AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029220


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029220 MtrunA17_Chr5g0441921 95.714 350 7 4 140 489 1 342 0.0 682
MsaG029220 MtrunA17_Chr3g0082511 42.813 327 144 11 154 473 39 329 2.82e-67 219
MsaG029220 MtrunA17_Chr8g0353111 38.272 324 159 10 139 445 8 307 3.50e-61 203
MsaG029220 MtrunA17_Chr8g0372461 45.745 188 70 5 239 423 94 252 5.74e-43 155
MsaG029220 MtrunA17_Chr5g0404781 51.829 164 70 4 262 421 93 251 3.51e-40 147
MsaG029220 MtrunA17_Chr1g0155791 44.444 162 83 3 269 430 122 276 1.65e-37 140
MsaG029220 MtrunA17_Chr3g0142171 41.899 179 86 4 265 441 82 244 6.91e-34 129
MsaG029220 MtrunA17_Chr4g0035591 39.216 153 61 3 269 421 20 140 1.59e-28 112
MsaG029220 MtrunA17_Chr0c01g0489181 62.857 35 13 0 269 303 67 101 2.08e-13 66.6
MsaG029220 MtrunA17_Chr2g0281741 62.857 35 13 0 269 303 150 184 4.19e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029220 AT5G12330.4 47.806 433 151 18 68 468 6 395 8.36e-95 293
MsaG029220 AT5G12330.1 48.235 340 123 12 142 468 9 308 4.17e-79 249
MsaG029220 AT5G12330.2 48.235 340 123 12 142 468 9 308 4.17e-79 249
MsaG029220 AT5G66350.3 50.000 158 65 3 269 425 120 264 1.59e-43 157
MsaG029220 AT5G66350.1 50.000 158 65 3 269 425 120 264 1.78e-43 157
MsaG029220 AT5G66350.2 50.000 158 65 3 269 425 120 264 2.30e-43 156
MsaG029220 AT1G75520.1 44.737 190 80 7 250 426 110 287 3.78e-42 153
MsaG029220 AT3G51060.1 40.948 232 98 7 202 419 76 282 9.31e-41 150
MsaG029220 AT1G19790.2 37.786 262 106 8 211 421 14 269 1.01e-40 149
MsaG029220 AT1G19790.1 37.786 262 106 8 211 421 14 269 1.01e-40 149
MsaG029220 AT4G36260.1 41.423 239 103 6 193 423 37 246 2.56e-40 148
MsaG029220 AT2G18120.2 41.989 181 83 2 247 427 50 208 7.19e-38 138
MsaG029220 AT2G18120.1 41.989 181 85 2 247 427 50 210 1.78e-37 137
MsaG029220 AT3G54430.1 42.353 170 73 3 265 433 37 182 1.03e-36 134
MsaG029220 AT2G21400.2 40.881 159 71 2 269 427 10 145 3.29e-34 127
MsaG029220 AT2G21400.4 40.994 161 68 3 269 427 9 144 4.01e-34 127
MsaG029220 AT2G21400.3 40.000 160 56 2 269 427 10 130 5.22e-33 124
MsaG029220 AT2G21400.1 40.000 160 56 2 269 427 9 129 5.62e-33 124
MsaG029220 AT5G12330.3 44.068 236 92 9 142 367 9 214 4.53e-32 122
MsaG029220 AT5G33210.2 72.222 54 15 0 267 320 15 68 5.38e-21 88.2
MsaG029220 AT5G33210.1 72.222 54 15 0 267 320 50 103 1.33e-20 89.4

Find 127 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATACAAGTCCAACAAATT+TGG 0.195666 5:-74591672 MsaT029220.1:CDS
TACTACTACTACTGTCAATT+TGG 0.208653 5:+74592487 None:intergenic
CATGGTACTGGTGGGTTAAC+TGG 0.215140 5:-74591647 MsaT029220.1:CDS
TCATCTAGGTCCATTAATTA+TGG 0.227585 5:-74592007 MsaT029220.1:CDS
AACCTTTCTGAACTTCATTT+AGG 0.241697 5:-74590520 MsaT029220.1:CDS
AGGAGATTGCCTTCAGATTC+AGG 0.251476 5:-74592172 MsaT029220.1:CDS
GGTGGAAGCTCCGGCGTTTC+CGG 0.252237 5:+74592054 None:intergenic
GGTTCTAGTGGTTCAACTTC+TGG 0.271027 5:-74591416 MsaT029220.1:CDS
CCGCCACCGCTCTCGGTGTC+GGG 0.292941 5:-74591877 MsaT029220.1:CDS
TTACTTGGAGGTTCAGCTTA+TGG 0.298507 5:-74590376 MsaT029220.1:CDS
ACCAACAAGGAATTCAGTTT+TGG 0.307252 5:-74591790 MsaT029220.1:CDS
TACTACAATCTTTCTTTGCT+TGG 0.312295 5:+74591573 None:intergenic
TGATCATGGTGTTGAGAATA+GGG 0.324275 5:-74590554 MsaT029220.1:CDS
CATCTCAGGTCCATAATTAA+TGG 0.328906 5:+74591997 None:intergenic
AAACCGAGTGAAAGATCTTC+TGG 0.334650 5:+74592094 None:intergenic
AGCTCCGGCGTTTCCGGCGG+TGG 0.340870 5:+74592060 None:intergenic
ACTGGTGGGTTAACTGGTTC+TGG 0.343369 5:-74591641 MsaT029220.1:CDS
GCTTCTGCTGCTGTTGCTGT+TGG 0.363663 5:+74592449 None:intergenic
GCCAAAACTGAATTCCTTGT+TGG 0.364262 5:+74591789 None:intergenic
AGTGGTGGTGGAGGGTTACT+TGG 0.368806 5:-74590391 MsaT029220.1:CDS
ATGATCATGGTGTTGAGAAT+AGG 0.379627 5:-74590555 MsaT029220.1:CDS
CTACTCATGTTAAGAGTACT+TGG 0.387799 5:-74591505 MsaT029220.1:CDS
AGAAAGATTGTAGTAATAGA+AGG 0.391384 5:-74591565 MsaT029220.1:CDS
CATTTAGGTGGTGGTGGTGG+TGG 0.391759 5:-74590505 MsaT029220.1:CDS
AGTCCAACAAATTTGGTTCA+TGG 0.393800 5:-74591665 MsaT029220.1:CDS
TGAGAATTAACAAACCTTGA+TGG 0.401434 5:+74591300 None:intergenic
GCGACAACGACGGTGGTTGC+TGG 0.403885 5:-74591443 MsaT029220.1:CDS
CCCGACACCGAGAGCGGTGG+CGG 0.404701 5:+74591877 None:intergenic
GAGGTAGTATCAAAGCTTCT+AGG 0.414831 5:+74591326 None:intergenic
CTTAACCCCGCCACCGCTCT+CGG 0.417771 5:-74591884 MsaT029220.1:CDS
GTACCATGAACCAAATTTGT+TGG 0.418091 5:+74591662 None:intergenic
CCCGCCACCGCTCTCGGTGT+CGG 0.421375 5:-74591878 MsaT029220.1:CDS
CTTTCACTCGGTTTCAATGC+GGG 0.422098 5:-74592085 MsaT029220.1:CDS
ACAAATTTGGTTCATGGTAC+TGG 0.423871 5:-74591659 MsaT029220.1:CDS
GGTGGTGGTGGTAATAATAA+TGG 0.432992 5:-74590490 MsaT029220.1:CDS
GGTGGGTCCGGTGGAAGCTC+CGG 0.434590 5:+74592045 None:intergenic
TTCAATGCGGGTCCCACCGC+CGG 0.436323 5:-74592073 MsaT029220.1:CDS
GCAGCTTCAAGTGGTGGTGG+AGG 0.442810 5:-74590400 MsaT029220.1:CDS
AATGGCGGTGCTAATAGAAA+TGG 0.444064 5:-74590472 MsaT029220.1:CDS
GATTGTTATGGTGGTGGTGG+TGG 0.451027 5:+74591939 None:intergenic
ATATAATCCGGTGGTGGGTC+CGG 0.460177 5:+74592033 None:intergenic
TCTGAACTTCATTTAGGTGG+TGG 0.463166 5:-74590514 MsaT029220.1:CDS
CTTCATTTAGGTGGTGGTGG+TGG 0.465476 5:-74590508 MsaT029220.1:CDS
CATTAATTATGGACCTGAGA+TGG 0.472294 5:-74591996 MsaT029220.1:CDS
GGTGGTGGAGGGTTACTTGG+AGG 0.474597 5:-74590388 MsaT029220.1:CDS
GATACTACCTCTAGCCATCA+AGG 0.481688 5:-74591314 MsaT029220.1:intron
CCGGATTATATAATTCATCT+AGG 0.484439 5:-74592021 MsaT029220.1:CDS
GTTTGTGAAGCAATAAGTCT+AGG 0.489243 5:+74591383 None:intergenic
GTCTTCTTCATCACCAATGA+TGG 0.489923 5:-74590446 MsaT029220.1:CDS
GGGTACCTGCTGCTAGAAGA+AGG 0.496203 5:-74591484 MsaT029220.1:CDS
GGTTTCAAAGATTCTATGCC+GGG 0.497066 5:-74590700 MsaT029220.1:CDS
CAAGTACTCTTAACATGAGT+AGG 0.499272 5:+74591506 None:intergenic
TCATGAGAAGGATCCATCAT+TGG 0.499688 5:+74590433 None:intergenic
GAGCTGCTTCATGATTGTTA+TGG 0.501220 5:+74591927 None:intergenic
AAATGAAGTTCAGAAAGGTT+AGG 0.504881 5:+74590523 None:intergenic
GTTGCTGGTGGTGGTTCTAG+TGG 0.506006 5:-74591428 MsaT029220.1:CDS
GAACTTCATTTAGGTGGTGG+TGG 0.506112 5:-74590511 MsaT029220.1:CDS
CGTTCCCTTCTTCTAGCAGC+AGG 0.506124 5:+74591479 None:intergenic
CTTCATGATTGTTATGGTGG+TGG 0.507878 5:+74591933 None:intergenic
CCGACACCGAGAGCGGTGGC+GGG 0.513284 5:+74591878 None:intergenic
CCTAGATGAATTATATAATC+CGG 0.516389 5:+74592021 None:intergenic
CATGATTGTTATGGTGGTGG+TGG 0.519577 5:+74591936 None:intergenic
ATTGTAGTAATAGAAGGTGT+AGG 0.521083 5:-74591559 MsaT029220.1:CDS
ACTGGTTCTGGTAGCAGTAG+TGG 0.522635 5:-74591629 MsaT029220.1:CDS
GGTCCCACCGCCGGAAACGC+CGG 0.524097 5:-74592064 MsaT029220.1:CDS
GCTCCGGCGTTTCCGGCGGT+GGG 0.525360 5:+74592061 None:intergenic
ACGACGGTGGTTGCTGGTGG+TGG 0.527037 5:-74591437 MsaT029220.1:CDS
TGAATTATATAATCCGGTGG+TGG 0.528238 5:+74592027 None:intergenic
TTCTGGAGCAGCAGCACGAA+GGG 0.528350 5:+74592111 None:intergenic
ATTAATTATGGACCTGAGAT+GGG 0.532955 5:-74591995 MsaT029220.1:CDS
CTTTCTGAACTTCATTTAGG+TGG 0.534449 5:-74590517 MsaT029220.1:CDS
CATGGAGAAGCTGTGAGTAA+AGG 0.534475 5:+74591848 None:intergenic
GCAGCAGCTTCAAGTGGTGG+TGG 0.540984 5:-74590403 MsaT029220.1:CDS
GCTTCCACCGGACCCACCAC+CGG 0.548718 5:-74592040 MsaT029220.1:CDS
AGGTTTCAAAGATTCTATGC+CGG 0.555014 5:-74590701 MsaT029220.1:CDS
AATTTGGTTCATGGTACTGG+TGG 0.555469 5:-74591656 MsaT029220.1:CDS
ACAACAAACATACCCATCTC+AGG 0.556410 5:+74591983 None:intergenic
ACAACAACGTGTCAAGATTG+TGG 0.558898 5:-74591599 MsaT029220.1:CDS
CACCTAAATGAAGTTCAGAA+AGG 0.561618 5:+74590518 None:intergenic
CTGCTTCATGATTGTTATGG+TGG 0.564872 5:+74591930 None:intergenic
GCTCCAGAAGATCTTTCACT+CGG 0.567750 5:-74592097 MsaT029220.1:CDS
GAATTATATAATCCGGTGGT+GGG 0.570532 5:+74592028 None:intergenic
CGCCACCGCTCTCGGTGTCG+GGG 0.570886 5:-74591876 MsaT029220.1:CDS
AGCAACCACCGTCGTTGTCG+CGG 0.571590 5:+74591445 None:intergenic
TCTGGTAGCAGTAGTGGTGG+AGG 0.573944 5:-74591623 MsaT029220.1:CDS
AGGACTTGTTGTAAAAGTAG+AGG 0.575268 5:-74591539 MsaT029220.1:CDS
TGCTGTTGGAGCTGTAATTG+TGG 0.576451 5:+74592463 None:intergenic
TATCAAGCTGTAGTGAAGAT+TGG 0.579339 5:-74590604 MsaT029220.1:CDS
ATATAGTTGTGGCTACTACA+AGG 0.581940 5:-74592192 MsaT029220.1:intron
TTCTTCGACCGCGACAACGA+CGG 0.583043 5:-74591453 MsaT029220.1:CDS
GGAAACGCCGGAGCTTCCAC+CGG 0.586967 5:-74592052 MsaT029220.1:CDS
TAATCCGGTGGTGGGTCCGG+TGG 0.587770 5:+74592036 None:intergenic
GCCGGGTCAAGTACGTGCAC+CGG 0.588438 5:-74590683 MsaT029220.1:CDS
AAAGAAAACCTTTGAAAACA+TGG 0.590040 5:+74590578 None:intergenic
CTAACACACTTGAATAGAGC+CGG 0.591611 5:+74590664 None:intergenic
CGACACCGAGAGCGGTGGCG+GGG 0.592680 5:+74591879 None:intergenic
ATTTGGTTCATGGTACTGGT+GGG 0.594801 5:-74591655 MsaT029220.1:CDS
GGAAGCTCCGGCGTTTCCGG+CGG 0.598478 5:+74592057 None:intergenic
AGTATCAAAGCTTCTAGGAG+GGG 0.599007 5:+74591331 None:intergenic
AAGTACTCTTAACATGAGTA+GGG 0.604249 5:+74591507 None:intergenic
CAAGCTGTAGTGAAGATTGG+TGG 0.605202 5:-74590601 MsaT029220.1:CDS
CAGCTTCAAGTGGTGGTGGA+GGG 0.610373 5:-74590399 MsaT029220.1:CDS
GCCGGTGCACGTACTTGACC+CGG 0.610717 5:+74590682 None:intergenic
TATGCAGCAGCTTCAAGTGG+TGG 0.610824 5:-74590406 MsaT029220.1:CDS
GTAGTATCAAAGCTTCTAGG+AGG 0.611169 5:+74591329 None:intergenic
TGATGAGAGAAGAAAATGGT+CGG 0.611312 5:-74592673 None:intergenic
GCAAAAGCTCCTGAATCTGA+AGG 0.612169 5:+74592163 None:intergenic
TAGTATCAAAGCTTCTAGGA+GGG 0.613507 5:+74591330 None:intergenic
AGAGTGACATCAGTGGATGA+TGG 0.614276 5:-74590643 MsaT029220.1:CDS
GGTTCTGGTAGCAGTAGTGG+TGG 0.615782 5:-74591626 MsaT029220.1:CDS
GGTACCTGCTGCTAGAAGAA+GGG 0.616105 5:-74591483 MsaT029220.1:CDS
TAACAAACCTTGATGGCTAG+AGG 0.619709 5:+74591307 None:intergenic
TTCGACCGCGACAACGACGG+TGG 0.620852 5:-74591450 MsaT029220.1:CDS
CTTCTGGAGCAGCAGCACGA+AGG 0.625376 5:+74592110 None:intergenic
TGGTGGTGATGAAAAGAAGA+TGG 0.632371 5:+74591956 None:intergenic
TACTCATGTTAAGAGTACTT+GGG 0.637418 5:-74591504 MsaT029220.1:CDS
GCTGCATAAACATCATGAGA+AGG 0.637740 5:+74590421 None:intergenic
AACCCCGACACCGAGAGCGG+TGG 0.656167 5:+74591874 None:intergenic
GTGGCGGGGTTAAGAGAGTG+AGG 0.668996 5:+74591893 None:intergenic
ACAACGACGGTGGTTGCTGG+TGG 0.669044 5:-74591440 MsaT029220.1:CDS
TCTTTCACTCGGTTTCAATG+CGG 0.669874 5:-74592086 MsaT029220.1:CDS
GTTTATGCAGCAGCTTCAAG+TGG 0.670690 5:-74590409 MsaT029220.1:CDS
AGATGAATTATATAATCCGG+TGG 0.675126 5:+74592024 None:intergenic
TATAACCCCGACACCGAGAG+CGG 0.681070 5:+74591871 None:intergenic
GGTGGTGGTAATAATAATGG+CGG 0.700948 5:-74590487 MsaT029220.1:CDS
GTGTGTTAGAGTGACATCAG+TGG 0.704487 5:-74590650 MsaT029220.1:CDS
AACAATAGAAGAAACCAACA+AGG 0.735803 5:-74591803 MsaT029220.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 74590360 74592680 74590360 ID=MsaG029220
Chr5 mRNA 74590360 74592680 74590360 ID=MsaT029220.1;Parent=MsaG029220
Chr5 exon 74590360 74590727 74590360 ID=MsaT029220.1.exon4;Parent=MsaT029220.1
Chr5 CDS 74590360 74590727 74590360 ID=cds.MsaT029220.1;Parent=MsaT029220.1
Chr5 exon 74591315 74592208 74591315 ID=MsaT029220.1.exon3;Parent=MsaT029220.1
Chr5 CDS 74591315 74592208 74591315 ID=cds.MsaT029220.1;Parent=MsaT029220.1
Chr5 exon 74592393 74592518 74592393 ID=MsaT029220.1.exon2;Parent=MsaT029220.1
Chr5 CDS 74592393 74592518 74592393 ID=cds.MsaT029220.1;Parent=MsaT029220.1
Chr5 exon 74592599 74592680 74592599 ID=MsaT029220.1.exon1;Parent=MsaT029220.1
Chr5 CDS 74592599 74592680 74592599 ID=cds.MsaT029220.1;Parent=MsaT029220.1
Gene Sequence

>MsaT029220.1

ATGGTCGGCAACAACAATAGAAAAATAGAAATAGAAAAGGTCGTTATTGAATTTTCTCATTCATTCACTGCTATTGCTCACTTCGAAAAAGCCAAATTGACAGTAGTAGTAGTAGCCACAATTACAGCTCCAACAGCAACAGCAGCAGAAGCTGAAACTACCAGAAAATCATCAGAAAACAACAATAGCAGAATCATCAGATTAACTTTTGTGGCTACTACAAGGAGATTGCCTTCAGATTCAGGAGCTTTTGCTGATTGGGCAGCAACTAATTCATCAACAACCCTTCGTGCTGCTGCTCCAGAAGATCTTTCACTCGGTTTCAATGCGGGTCCCACCGCCGGAAACGCCGGAGCTTCCACCGGACCCACCACCGGATTATATAATTCATCTAGGTCCATTAATTATGGACCTGAGATGGGTATGTTTGTTGTAGCACCATCTTCTTTTCATCACCACCACCACCACCATAACAATCATGAAGCAGCTCTTATGTCTGATCCTCACTCTCTTAACCCCGCCACCGCTCTCGGTGTCGGGGTTATACCTTTACTCACAGCTTCTCCATGTCTTGAAAATGAAAACATGTTAAACAATAGAAGAAACCAACAAGGAATTCAGTTTTGGCATGAACAACATCATCATCATCAACAGCAACAACAACAACAACAAAGTCCACATTCACACTATTTGAAAAAACAACAAGGTTTTCTTGATCATCATAATACAAGTCCAACAAATTTGGTTCATGGTACTGGTGGGTTAACTGGTTCTGGTAGCAGTAGTGGTGGAGGAACAACAACGTGTCAAGATTGTGGAAACCAAGCAAAGAAAGATTGTAGTAATAGAAGGTGTAGGACTTGTTGTAAAAGTAGAGGTTTTGATTGCCCTACTCATGTTAAGAGTACTTGGGTACCTGCTGCTAGAAGAAGGGAACGTCTTTCTTCGACCGCGACAACGACGGTGGTTGCTGGTGGTGGTTCTAGTGGTTCAACTTCTGGTGCTAAGAAACCTAGACTTATTGCTTCACAAACTACTTCTCATACTTCTACTTCTAATACTACCCCTCCTAGAAGCTTTGATACTACCTCTAGCCATCAAGATGCAGGTTTCAAAGATTCTATGCCGGGTCAAGTACGTGCACCGGCTCTATTCAAGTGTGTTAGAGTGACATCAGTGGATGATGGAAAAGATGAGTATGCATATCAAGCTGTAGTGAAGATTGGTGGCCATGTTTTCAAAGGTTTTCTTTATGATCATGGTGTTGAGAATAGGGAAGTTTATCCTAACCTTTCTGAACTTCATTTAGGTGGTGGTGGTGGTGGTGGTAATAATAATGGCGGTGCTAATAGAAATGGAGTGTCTTCTTCATCACCAATGATGGATCCTTCTCATGATGTTTATGCAGCAGCTTCAAGTGGTGGTGGAGGGTTACTTGGAGGTTCAGCTTATGGTAATCAAATAAATTGA

Protein sequence

>MsaT029220.1

MVGNNNRKIEIEKVVIEFSHSFTAIAHFEKAKLTVVVVATITAPTATAAEAETTRKSSENNNSRIIRLTFVATTRRLPSDSGAFADWAATNSSTTLRAAAPEDLSLGFNAGPTAGNAGASTGPTTGLYNSSRSINYGPEMGMFVVAPSSFHHHHHHHNNHEAALMSDPHSLNPATALGVGVIPLLTASPCLENENMLNNRRNQQGIQFWHEQHHHHQQQQQQQQSPHSHYLKKQQGFLDHHNTSPTNLVHGTGGLTGSGSSSGGGTTTCQDCGNQAKKDCSNRRCRTCCKSRGFDCPTHVKSTWVPAARRRERLSSTATTTVVAGGGSSGSTSGAKKPRLIASQTTSHTSTSNTTPPRSFDTTSSHQDAGFKDSMPGQVRAPALFKCVRVTSVDDGKDEYAYQAVVKIGGHVFKGFLYDHGVENREVYPNLSELHLGGGGGGGNNNGGANRNGVSSSSPMMDPSHDVYAAASSGGGGLLGGSAYGNQIN*