AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038890

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038890 MtrunA17_Chr7g0251781 96.923 390 12 0 1 390 1 390 0.0 789
MsaG038890 MtrunA17_Chr7g0268691 46.715 137 55 4 4 129 19 148 2.73e-30 119
MsaG038890 MtrunA17_Chr7g0268691 55.556 63 26 1 322 382 307 369 8.08e-14 72.4
MsaG038890 MtrunA17_Chr5g0429341 41.818 110 58 2 1 110 1 104 8.01e-23 99.4
MsaG038890 MtrunA17_Chr3g0120711 38.849 139 77 3 1 138 1 132 9.98e-23 99.0
MsaG038890 MtrunA17_Chr3g0120711 56.061 66 29 0 318 383 331 396 1.40e-14 74.7
MsaG038890 MtrunA17_Chr2g0322941 42.308 104 52 1 5 108 44 139 1.76e-20 89.7
MsaG038890 MtrunA17_Chr1g0209071 33.333 117 69 2 1 117 1 108 8.35e-17 80.9
MsaG038890 MtrunA17_Chr1g0150471 37.113 97 55 1 5 95 6 102 1.14e-14 74.3
MsaG038890 MtrunA17_Chr2g0322951 73.333 45 12 0 341 385 92 136 2.57e-14 69.7
MsaG038890 MtrunA17_Chr3g0136701 35.644 101 59 1 5 99 6 106 4.04e-14 72.4
MsaG038890 MtrunA17_Chr4g0072871 37.634 93 52 2 5 97 22 108 3.76e-12 67.4
MsaG038890 MtrunA17_Chr4g0072871 36.559 93 54 1 293 385 255 342 1.20e-11 65.9
MsaG038890 MtrunA17_Chr7g0220721 32.990 97 59 2 5 101 26 116 4.79e-11 63.9
MsaG038890 MtrunA17_Chr7g0220721 68.293 41 13 0 345 385 331 371 7.06e-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
MsaG038890 AT2G33500.2 34.752 423 200 11 5 385 12 400 5.44e-63 207
MsaG038890 AT2G33500.1 35.817 416 206 11 5 385 12 401 5.89e-63 207
MsaG038890 AT1G28050.1 52.632 114 48 1 4 117 8 115 3.20e-36 137
MsaG038890 AT1G28050.1 39.785 186 87 6 215 385 254 429 5.82e-22 97.4
MsaG038890 AT2G47890.3 46.721 122 57 2 5 126 13 126 7.12e-28 112
MsaG038890 AT2G47890.2 46.721 122 57 2 5 126 13 126 7.93e-28 110
MsaG038890 AT2G47890.1 46.721 122 57 2 5 126 13 126 7.96e-28 112
MsaG038890 AT2G47890.1 62.745 51 19 0 335 385 281 331 1.92e-13 71.2
MsaG038890 AT5G48250.1 40.496 121 68 1 1 121 1 117 8.32e-25 104
MsaG038890 AT5G48250.1 61.224 49 19 0 337 385 312 360 7.91e-13 69.7
MsaG038890 AT1G68190.1 35.135 148 86 3 5 150 14 153 2.89e-21 94.4
MsaG038890 AT1G68190.3 35.135 148 86 3 5 150 14 153 2.89e-21 94.4
MsaG038890 AT1G68190.2 35.135 148 86 3 5 150 43 182 2.92e-21 94.7
MsaG038890 AT3G07650.3 39.669 121 68 2 1 116 1 121 5.20e-21 94.0
MsaG038890 AT3G07650.3 65.306 49 17 0 337 385 311 359 3.06e-14 73.9
MsaG038890 AT3G07650.2 39.669 121 68 2 1 116 1 121 5.20e-21 94.0
MsaG038890 AT3G07650.2 65.306 49 17 0 337 385 311 359 3.06e-14 73.9
MsaG038890 AT3G07650.4 39.669 121 68 2 1 116 1 121 5.20e-21 94.0
MsaG038890 AT3G07650.4 65.306 49 17 0 337 385 311 359 3.06e-14 73.9
MsaG038890 AT3G07650.1 39.669 121 68 2 1 116 1 121 5.20e-21 94.0
MsaG038890 AT3G07650.1 65.306 49 17 0 337 385 311 359 3.06e-14 73.9
MsaG038890 AT3G21880.3 36.000 125 72 1 5 129 9 125 1.35e-19 89.7
MsaG038890 AT3G21880.3 75.556 45 11 0 341 385 311 355 2.48e-13 71.2
MsaG038890 AT3G21880.2 36.000 125 72 1 5 129 9 125 1.35e-19 89.7
MsaG038890 AT3G21880.2 75.556 45 11 0 341 385 311 355 2.48e-13 71.2
MsaG038890 AT3G21880.1 36.000 125 72 1 5 129 5 121 1.39e-19 89.7
MsaG038890 AT3G21880.1 75.556 45 11 0 341 385 307 351 2.66e-13 71.2
MsaG038890 AT4G15250.1 33.858 127 76 1 1 127 1 119 4.50e-18 84.7
MsaG038890 AT5G24930.1 44.444 72 40 0 5 76 6 77 2.49e-14 74.3
MsaG038890 AT5G15840.1 35.714 98 57 2 4 101 19 110 9.15e-13 69.3
MsaG038890 AT5G15840.2 38.158 76 47 0 4 79 19 94 3.00e-12 67.0
MsaG038890 AT3G02380.1 37.333 75 47 0 5 79 16 90 9.96e-12 66.2
MsaG038890 AT5G15850.1 38.667 75 46 0 5 79 12 86 1.47e-11 65.9
MsaG038890 AT2G24790.1 38.272 81 47 1 5 85 8 85 4.60e-11 63.5
MsaG038890 AT2G24790.2 38.272 81 47 1 5 85 8 85 7.58e-11 62.0

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACACATCTTGCAATGATTT+TGG 0.117879 7:+82026432 None:intergenic
TGCGAAGAGGAAGAGGAATT+TGG 0.187240 7:-82028216 MsaT038890.1:CDS
TGTTATGGATTCAATCAATT+TGG 0.190330 7:+82024297 None:intergenic
ATGAATCTGGTCTTCTTCTT+TGG 0.202244 7:-82028046 MsaT038890.1:CDS
AAGAGAAATAGTAATGATTA+TGG 0.284505 7:-82028071 MsaT038890.1:CDS
TGAATCTGGTCTTCTTCTTT+GGG 0.293542 7:-82028045 MsaT038890.1:CDS
CACAAGATCGTTTCTACTTT+GGG 0.307613 7:-82028344 MsaT038890.1:CDS
ATTTGAAGGTCCGGTGGTTC+CGG 0.352451 7:-82028282 MsaT038890.1:CDS
CTCAAAAGATGTTCCATAAC+TGG 0.354580 7:+82024253 None:intergenic
TTCAAATTCCGCTACGAAAA+CGG 0.368362 7:+82028298 None:intergenic
CTTCTATACGGCGGCGGTTG+TGG 0.371891 7:+82028390 None:intergenic
GCAAAATTTGCAGAATCAAT+CGG 0.389145 7:-82024395 MsaT038890.1:intron
GTGCTCTTCCAAGCCAATCT+TGG 0.393330 7:+82024201 None:intergenic
TCACAAGATCGTTTCTACTT+TGG 0.397214 7:-82028345 MsaT038890.1:CDS
CGCCGACAGTGTACCAGTTA+TGG 0.397943 7:-82024266 MsaT038890.1:CDS
AAACAGAGTTTCGCGGAGTC+TGG 0.399009 7:+82028605 None:intergenic
AATGATTATGGAAATGAATC+TGG 0.399310 7:-82028059 MsaT038890.1:CDS
AATATGAATTGCTCAACATT+TGG 0.400714 7:-82026408 MsaT038890.1:CDS
AGCAACATAAATGCCAAGAT+TGG 0.407616 7:-82024214 MsaT038890.1:CDS
AGTGAGAGGGCGATTTGTTA+AGG 0.417847 7:-82023851 MsaT038890.1:CDS
TACGGCGGCGGTTGTGGTGG+TGG 0.418409 7:+82028396 None:intergenic
CTTGTGAACGGAAGGACAAC+CGG 0.422988 7:+82028361 None:intergenic
TGGTTCCGGTTGTGAAGAAT+AGG 0.424178 7:-82028268 MsaT038890.1:CDS
CACAACCGCCGCCGTATAGA+AGG 0.439408 7:-82028389 MsaT038890.1:CDS
GCTACGAAAACGGAGTCATT+CGG 0.440696 7:+82028308 None:intergenic
TAGGGATGAGGTGTATGAAC+AGG 0.447620 7:-82028249 MsaT038890.1:CDS
GTCGGCGCCACTGTATGTTA+TGG 0.448248 7:+82024282 None:intergenic
TTCAATGTCACCGCTGCGAT+TGG 0.452188 7:-82028463 MsaT038890.1:CDS
CGTAGCGGAATTTGAAGGTC+CGG 0.462252 7:-82028291 MsaT038890.1:CDS
TGGAAGTTGCGAAGAGGAAG+AGG 0.466657 7:-82028223 MsaT038890.1:CDS
AACCGGTGAGACCTTCTATA+CGG 0.471948 7:+82028378 None:intergenic
CTTGAGTGCGAGTGCGTTTG+CGG 0.474133 7:+82028559 None:intergenic
TCATCCCTATTCTTCACAAC+CGG 0.475665 7:+82028263 None:intergenic
GAAGAGCACACAAGGAATAG+AGG 0.476262 7:-82024187 MsaT038890.1:CDS
ACCTGGGGAGGCTGATACGT+GGG 0.477722 7:+82028014 None:intergenic
CGCAGCGGTGACATTGAACT+AGG 0.479363 7:+82028468 None:intergenic
CTTCTCCTTGTACCGTAACA+TGG 0.495549 7:+82024159 None:intergenic
GGATGCCATGTTACGGTACA+AGG 0.500503 7:-82024164 MsaT038890.1:CDS
AAATTAAGCAAAGAAGTAAA+CGG 0.500811 7:+82028119 None:intergenic
TTCTTCACAACCGGAACCAC+CGG 0.501470 7:+82028272 None:intergenic
TGAGGTGTATGAACAGGTGG+TGG 0.504109 7:-82028243 MsaT038890.1:CDS
AGCAACAAGAAAACTAGAGA+TGG 0.509293 7:-82024334 MsaT038890.1:CDS
TCAAGAGATATGACATATGA+TGG 0.511657 7:-82026480 MsaT038890.1:CDS
AGCACATTCGCTATGAATCA+AGG 0.520514 7:-82023900 MsaT038890.1:CDS
GAAGAGGAAGAGGAATTTGG+AGG 0.524479 7:-82028213 MsaT038890.1:CDS
TTTCTACTTTCTTCTTCACA+TGG 0.524678 7:+82024356 None:intergenic
GGTTCCGGTTGTGAAGAATA+GGG 0.535707 7:-82028267 MsaT038890.1:CDS
CATAAATGCCAAGATTGGCT+TGG 0.540383 7:-82024209 MsaT038890.1:CDS
CTATACGGCGGCGGTTGTGG+TGG 0.541136 7:+82028393 None:intergenic
GCTATGAATCAAGGAAGGCT+AGG 0.543852 7:-82023891 MsaT038890.1:CDS
ATAGAGGGGATGCCATGTTA+CGG 0.554868 7:-82024171 MsaT038890.1:CDS
GATACGAGAAAGAGAGTGAG+AGG 0.573604 7:-82023865 MsaT038890.1:CDS
CTATGAATCAAGGAAGGCTA+GGG 0.574333 7:-82023890 MsaT038890.1:CDS
AAGAGCACACAAGGAATAGA+GGG 0.577298 7:-82024186 MsaT038890.1:CDS
GCAACAAGAAAACTAGAGAT+GGG 0.580033 7:-82024333 MsaT038890.1:CDS
GCAACTGATGATATTCAAGA+AGG 0.580530 7:-82023829 MsaT038890.1:CDS
CGTTTGCGGAGTGCACGTGC+TGG 0.587965 7:+82028573 None:intergenic
TTGGCTTGGAAGAGCACACA+AGG 0.593037 7:-82024195 MsaT038890.1:CDS
GGATGAGGTGTATGAACAGG+TGG 0.594648 7:-82028246 MsaT038890.1:CDS
TTCCATAACTGGTACACTGT+CGG 0.600741 7:+82024264 None:intergenic
GGTTGTGAAGAATAGGGATG+AGG 0.611431 7:-82028261 MsaT038890.1:CDS
ACAAATTAACAAACCTGGGG+AGG 0.611687 7:+82028002 None:intergenic
TCCCACGTATCAGCCTCCCC+AGG 0.613709 7:-82028015 MsaT038890.1:intron
AGCGGAATTTGAAGGTCCGG+TGG 0.616808 7:-82028288 MsaT038890.1:CDS
AGTAGAAACGATCTTGTGAA+CGG 0.617993 7:+82028349 None:intergenic
GAAACGATCTTGTGAACGGA+AGG 0.619370 7:+82028353 None:intergenic
CGCCGTATAGAAGGTCTCAC+CGG 0.625403 7:-82028380 MsaT038890.1:CDS
CTTGTGTCGCAATAGTCACA+CGG 0.626589 7:+82028650 None:intergenic
TGAGACCTTCTATACGGCGG+CGG 0.629918 7:+82028384 None:intergenic
CGCTGCGATTGGAACTCTCA+CGG 0.637906 7:-82028452 MsaT038890.1:CDS
ATTGAATCCATAACATACAG+TGG 0.640281 7:-82024289 MsaT038890.1:CDS
GCAAACTAAACAGAGTTTCG+CGG 0.640738 7:+82028598 None:intergenic
AACCTGGGGAGGCTGATACG+TGG 0.646766 7:+82028013 None:intergenic
CATTCGCTATGAATCAAGGA+AGG 0.651760 7:-82023896 MsaT038890.1:CDS
AGATATGACATATGATGGTG+TGG 0.652581 7:-82026475 MsaT038890.1:CDS
GGTGAAGCAACGAACTGAAG+CGG 0.659811 7:+82028496 None:intergenic
ATACGAGAAAGAGAGTGAGA+GGG 0.660678 7:-82023864 MsaT038890.1:CDS
AGGTGGTGGAAGTTGCGAAG+AGG 0.669173 7:-82028229 MsaT038890.1:CDS
AGGAGAAGAAGAAAACTCGA+AGG 0.686541 7:-82024144 MsaT038890.1:intron
AGAGCACACAAGGAATAGAG+GGG 0.718530 7:-82024185 MsaT038890.1:CDS
CGGTGAGACCTTCTATACGG+CGG 0.729242 7:+82028381 None:intergenic
CGTGAGAGTTCCAATCGCAG+CGG 0.733388 7:+82028453 None:intergenic
CTATTGCGACACAAGAAACG+CGG 0.741192 7:-82028642 MsaT038890.1:CDS
TGCGATTGGAACTCTCACGG+CGG 0.780073 7:-82028449 MsaT038890.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 82023825 82028681 82023825 ID=MsaG038890
Chr7 mRNA 82023825 82028681 82023825 ID=MsaT038890.1;Parent=MsaG038890
Chr7 exon 82023825 82023930 82023825 ID=MsaT038890.1.exon4;Parent=MsaT038890.1
Chr7 CDS 82023825 82023930 82023825 ID=cds.MsaT038890.1;Parent=MsaT038890.1
Chr7 exon 82024145 82024404 82024145 ID=MsaT038890.1.exon3;Parent=MsaT038890.1
Chr7 CDS 82024145 82024404 82024145 ID=cds.MsaT038890.1;Parent=MsaT038890.1
Chr7 exon 82026386 82026526 82026386 ID=MsaT038890.1.exon2;Parent=MsaT038890.1
Chr7 CDS 82026386 82026526 82026386 ID=cds.MsaT038890.1;Parent=MsaT038890.1
Chr7 exon 82028016 82028681 82028016 ID=MsaT038890.1.exon1;Parent=MsaT038890.1
Chr7 CDS 82028016 82028681 82028016 ID=cds.MsaT038890.1;Parent=MsaT038890.1
Gene Sequence

>MsaT038890.1

ATGTCGTTTCCGTGTGACTATTGCGACACAAGAAACGCGGTGCTATATTGCAAACCAGACTCCGCGAAACTCTGTTTAGTTTGCGACCAGCACGTGCACTCCGCAAACGCACTCGCACTCAAGCACGTGCGTTTCCAAATTTGCCAAAACTGCAAAAACGACGCCGCTTCAGTTCGTTGCTTCACCGAAAACCTAGTTCAATGTCACCGCTGCGATTGGAACTCTCACGGCGGCGACGACGACAACCCCACCTCTTCATTTTTCCACCACCACAACCGCCGCCGTATAGAAGGTCTCACCGGTTGTCCTTCCGTTCACAAGATCGTTTCTACTTTGGGACTTGATTTGAAGCCGAATGACTCCGTTTTCGTAGCGGAATTTGAAGGTCCGGTGGTTCCGGTTGTGAAGAATAGGGATGAGGTGTATGAACAGGTGGTGGAAGTTGCGAAGAGGAAGAGGAATTTGGAGGAAGATGAAAATGAACTGAGATTCAATGATTGTTGTAATGATGTTGATGATTTGTTGTTGCTTCAGCAAACTCCGTTTACTTCTTTGCTTAATTTTTCGTCTGAATTTGATGTTGGTGCTAAGAGAAATAGTAATGATTATGGAAATGAATCTGGTCTTCTTCTTTGGGATCGTAATCCCACGTATCAGCCTCCCCAGGTCTGGGATTTTCAATTACAGAAATCAAGAGATATGACATATGATGGTGTGGAAAATGCTTCCTTATCGATTCCAAAATCATTGCAAGATGTGTACAATATGAATTGCTCAACATTTGGTGATGATATTCTATCAAGAAATAATCAATCGGATCAGTCATCATCAAGCCATGTGAAGAAGAAAGTAGAAAGCAACAAGAAAACTAGAGATGGGTTGTCTTCTGAGTCCAAATTGATTGAATCCATAACATACAGTGGCGCCGACAGTGTACCAGTTATGGAACATCTTTTGAGTGGCAGTGAAAATGTTAGCAACATAAATGCCAAGATTGGCTTGGAAGAGCACACAAGGAATAGAGGGGATGCCATGTTACGGTACAAGGAGAAGAAGAAAACTCGAAGGTTTGACAAGCACATTCGCTATGAATCAAGGAAGGCTAGGGCTGATACGAGAAAGAGAGTGAGAGGGCGATTTGTTAAGGCAACTGATGATATTCAAGAAGGATGA
Protein sequence

>MsaT038890.1

MSFPCDYCDTRNAVLYCKPDSAKLCLVCDQHVHSANALALKHVRFQICQNCKNDAASVRCFTENLVQCHRCDWNSHGGDDDNPTSSFFHHHNRRRIEGLTGCPSVHKIVSTLGLDLKPNDSVFVAEFEGPVVPVVKNRDEVYEQVVEVAKRKRNLEEDENELRFNDCCNDVDDLLLLQQTPFTSLLNFSSEFDVGAKRNSNDYGNESGLLLWDRNPTYQPPQVWDFQLQKSRDMTYDGVENASLSIPKSLQDVYNMNCSTFGDDILSRNNQSDQSSSSHVKKKVESNKKTRDGLSSESKLIESITYSGADSVPVMEHLLSGSENVSNINAKIGLEEHTRNRGDAMLRYKEKKKTRRFDKHIRYESRKARADTRKRVRGRFVKATDDIQEG*