATTAA+TGG 0.265227 5:+80693435 MsaT029731.1:CDS
CCTTCTCCATCATCTCTAAC+TGG 0.275457 5:-80694017 None:intergenic
GGGTATGTTATAACATATTC+TGG 0.276633 5:+80693930 MsaT029731.1:CDS
TCCGTTTCGGGAATTGTAAT+TGG 0.284357 5:+80693327 MsaT029731.1:CDS
TATTAGGGTGCATGAATTTA+GGG 0.289123 5:+80693910 MsaT029731.1:CDS
GTGCACATGTTAGCACATTT+TGG 0.290721 5:+80693268 MsaT029731.1:CDS
CGTGAGTAGGTTTAGATTAA+GGG 0.323549 5:+80693869 MsaT029731.1:CDS
CATGGTTAAGAGGTTTATTA+GGG 0.328702 5:+80693895 MsaT029731.1:CDS
CTCGCCTTCGCGAGATTAGA+TGG 0.334905 5:+80693360 MsaT029731.1:CDS
GCAGGAATGGGCCCGGGTAT+TGG 0.339605 5:-80693417 None:intergenic
TCTACATTGCTATTATTAAT+GGG 0.340728 5:+80693388 MsaT029731.1:CDS
TCCAACCATGGTCTTCTATT+CGG 0.353047 5:+80693291 MsaT029731.1:CDS
ATAACATATTCTGGTGGGTC+TGG 0.372539 5:+80693939 MsaT029731.1:CDS
GGCAGCGGCAGATGAGGTTT+TGG 0.378783 5:-80693173 None:intergenic
TATATGCTGGCCATGCGGGC+GGG 0.383931 5:+80693520 MsaT029731.1:CDS
AGCTACTACATATTCTCTTT+CGG 0.384245 5:-80693673 None:intergenic
ACGGAACAGCGCGTGTTTGT+TGG 0.386206 5:+80693567 MsaT029731.1:CDS
AGGATTCATTGTAGGATCAT+TGG 0.389444 5:+80693770 MsaT029731.1:CDS
CGTGATGTAGTGTCCATAAC+AGG 0.395954 5:+80693750 MsaT029731.1:CDS
GGTTTAGATTAAGGGCTTCA+TGG 0.398867 5:+80693877 MsaT029731.1:CDS
TTCATTAACCGATCCGGAAA+CGG 0.410471 5:+80693593 MsaT029731.1:CDS
CACCGGGAGACATGCTTTAG+TGG 0.414725 5:+80693122 MsaT029731.1:CDS
CCCGAAACGGATTGTGAAAA+CGG 0.417479 5:-80693315 None:intergenic
ACATCACGTAATAGAACCTC+TGG 0.422231 5:-80693735 None:intergenic
AGCTTGCACAAGTACAAGAT+TGG 0.422430 5:+80693692 MsaT029731.1:CDS
ATATGCTGGCCATGCGGGCG+GGG 0.423497 5:+80693521 MsaT029731.1:CDS
ACCGACCGGTTCAACTAATT+CGG 0.424968 5:-80693637 None:intergenic
AGAGGCTCACGAGACGCATC+TGG 0.428365 5:+80693025 MsaT029731.1:CDS
GTAGCCAATGCTTCAACAAC+AGG 0.432980 5:-80689303 None:intergenic
TCCAATTACAATTCCCGAAA+CGG 0.436742 5:-80693328 None:intergenic
CGGGCCCATTCCTGCACGAC+GGG 0.438206 5:+80693425 MsaT029731.1:CDS
GGCTCTAGTCGTTGGTGGGT+TGG 0.439072 5:+80693495 MsaT029731.1:CDS
TCCTACAATGAATCCTGTTA+TGG 0.441153 5:-80693763 None:intergenic
TCTCCCGGTGGTAAAGTTCC+TGG 0.441224 5:-80693109 None:intergenic
TCCTTGAACCGTTTCCGGAT+CGG 0.441558 5:-80693601 None:intergenic
CCATTAATTGCCCGTCGTGC+AGG 0.443293 5:-80693435 None:intergenic
TTAAGGGCTTCATGGTTAAG+AGG 0.447013 5:+80693885 MsaT029731.1:CDS
AATTGCCCGTCGTGCAGGAA+TGG 0.458917 5:-80693430 None:intergenic
ATTGCCCGTCGTGCAGGAAT+GGG 0.459648 5:-80693429 None:intergenic
ACCGATCCGGAAACGGTTCA+AGG 0.460400 5:+80693600 MsaT029731.1:CDS
CCGTCGTGCAGGAATGGGCC+CGG 0.461152 5:-80693424 None:intergenic
ATGGGCCCGGGTATTGGTCC+AGG 0.465999 5:-80693411 None:intergenic
GGTTTATATGCTGGCCATGC+GGG 0.468935 5:+80693516 MsaT029731.1:CDS
TGGTGGGTTGGTTTATATGC+TGG 0.470180 5:+80693507 MsaT029731.1:CDS
TGAACCTGTTGTTGAAGCAT+TGG 0.473412 5:+80689299 MsaT029731.1:CDS
GTTAACCGAATTAGTTGAAC+CGG 0.476077 5:+80693632 MsaT029731.1:CDS
ATTGATGCTTCTCATTATCA+TGG 0.480019 5:+80689336 MsaT029731.1:CDS
TTGCCGGCTCTAGTCGTTGG+TGG 0.480637 5:+80693490 MsaT029731.1:CDS
CATATTCTCTTTCGGTGACT+CGG 0.481267 5:-80693665 None:intergenic
GTCTGGTTTGTTGAGAGTGT+GGG 0.482663 5:+80693956 MsaT029731.1:CDS
TGCCGGCTCTAGTCGTTGGT+GGG 0.484033 5:+80693491 MsaT029731.1:CDS
ATGATAATGAGAAGCATCAA+TGG 0.484575 5:-80689334 None:intergenic
ATTGCTATTATTAATGGGCC+TGG 0.486088 5:+80693393 MsaT029731.1:CDS
CGACGAAGCCGCAGGCGAGG+TGG 0.487527 5:-80693212 None:intergenic
GGAGTATTAGTAGAATTTGC+CGG 0.489467 5:+80693474 MsaT029731.1:CDS
ACGCTCCCAGTTAGAGATGA+TGG 0.491914 5:+80694011 MsaT029731.1:CDS
ATCTAATCTCGCGAAGGCGA+GGG 0.494316 5:-80693358 None:intergenic
TCAAATATGGGACGCGCACA+CGG 0.496233 5:+80693548 MsaT029731.1:CDS
CCGAAACGGATTGTGAAAAC+GGG 0.497568 5:-80693314 None:intergenic
TGGCGGTTCATTAACCGATC+CGG 0.497586 5:+80693587 MsaT029731.1:CDS
CATCTAATCTCGCGAAGGCG+AGG 0.498179 5:-80693359 None:intergenic
TGATCTCCTGGATCATATTG+TGG 0.499584 5:-80693147 None:intergenic
AACGTGCTATGAATGAAGTA+TGG 0.501621 5:+80689274 None:intergenic
TTATATGCTGGCCATGCGGG+CGG 0.503776 5:+80693519 MsaT029731.1:CDS
GAACAGCGCGTGTTTGTTGG+CGG 0.505393 5:+80693570 MsaT029731.1:CDS
TGTCGGAGAGAGTGAGGCAG+CGG 0.506671 5:-80693188 None:intergenic
AATGGTGATGTTGTCAATAA+CGG 0.506851 5:+80693453 MsaT029731.1:CDS
TCCATAACAGGATTCATTGT+AGG 0.509536 5:+80693762 MsaT029731.1:CDS
GGTCTGGTTTGTTGAGAGTG+TGG 0.510453 5:+80693955 MsaT029731.1:CDS
CTTCTCCATCATCTCTAACT+GGG 0.510502 5:-80694016 None:intergenic
AACCCACCAACGACTAGAGC+CGG 0.516179 5:-80693493 None:intergenic
CTCGCCTGCGGCTTCGTCGA+CGG 0.523192 5:+80693216 MsaT029731.1:CDS
GAGTGAGGCAGCGGCAGATG+AGG 0.527259 5:-80693179 None:intergenic
GTTCGGATCTACTGTGGCAG+AGG 0.528047 5:+80693007 MsaT029731.1:CDS
GACGAAGCCGCAGGCGAGGT+GGG 0.529764 5:-80693211 None:intergenic
GGCGCAGAACATATAGATTG+AGG 0.532902 5:+80693046 MsaT029731.1:CDS
GGCAGTTAGAATACATCTAC+TGG 0.534095 5:+80693076 MsaT029731.1:CDS
GTGGTCCCACAATATGATCC+AGG 0.534362 5:+80693141 MsaT029731.1:CDS
GCCGCAGGCGAGGTGGGTGT+CGG 0.536831 5:-80693205 None:intergenic
GTGATACACAATCGCGCCGC+AGG 0.537724 5:-80693990 None:intergenic
ATGGAGAGAAGTGTCACGTT+CGG 0.540623 5:+80692990 MsaT029731.1:CDS
GCGCAGAACATATAGATTGA+GGG 0.543876 5:+80693047 MsaT029731.1:CDS
GATCTCCTGGATCATATTGT+GGG 0.544786 5:-80693146 None:intergenic
CGTCGTGCAGGAATGGGCCC+GGG 0.546050 5:-80693423 None:intergenic
AATTTGCCGGCTCTAGTCGT+TGG 0.546832 5:+80693487 MsaT029731.1:CDS
GTGGTGGAAAGAAGTGGTGT+TGG 0.551066 5:+80693816 MsaT029731.1:CDS
ATGTTATAACATATTCTGGT+GGG 0.553968 5:+80693934 MsaT029731.1:CDS
AATGGGCCTGGACCAATACC+CGG 0.556865 5:+80693405 MsaT029731.1:CDS
GCCGAATAGAAGACCATGGT+TGG 0.558339 5:-80693292 None:intergenic
TCTACTGGCATCGAACGGCC+AGG 0.565427 5:+80693091 MsaT029731.1:CDS
TTTGTTGTGGTGGAAAGAAG+TGG 0.565574 5:+80693810 MsaT029731.1:CDS
TTTGAAAAGCCCCGCCCGCA+TGG 0.566257 5:-80693530 None:intergenic
GAAGTGGTGTTGGAACTGTT+CGG 0.568741 5:+80693826 MsaT029731.1:CDS
GGTGGGTGTCGGAGAGAGTG+AGG 0.568818 5:-80693194 None:intergenic
CGTCGACGAAGCCGCAGGCG+AGG 0.570217 5:-80693215 None:intergenic
ATGGGCCTGGACCAATACCC+GGG 0.577553 5:+80693406 MsaT029731.1:CDS
GTGACTCGGACTCGACCGAC+CGG 0.586956 5:-80693651 None:intergenic
ATCCGGAAACGGTTCAAGGA+TGG 0.588593 5:+80693604 MsaT029731.1:CDS
GACCACTAAAGCATGTCTCC+CGG 0.592351 5:-80693124 None:intergenic
GCATGCAGGTTTGTTCAACA+TGG 0.597878 5:+80692971 MsaT029731.1:intron
TGGTTTATATGCTGGCCATG+CGG 0.599044 5:+80693515 MsaT029731.1:CDS
ACTGCCGTCGACGAAGCCGC+AGG 0.600288 5:-80693220 None:intergenic
ACGGCCAGGAACTTTACCAC+CGG 0.601863 5:+80693105 MsaT029731.1:CDS
ATAATTTCGAGCGCGTGAGT+AGG 0.604680 5:+80693856 MsaT029731.1:CDS
CGGCCAGGAACTTTACCACC+GGG 0.607000 5:+80693106 MsaT029731.1:CDS
CCAGTTAGAGATGATGGAGA+AGG 0.611674 5:+80694017 MsaT029731.1:CDS
GATGGAGAAGGACAAGTACA+TGG 0.613846 5:+80694029 MsaT029731.1:CDS
TCCGACACCCACCTCGCCTG+CGG 0.615146 5:+80693204 MsaT029731.1:CDS
ATCTCCATCTAATCTCGCGA+AGG 0.620003 5:-80693364 None:intergenic
TATGTTATAACATATTCTGG+TGG 0.621514 5:+80693933 MsaT029731.1:CDS
ATCATTGGATGTTAGCCATG+AGG 0.625954 5:+80693785 MsaT029731.1:CDS
TGCTAACATGTGCACCGGTG+TGG 0.634853 5:-80693260 None:intergenic
ACAAGTACATGGCAATAGCA+TGG 0.638195 5:+80694040 MsaT029731.1:CDS
CATATAGATTGAGGGACACG+TGG 0.643287 5:+80693055 MsaT029731.1:CDS
CGGTGTGGAGATCGAAGAGT+CGG 0.650728 5:-80693245 None:intergenic
CCGGGCCCATTCCTGCACGA+CGG 0.655323 5:+80693424 MsaT029731.1:CDS
AAATGTGCTAACATGTGCAC+CGG 0.656474 5:-80693265 None:intergenic
ATACATCTACTGGCATCGAA+CGG 0.658565 5:+80693086 MsaT029731.1:CDS
CATCACGTAATAGAACCTCT+GGG 0.662087 5:-80693734 None:intergenic
CGACTCTTCGATCTCCACAC+CGG 0.677791 5:+80693246 MsaT029731.1:CDS
ACCGAATTAGTTGAACCGGT+CGG 0.683053 5:+80693636 MsaT029731.1:CDS
TGTCACGTTCGGATCTACTG+TGG 0.685634 5:+80693001 MsaT029731.1:CDS
TTTCAACTTAAGAAACCCAG+AGG 0.687724 5:+80693719 MsaT029731.1:CDS
GTGGGACATACATGAACCTG+CGG 0.688958 5:+80693974 MsaT029731.1:CDS
CACTAAAGCATGTCTCCCGG+TGG 0.706707 5:-80693121 None:intergenic
GGTTGCTAATCAAACTCACG+TGG 0.706916 5:+80694061 MsaT029731.1:CDS
ACGGGCCGAATAGAAGACCA+TGG 0.711737 5:-80693296 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 80689282 80694136 80689282 ID=MsaG029731
Chr5 mRNA 80689282 80694136 80689282 ID=MsaT029731.1;Parent=MsaG029731
Chr5 exon 80689282 80689398 80689282 ID=MsaT029731.1.exon1;Parent=MsaT029731.1
Chr5 CDS 80689282 80689398 80689282 ID=cds.MsaT029731.1;Parent=MsaT029731.1
Chr5 exon 80692979 80694136 80692979 ID=MsaT029731.1.exon2;Parent=MsaT029731.1
Chr5 CDS 80692979 80694136 80692979 ID=cds.MsaT029731.1;Parent=MsaT029731.1
Gene Sequence

>MsaT029731.1

ATGAATGAAGTATGGCTTGAACCTGTTGTTGAAGCATTGGCTACTCAAGTTGCCATTGATGCTTCTCATTATCATGGTCGTCTTGCTGCTGCTTCTGCTCTTGCCATTATTTTTCAGGTTTGTTCAACATGGAGAGAAGTGTCACGTTCGGATCTACTGTGGCAGAGGCTCACGAGACGCATCTGGCGCAGAACATATAGATTGAGGGACACGTGGCAGTTAGAATACATCTACTGGCATCGAACGGCCAGGAACTTTACCACCGGGAGACATGCTTTAGTGGTCCCACAATATGATCCAGGAGATCACCACCAAAACCTCATCTGCCGCTGCCTCACTCTCTCCGACACCCACCTCGCCTGCGGCTTCGTCGACGGCAGTGTCCGACTCTTCGATCTCCACACCGGTGCACATGTTAGCACATTTTGGTCCAACCATGGTCTTCTATTCGGCCCGTTTTCACAATCCGTTTCGGGAATTGTAATTGGAAGCTCTACCCTCGCCTTCGCGAGATTAGATGGAGATGTCTACATTGCTATTATTAATGGGCCTGGACCAATACCCGGGCCCATTCCTGCACGACGGGCAATTAATGGTGATGTTGTCAATAACGGAGTATTAGTAGAATTTGCCGGCTCTAGTCGTTGGTGGGTTGGTTTATATGCTGGCCATGCGGGCGGGGCTTTTCAAATATGGGACGCGCACACGGAACAGCGCGTGTTTGTTGGCGGTTCATTAACCGATCCGGAAACGGTTCAAGGATGGCATATGTTAACCGAATTAGTTGAACCGGTCGGTCGAGTCCGAGTCACCGAAAGAGAATATGTAGTAGCTTGCACAAGTACAAGATTGGTTTGTTTCAACTTAAGAAACCCAGAGGTTCTATTACGTGATGTAGTGTCCATAACAGGATTCATTGTAGGATCATTGGATGTTAGCCATGAGGTTTTTGTTGTGGTGGAAAGAAGTGGTGTTGGAACTGTTCGGCGCGTGAATAATTTCGAGCGCGTGAGTAGGTTTAGATTAAGGGCTTCATGGTTAAGAGGTTTATTAGGGTGCATGAATTTAGGGTATGTTATAACATATTCTGGTGGGTCTGGTTTGTTGAGAGTGTGGGACATACATGAACCTGCGGCGCGATTGTGTATCACGCTCCCAGTTAGAGATGATGGAGAAGGACAAGTACATGGCAATAGCATGGTTGCTAATCAAACTCACGTGGCTATCTCATTTAATGACTCTTCTATACATTTATTGGATTTTAGTGTACAGTAA

Protein sequence

>MsaT029731.1

MNEVWLEPVVEALATQVAIDASHYHGRLAAASALAIIFQVCSTWREVSRSDLLWQRLTRRIWRRTYRLRDTWQLEYIYWHRTARNFTTGRHALVVPQYDPGDHHQNLICRCLTLSDTHLACGFVDGSVRLFDLHTGAHVSTFWSNHGLLFGPFSQSVSGIVIGSSTLAFARLDGDVYIAIINGPGPIPGPIPARRAINGDVVNNGVLVEFAGSSRWWVGLYAGHAGGAFQIWDAHTEQRVFVGGSLTDPETVQGWHMLTELVEPVGRVRVTEREYVVACTSTRLVCFNLRNPEVLLRDVVSITGFIVGSLDVSHEVFVVVERSGVGTVRRVNNFERVSRFRLRASWLRGLLGCMNLGYVITYSGGSGLLRVWDIHEPAARLCITLPVRDDGEGQVHGNSMVANQTHVAISFNDSSIHLLDFSVQ*