AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007231

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007231 MtrunA17_Chr2g0290511 94.987 379 18 1 1 379 1 378 0.0 652
MsaG007231 MtrunA17_Chr1g0201941 39.228 311 147 8 77 351 238 542 2.97e-54 189
MsaG007231 MtrunA17_Chr1g0201941 40.230 87 51 1 263 349 57 142 5.69e-15 76.6
MsaG007231 MtrunA17_Chr1g0201911 37.692 260 120 6 106 351 229 460 5.32e-44 160
MsaG007231 MtrunA17_Chr1g0201911 41.379 87 50 1 263 349 55 140 9.32e-15 75.9
MsaG007231 MtrunA17_Chr1g0190851 31.153 321 190 7 84 373 210 530 1.44e-35 136
MsaG007231 MtrunA17_Chr6g0463941 60.870 92 36 0 260 351 461 552 1.31e-33 132
MsaG007231 MtrunA17_Chr6g0463941 37.634 93 57 1 263 355 55 146 2.79e-15 77.4
MsaG007231 MtrunA17_Chr7g0273941 31.008 258 136 8 115 350 240 477 5.77e-29 117
MsaG007231 MtrunA17_Chr1g0198171 26.400 250 133 8 92 332 277 484 4.23e-16 79.7
MsaG007231 MtrunA17_Chr1g0198171 33.333 132 83 4 219 349 73 200 9.87e-14 72.4
MsaG007231 MtrunA17_Chr1g0179191 37.755 98 59 2 254 350 122 218 3.37e-14 73.9
MsaG007231 MtrunA17_Chr7g0265831 36.735 98 60 2 254 350 106 202 2.64e-13 71.2
MsaG007231 MtrunA17_Chr5g0409071 31.683 101 64 2 259 357 41 138 1.03e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007231 AT5G47660.1 41.365 249 121 3 106 354 169 392 3.79e-51 176
MsaG007231 AT1G76890.2 37.838 259 131 5 106 354 252 490 6.43e-45 163
MsaG007231 AT1G76890.2 41.176 85 49 1 263 347 41 124 4.86e-14 73.9
MsaG007231 AT5G28300.1 35.361 263 138 8 115 350 299 556 1.67e-37 143
MsaG007231 AT1G76880.1 53.398 103 44 1 256 358 401 499 2.90e-31 125
MsaG007231 AT1G76880.1 40.230 87 51 1 263 349 61 146 1.41e-13 72.4
MsaG007231 AT1G33240.3 54.839 93 42 0 263 355 435 527 2.76e-29 119
MsaG007231 AT1G33240.3 39.080 87 52 1 263 349 62 147 1.48e-13 72.4
MsaG007231 AT1G33240.1 54.839 93 42 0 263 355 435 527 3.80e-29 119
MsaG007231 AT1G33240.1 39.080 87 52 1 263 349 62 147 1.52e-13 72.4
MsaG007231 AT1G33240.2 54.839 93 42 0 263 355 396 488 5.33e-29 119
MsaG007231 AT5G03680.1 29.066 289 168 8 76 352 255 518 9.30e-19 88.6
MsaG007231 AT5G03680.1 41.573 89 50 2 263 350 119 206 1.18e-14 75.9
MsaG007231 AT3G10000.1 34.646 127 78 3 225 350 54 176 4.15e-16 80.1
MsaG007231 AT3G10000.2 34.127 126 70 3 225 350 54 166 4.73e-14 73.9

Find 140 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACGGGTCCTCGACCTTTA+TGG 0.221031 2:+15328472 None:intergenic
TTGCCCTTACTTTAACGAAT+TGG 0.310790 2:-15326789 MsaT007231.1:CDS
ATCGCTGATTCAGAAACTAT+TGG 0.316999 2:-15327263 MsaT007231.1:CDS
TGGGATCAAAAGGATCAATA+TGG 0.335339 2:-15326949 MsaT007231.1:CDS
GGAGATAGCTGGAGCATTGC+AGG 0.341688 2:-15326924 MsaT007231.1:CDS
TTGGACAATCTGTATAGAAA+TGG 0.356199 2:-15326770 MsaT007231.1:CDS
GGAACACAAGTTCGGTCATA+TGG 0.359379 2:-15326969 MsaT007231.1:CDS
CGGCCCCACGTACTGAATTA+AGG 0.365409 2:+15327096 None:intergenic
CGAAGAAGTGCAAGGAGAAA+TGG 0.367920 2:-15326880 MsaT007231.1:CDS
GGGAAACCAGGAGGAGGAGG+AGG 0.384212 2:+15328521 None:intergenic
TCGCTGATTCAGAAACTATT+GGG 0.386057 2:-15327262 MsaT007231.1:CDS
CTTATTCCGCTTCCTTCTGC+TGG 0.387343 2:+15327217 None:intergenic
TTGTCCAATTCGTTAAAGTA+AGG 0.393734 2:+15326785 None:intergenic
TCTGCTAATACTAAAGAATT+CGG 0.401638 2:-15327520 MsaT007231.1:CDS
TTCCCTTATGGAAACATTGT+TGG 0.404001 2:+15326712 None:intergenic
GGTAGAGGGGTGTGGTGAGA+AGG 0.405204 2:+15328500 None:intergenic
GTCGAGGACCCGTCTCGATC+CGG 0.413921 2:-15328464 MsaT007231.1:CDS
CCCTCTACCACCTTCCATAA+AGG 0.418335 2:-15328486 MsaT007231.1:CDS
AGGTCGCCGGAGTCGGGAAA+TGG 0.420361 2:+15328620 None:intergenic
AGCTGGAGCATTGCAGGGCA+TGG 0.423836 2:-15326918 MsaT007231.1:CDS
AAAACATCAATAAGTACTAT+AGG 0.424007 2:-15326856 MsaT007231.1:CDS
GAAGGGAAACCAGGAGGAGG+AGG 0.425874 2:+15328518 None:intergenic
TTGTTATTGCTCACCTCAGC+CGG 0.426631 2:+15327076 None:intergenic
GCGATCCAAGTAACAGTAGA+TGG 0.427115 2:-15327036 MsaT007231.1:CDS
TCATCATTTCAGCTCGTCTT+CGG 0.431474 2:-15327560 MsaT007231.1:intron
CGACCCCACGTTGTGGGTCA+AGG 0.431970 2:+15327150 None:intergenic
AATGGGTCCTTGGAGAGAAA+TGG 0.436187 2:-15326752 MsaT007231.1:CDS
GGGGATTGTGGTGGTTGGAG+AGG 0.440819 2:+15328579 None:intergenic
AGAGCAGATGCATAAAGAAT+TGG 0.442580 2:-15327416 MsaT007231.1:CDS
ATACCAACAATGTTTCCATA+AGG 0.443747 2:-15326715 MsaT007231.1:CDS
TTCGGTCATATGGGATCAAA+AGG 0.444670 2:-15326959 MsaT007231.1:CDS
AGCATGGAAGCGCGAGGAGA+TGG 0.446602 2:-15327347 MsaT007231.1:CDS
TTGCAGCAAATTTGGTAAAG+AGG 0.450584 2:-15327453 MsaT007231.1:CDS
ACCTTTATGGAAGGTGGTAG+AGG 0.453928 2:+15328485 None:intergenic
AGCGCTTGTACTTCCACATC+TGG 0.454518 2:+15327013 None:intergenic
GTTTCTGAATCAGCGATATG+AGG 0.456889 2:+15327269 None:intergenic
AAGATAAGGTCGCCGGAGTC+GGG 0.457626 2:+15328614 None:intergenic
AGGAGGAGGGATGGACCTGA+TGG 0.458333 2:+15328544 None:intergenic
GAGAAAGAGTTCGAGAAAGC+TGG 0.464906 2:-15327482 MsaT007231.1:CDS
TGTTTCCATAAGGGAAGAAA+AGG 0.473178 2:-15326705 MsaT007231.1:CDS
GACCCGTCTCGATCCGGGTC+GGG 0.479636 2:-15328458 MsaT007231.1:CDS
TGGACAATCTGTATAGAAAT+GGG 0.482755 2:-15326769 MsaT007231.1:CDS
TCTGGCCATCTACTGTTACT+TGG 0.486338 2:+15327031 None:intergenic
GTGTGGTGAGAAGGGAAACC+AGG 0.486892 2:+15328509 None:intergenic
CCGCTTCCTTCTGCTGGTGG+AGG 0.487836 2:+15327223 None:intergenic
GTAGAGGGGTGTGGTGAGAA+GGG 0.489814 2:+15328501 None:intergenic
TCGAGGACCCGTCTCGATCC+GGG 0.493085 2:-15328463 MsaT007231.1:CDS
GACCCGACCCGGATCGAGAC+GGG 0.496300 2:+15328456 None:intergenic
TCAGTACGTGGGGCCGGCTG+AGG 0.496634 2:-15327089 MsaT007231.1:CDS
GAAGATAAGGTCGCCGGAGT+CGG 0.499156 2:+15328613 None:intergenic
TGGAAGGTGGTAGAGGGGTG+TGG 0.500655 2:+15328492 None:intergenic
CCACAACGTGGGGTCGGCTG+AGG 0.501288 2:-15327143 MsaT007231.1:CDS
CTCAGCCGACCCCACGTTGT+GGG 0.501316 2:+15327144 None:intergenic
TCAATATGGGAGGAGATAGC+TGG 0.501950 2:-15326935 MsaT007231.1:CDS
TGCATTTCCATTTCTCTCCA+AGG 0.502699 2:+15326745 None:intergenic
AAGAGAAGAGGATGAAGTTG+AGG 0.502881 2:-15327197 MsaT007231.1:CDS
TCTGTATAGAAATGGGTCCT+TGG 0.503578 2:-15326762 MsaT007231.1:CDS
GATTGTGGTGGTTGGAGAGG+AGG 0.505297 2:+15328582 None:intergenic
GCAGATGCATAAAGAATTGG+TGG 0.506304 2:-15327413 MsaT007231.1:CDS
TTGCCCCTTTGTCAAGAACC+CGG 0.506347 2:-15328425 MsaT007231.1:CDS
TTACCCGGGTTCTTGACAAA+GGG 0.507083 2:+15328421 None:intergenic
GGAGGAGGGATGGACCTGAT+GGG 0.508730 2:+15328545 None:intergenic
GGAGGCCGGCGGCGAAGATA+AGG 0.508923 2:+15328600 None:intergenic
TACCAACAATGTTTCCATAA+GGG 0.510070 2:-15326714 MsaT007231.1:CDS
ATTCCGCTTCCTTCTGCTGG+TGG 0.513116 2:+15327220 None:intergenic
GTGGTGGTTGGAGAGGAGGC+CGG 0.515979 2:+15328586 None:intergenic
CAGTTGGGAGCGGCAAGAAA+CGG 0.517486 2:-15326829 MsaT007231.1:CDS
GGATAAAGAGAGAAGAAGCA+TGG 0.520205 2:-15327363 MsaT007231.1:CDS
ACCGCATTGGAACACAAGTT+CGG 0.524498 2:-15326977 MsaT007231.1:CDS
GAAGAAGTGCAAGGAGAAAT+GGG 0.526951 2:-15326879 MsaT007231.1:CDS
AGTACTATAGGAGGACAGTT+GGG 0.527630 2:-15326844 MsaT007231.1:CDS
AATGATTGAGAGGATGGAAA+AGG 0.532492 2:-15327389 MsaT007231.1:CDS
CCCACGTTGTGGGTCAAGGG+TGG 0.532882 2:+15327154 None:intergenic
CATAAGGGAAGAAAAGGAGC+AGG 0.532990 2:-15326699 MsaT007231.1:CDS
CCTCAGCCGACCCCACGTTG+TGG 0.533841 2:+15327143 None:intergenic
GGTGGAAATGATTGAGAGGA+TGG 0.536865 2:-15327395 MsaT007231.1:CDS
GCTGGAGCATTGCAGGGCAT+GGG 0.538046 2:-15326917 MsaT007231.1:CDS
CTGAATTAAGGCTAGGCTGT+TGG 0.538369 2:+15327108 None:intergenic
CAGCTCGTCTTCGGATGACG+TGG 0.539019 2:-15327551 MsaT007231.1:CDS
CCTTTATGGAAGGTGGTAGA+GGG 0.540722 2:+15328486 None:intergenic
GGGATCAAAAGGATCAATAT+GGG 0.541820 2:-15326948 MsaT007231.1:CDS
TGTCCAATTCGTTAAAGTAA+GGG 0.542164 2:+15326786 None:intergenic
CTTAATTCAGTACGTGGGGC+CGG 0.542332 2:-15327095 MsaT007231.1:CDS
GAGGAGGGATGGACCTGATG+GGG 0.543104 2:+15328546 None:intergenic
GAACACAAGTTCGGTCATAT+GGG 0.545310 2:-15326968 MsaT007231.1:CDS
GGAGATGGAGAGAATTAAGC+AGG 0.547111 2:-15327332 MsaT007231.1:CDS
GTTGCTCCATTTCCCGACTC+CGG 0.549274 2:-15328626 MsaT007231.1:CDS
CCACGTTGTGGGTCAAGGGT+GGG 0.550717 2:+15327155 None:intergenic
GACCCCACGTTGTGGGTCAA+GGG 0.551673 2:+15327151 None:intergenic
AAGTACTATAGGAGGACAGT+TGG 0.558326 2:-15326845 MsaT007231.1:CDS
CATAGCAGTAAGAACCGCAT+TGG 0.560429 2:-15326990 MsaT007231.1:CDS
CCTCCACCAGCAGAAGGAAG+CGG 0.560638 2:-15327223 MsaT007231.1:CDS
GGACCCGTCTCGATCCGGGT+CGG 0.561874 2:-15328459 MsaT007231.1:CDS
TGAGAAGGGAAACCAGGAGG+AGG 0.562570 2:+15328515 None:intergenic
CAAAGAAGAATGACCCGACC+CGG 0.563112 2:+15328445 None:intergenic
GAGGAGGTTCATGCTGTCCA+TGG 0.563553 2:+15328661 None:intergenic
CTTGACCCACAACGTGGGGT+CGG 0.569379 2:-15327149 MsaT007231.1:CDS
GGCGACCTTATCTTCGCCGC+CGG 0.577427 2:-15328605 MsaT007231.1:CDS
CTTACCCGGGTTCTTGACAA+AGG 0.581461 2:+15328420 None:intergenic
CCACGTACTGAATTAAGGCT+AGG 0.581501 2:+15327101 None:intergenic
TCCTCGACCTTTATGGAAGG+TGG 0.582785 2:+15328479 None:intergenic
CCTAGCCTTAATTCAGTACG+TGG 0.585489 2:-15327101 MsaT007231.1:CDS
TTTCTGAATCAGCGATATGA+GGG 0.586770 2:+15327270 None:intergenic
TGCCCCTTTGTCAAGAACCC+GGG 0.588206 2:-15328424 MsaT007231.1:intron
AGCTCGTCTTCGGATGACGT+GGG 0.593056 2:-15327550 MsaT007231.1:CDS
CAGATTCCTCCACCAGCAGA+AGG 0.594230 2:-15327229 MsaT007231.1:CDS
CCCACCCTTGACCCACAACG+TGG 0.596089 2:-15327155 MsaT007231.1:CDS
CACCCTTGACCCACAACGTG+GGG 0.600798 2:-15327153 MsaT007231.1:CDS
AATTCGGCTCAAGAAAGAGA+AGG 0.601809 2:-15327504 MsaT007231.1:CDS
CCACCCTTGACCCACAACGT+GGG 0.601931 2:-15327154 MsaT007231.1:CDS
GGCGGCGAAGATAAGGTCGC+CGG 0.602029 2:+15328607 None:intergenic
GAGCAACATGGTCGGAGGCG+AGG 0.603241 2:+15328642 None:intergenic
TGACCCGACCCGGATCGAGA+CGG 0.603647 2:+15328455 None:intergenic
TTGAGAGGATGGAAAAGGAA+AGG 0.604583 2:-15327384 MsaT007231.1:CDS
CTAGCCTTAATTCAGTACGT+GGG 0.606512 2:-15327100 MsaT007231.1:CDS
ACCACCTTCCATAAAGGTCG+AGG 0.606661 2:-15328480 MsaT007231.1:CDS
TATAGGAGGACAGTTGGGAG+CGG 0.607290 2:-15326839 MsaT007231.1:CDS
TAACAGTAGATGGCCAGATG+TGG 0.609609 2:-15327026 MsaT007231.1:CDS
CAACATGGTCGGAGGCGAGG+AGG 0.621911 2:+15328645 None:intergenic
ACATCAATAAGTACTATAGG+AGG 0.623811 2:-15326853 MsaT007231.1:CDS
GAGATAGCTGGAGCATTGCA+GGG 0.625252 2:-15326923 MsaT007231.1:CDS
GTGGTTGGAGAGGAGGCCGG+CGG 0.625523 2:+15328589 None:intergenic
GCAGGACGAAGAAGCTAGAG+CGG 0.631131 2:-15327314 MsaT007231.1:CDS
AATTGGTGGAAATGATTGAG+AGG 0.633368 2:-15327399 MsaT007231.1:CDS
AAATGGAGCAACATGGTCGG+AGG 0.635563 2:+15328637 None:intergenic
GGGAAATGGAGCAACATGGT+CGG 0.636053 2:+15328634 None:intergenic
AGAAGAAGCATGGAAGCGCG+AGG 0.638350 2:-15327353 MsaT007231.1:CDS
AGGAAGCGGAATAAGAGAAG+AGG 0.647234 2:-15327209 MsaT007231.1:CDS
TCGTTCTGCGAAGAAGTGCA+AGG 0.648168 2:-15326888 MsaT007231.1:CDS
AAGAAGCTAGAGCGGCTGAG+AGG 0.648990 2:-15327306 MsaT007231.1:CDS
GGGTCCTCGACCTTTATGGA+AGG 0.655244 2:+15328476 None:intergenic
CTTTATGGAAGGTGGTAGAG+GGG 0.657356 2:+15328487 None:intergenic
AGTCGGGAAATGGAGCAACA+TGG 0.658925 2:+15328630 None:intergenic
AAATTTGGTAAAGAGGATGA+CGG 0.659081 2:-15327446 MsaT007231.1:CDS
ACCGAACTTGTGTTCCAATG+CGG 0.661234 2:+15326976 None:intergenic
TACCCGGGTTCTTGACAAAG+GGG 0.666977 2:+15328422 None:intergenic
ATCAAAAGGATCAATATGGG+AGG 0.676913 2:-15326945 MsaT007231.1:CDS
TGGTGAGAAGGGAAACCAGG+AGG 0.688570 2:+15328512 None:intergenic
TAGCCTTAATTCAGTACGTG+GGG 0.690775 2:-15327099 MsaT007231.1:CDS
ATAAGGGAAGAAAAGGAGCA+GGG 0.692895 2:-15326698 MsaT007231.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 15326688 15328681 15326688 ID=MsaG007231
Chr2 mRNA 15326688 15328681 15326688 ID=MsaT007231.1;Parent=MsaG007231
Chr2 exon 15326688 15327570 15326688 ID=MsaT007231.1.exon2;Parent=MsaT007231.1
Chr2 CDS 15326688 15327570 15326688 ID=cds.MsaT007231.1;Parent=MsaT007231.1
Chr2 exon 15328425 15328681 15328425 ID=MsaT007231.1.exon1;Parent=MsaT007231.1
Chr2 CDS 15328425 15328681 15328425 ID=cds.MsaT007231.1;Parent=MsaT007231.1
Gene Sequence

>MsaT007231.1

ATGGACAGCATGAACCTCCTCGCCTCCGACCATGTTGCTCCATTTCCCGACTCCGGCGACCTTATCTTCGCCGCCGGCCTCCTCTCCAACCACCACAATCCCCAAAAACTCATCCCCATCAGGTCCATCCCTCCTCCTCCTCCTCCTCCTCCTGGTTTCCCTTCTCACCACACCCCTCTACCACCTTCCATAAAGGTCGAGGACCCGTCTCGATCCGGGTCGGGTCATTCTTCTTTGCCCCTTTGTCAAGAACCCGGCTCGTCTTCGGATGACGTGGGCAATTCATCTGCTAATACTAAAGAATTCGGCTCAAGAAAGAGAAGGAGAAAGAGTTCGAGAAAGCTGGAAGATTTTGCAGCAAATTTGGTAAAGAGGATGACGGAAAAGCAAGAGCAGATGCATAAAGAATTGGTGGAAATGATTGAGAGGATGGAAAAGGAAAGGATAAAGAGAGAAGAAGCATGGAAGCGCGAGGAGATGGAGAGAATTAAGCAGGACGAAGAAGCTAGAGCGGCTGAGAGGTCTCGTAGTTTAGCCCTCATATCGCTGATTCAGAAACTATTGGGTTATGAAATTCAGATTCCTCCACCAGCAGAAGGAAGCGGAATAAGAGAAGAGGATGAAGTTGAGGTGAACAACAACAACAACAGCCCACCCTTGACCCACAACGTGGGGTCGGCTGAGGTGAACAACAACACCAACAGCCTAGCCTTAATTCAGTACGTGGGGCCGGCTGAGGTGAGCAATAACAAAAAACATTTCAACAGCGGCGATCCAAGTAACAGTAGATGGCCAGATGTGGAAGTACAAGCGCTCATAGCAGTAAGAACCGCATTGGAACACAAGTTCGGTCATATGGGATCAAAAGGATCAATATGGGAGGAGATAGCTGGAGCATTGCAGGGCATGGGATACAGTCGTTCTGCGAAGAAGTGCAAGGAGAAATGGGAAAACATCAATAAGTACTATAGGAGGACAGTTGGGAGCGGCAAGAAACGGCCTGTTAATAGCAAAACTTGCCCTTACTTTAACGAATTGGACAATCTGTATAGAAATGGGTCCTTGGAGAGAAATGGAAATGCATTGAGCAATACCAACAATGTTTCCATAAGGGAAGAAAAGGAGCAGGGTGAAATTTGA
Protein sequence

>MsaT007231.1

MDSMNLLASDHVAPFPDSGDLIFAAGLLSNHHNPQKLIPIRSIPPPPPPPPGFPSHHTPLPPSIKVEDPSRSGSGHSSLPLCQEPGSSSDDVGNSSANTKEFGSRKRRRKSSRKLEDFAANLVKRMTEKQEQMHKELVEMIERMEKERIKREEAWKREEMERIKQDEEARAAERSRSLALISLIQKLLGYEIQIPPPAEGSGIREEDEVEVNNNNNSPPLTHNVGSAEVNNNTNSLALIQYVGPAEVSNNKKHFNSGDPSNSRWPDVEVQALIAVRTALEHKFGHMGSKGSIWEEIAGALQGMGYSRSAKKCKEKWENINKYYRRTVGSGKKRPVNSKTCPYFNELDNLYRNGSLERNGNALSNTNNVSIREEKEQGEI*