AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002177


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002177 MtrunA17_Chr1g0163251 81.299 385 52 6 1 368 1 382 0.0 610
MsaG002177 MtrunA17_Chr1g0163181 56.208 443 158 7 1 420 1 430 6.67e-171 485
MsaG002177 MtrunA17_Chr1g0163201 54.177 419 131 4 20 420 18 393 5.36e-147 423
MsaG002177 MtrunA17_Chr1g0163261 51.171 299 133 4 1 291 1 294 1.85e-96 291
MsaG002177 MtrunA17_Chr1g0163231 51.724 290 121 8 1 281 1 280 2.23e-92 280
MsaG002177 MtrunA17_Chr1g0171611 53.287 289 106 7 1 281 1 268 1.71e-91 278
MsaG002177 MtrunA17_Chr1g0163151 46.124 258 102 2 163 420 2 222 8.75e-75 233
MsaG002177 MtrunA17_Chr1g0163111 46.091 243 107 5 179 420 10 229 1.27e-66 212
MsaG002177 MtrunA17_Chr1g0163241 67.081 161 43 4 1 156 7 162 6.81e-62 197
MsaG002177 MtrunA17_Chr1g0163191 63.924 158 43 1 1 144 1 158 1.38e-61 196
MsaG002177 MtrunA17_Chr6g0476171 37.778 270 132 7 157 419 5 245 3.40e-43 151
MsaG002177 MtrunA17_Chr1g0162151 37.255 255 109 4 164 418 3 206 5.56e-42 147
MsaG002177 MtrunA17_Chr1g0163091 50.735 136 66 1 164 299 3 137 1.20e-39 139
MsaG002177 MtrunA17_Chr8g0390841 27.766 479 262 17 14 418 48 516 2.25e-39 147
MsaG002177 MtrunA17_Chr1g0208771 26.477 457 266 17 20 418 12 456 2.06e-35 135
MsaG002177 MtrunA17_Chr7g0233561 31.457 302 166 11 9 278 18 310 1.50e-32 125
MsaG002177 MtrunA17_Chr1g0163131 31.186 295 165 12 14 282 27 309 8.78e-32 122
MsaG002177 MtrunA17_Chr1g0163131 51.948 77 33 2 345 419 232 306 3.35e-15 75.9
MsaG002177 MtrunA17_Chr3g0103181 29.818 275 180 6 9 278 12 278 6.19e-31 119
MsaG002177 MtrunA17_Chr3g0103171 28.464 267 176 6 20 278 5 264 1.12e-29 116
MsaG002177 MtrunA17_Chr1g0163101 43.972 141 67 4 14 146 26 162 3.65e-29 112
MsaG002177 MtrunA17_Chr7g0233521 32.014 278 167 9 21 286 2 269 1.62e-28 113
MsaG002177 MtrunA17_Chr1g0162161 39.726 146 78 4 21 159 4 146 5.76e-27 105
MsaG002177 MtrunA17_Chr1g0163221 28.383 303 177 13 9 285 11 299 1.34e-26 109
MsaG002177 MtrunA17_Chr3g0131891 30.717 293 170 9 9 278 19 301 2.22e-26 108
MsaG002177 MtrunA17_Chr6g0476181 45.070 142 69 4 21 159 2 137 2.32e-26 103
MsaG002177 MtrunA17_Chr1g0163071 26.733 303 184 8 21 291 2 298 6.70e-26 106
MsaG002177 MtrunA17_Chr4g0067431 28.819 288 174 10 9 268 15 299 8.25e-26 106
MsaG002177 MtrunA17_Chr7g0233541 29.066 289 178 7 21 286 2 286 1.04e-25 105
MsaG002177 MtrunA17_Chr1g0163121 39.568 139 77 3 19 157 9 140 3.50e-25 100
MsaG002177 MtrunA17_Chr3g0103191 30.894 246 148 7 9 240 12 249 6.85e-24 99.8
MsaG002177 MtrunA17_Chr1g0163081 49.438 89 44 1 21 109 6 93 1.63e-23 95.9
MsaG002177 MtrunA17_Chr3g0103151 41.463 123 67 3 9 126 12 134 7.31e-23 94.4
MsaG002177 MtrunA17_Chr1g0163141 37.500 152 83 3 17 160 7 154 3.62e-22 93.2
MsaG002177 MtrunA17_Chr7g0233531 29.391 279 173 8 21 286 2 269 4.32e-22 95.5
MsaG002177 MtrunA17_Chr5g0419201 35.664 143 80 3 14 144 25 167 1.20e-21 92.0
MsaG002177 MtrunA17_Chr7g0233571 48.148 108 49 3 1 101 1 108 1.07e-20 90.1
MsaG002177 MtrunA17_Chr1g0163161 38.346 133 70 4 33 157 1 129 9.53e-19 82.0
MsaG002177 MtrunA17_Chr6g0467351 28.293 205 130 5 13 201 23 226 3.41e-18 83.2
MsaG002177 MtrunA17_Chr4g0033961 36.634 101 58 2 7 101 4 104 8.27e-13 69.7
MsaG002177 MtrunA17_Chr1g0154131 26.690 281 186 11 3 266 179 456 1.87e-11 65.9
MsaG002177 MtrunA17_Chr5g0419211 33.333 99 64 2 199 296 8 105 2.93e-11 60.5
MsaG002177 MtrunA17_Chr5g0429931 24.723 271 160 8 20 282 10 244 4.41e-11 62.8
MsaG002177 MtrunA17_Chr1g0163061 35.000 100 58 3 9 101 15 114 4.50e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002177 AT3G18990.1 25.225 333 184 9 7 277 4 333 4.42e-22 97.1
MsaG002177 AT3G18990.2 25.225 333 184 9 7 277 4 333 5.70e-22 97.1

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGTTCAACAAGAAATATTT+TGG 0.149501 1:-33507646 MsaT002177.1:CDS
TAAAGGTTGGATAAAATTTA+TGG 0.171908 1:-33503761 MsaT002177.1:CDS
TATTTCAAGGTTAAGATATT+TGG 0.184615 1:-33507521 MsaT002177.1:CDS
TTTGGAAATTTAAGAAATAT+TGG 0.199105 1:+33507671 None:intergenic
AAAGAAGGGATTCTCATTAT+TGG 0.209323 1:+33507091 None:intergenic
TTTGCAAAGTCTCTCAAATA+TGG 0.220809 1:-33507578 MsaT002177.1:CDS
CCCTGAAGAGCATGCACTTT+TGG 0.222036 1:+33505943 None:intergenic
TCCAAAAGTGCATGCTCTTC+AGG 0.235087 1:-33505944 MsaT002177.1:CDS
CTTAGGGTTTGGTCCCTTGA+TGG 0.254887 1:+33506698 None:intergenic
GCATGCACCAAAGAGATTTA+TGG 0.255225 1:-33503884 MsaT002177.1:CDS
ACACAATACATTCAAGGTTT+TGG 0.281549 1:-33504023 MsaT002177.1:CDS
AGAAATATGTGGAGAAATAT+TGG 0.283749 1:-33507709 MsaT002177.1:CDS
CCTCTTTCCATAAATCTCTT+TGG 0.284821 1:+33503877 None:intergenic
CAATATTATCTTATGAAAAT+CGG 0.286878 1:+33507863 None:intergenic
GAAGAAAGCAAAGTGGAAAT+TGG 0.294808 1:-33503739 MsaT002177.1:CDS
TGGAGAATAATGGTGATATT+TGG 0.299993 1:-33507622 MsaT002177.1:CDS
ATATTTCTCCACATATTTCT+TGG 0.307927 1:+33507712 None:intergenic
ATTTCTTGTTGAACACCATT+TGG 0.331479 1:+33507653 None:intergenic
TTGGAAATTTAAGAAATATT+GGG 0.332062 1:+33507672 None:intergenic
CCTTGCAACTTCTTAGGGTT+TGG 0.347894 1:+33506687 None:intergenic
GTTATCATTTGAGCTTCCTT+TGG 0.355140 1:+33507389 None:intergenic
TATTTCTCCACATATTTCTT+GGG 0.381095 1:+33507713 None:intergenic
AATTAACCCTACCGGGTGTT+TGG 0.385019 1:+33503994 None:intergenic
AATATTATCTTATGAAAATC+GGG 0.396040 1:+33507864 None:intergenic
GAAGCTCAAATGATAACAAA+TGG 0.398449 1:-33507383 MsaT002177.1:CDS
TGTCATTAAAACTTCAAAGA+AGG 0.419675 1:+33507076 None:intergenic
AAAATTGTGGAGTTGAAAAT+GGG 0.422112 1:-33503844 MsaT002177.1:CDS
GTGTTTAAAGTTTCCATTGT+GGG 0.433176 1:-33503676 MsaT002177.1:CDS
GATGAAACACAATACATTCA+AGG 0.445828 1:-33504029 MsaT002177.1:CDS
CCAAAAGTGCATGCTCTTCA+GGG 0.454566 1:-33505943 MsaT002177.1:intron
TATTGGTGGATCATATTTCA+AGG 0.456312 1:-33507534 MsaT002177.1:CDS
CGTGGTTGTCAGTTCAGTAA+AGG 0.468915 1:-33503778 MsaT002177.1:CDS
AACTGACAACCACGAATACT+AGG 0.474382 1:+33503787 None:intergenic
ATTTATTATCCTAGTATTCG+TGG 0.474870 1:-33503796 MsaT002177.1:CDS
TCTTCTAATTCTATGACTAC+TGG 0.476068 1:-33506825 MsaT002177.1:CDS
TACTATTACTAAAGCCATCA+AGG 0.479367 1:-33506712 MsaT002177.1:CDS
GTCATTAAAACTTCAAAGAA+GGG 0.479979 1:+33507077 None:intergenic
TTACGCCCATGGTCATATCT+TGG 0.485636 1:-33507048 MsaT002177.1:intron
ATATTTCTTAAATTTCCAAA+TGG 0.500935 1:-33507668 MsaT002177.1:CDS
ATAGTAATAGTGAATAAAAG+TGG 0.509655 1:+33506729 None:intergenic
CCAAAGAGATTTATGGAAAG+AGG 0.511759 1:-33503877 MsaT002177.1:CDS
TATGATCTTGAAAAGTTGCA+TGG 0.513402 1:+33506933 None:intergenic
AAGCTCAAATGATAACAAAT+GGG 0.514121 1:-33507382 MsaT002177.1:CDS
AAGACATTGGAGAAACTTGT+AGG 0.516345 1:-33505972 MsaT002177.1:CDS
TCATACTTGAACAAATTTGA+AGG 0.519341 1:-33506915 MsaT002177.1:CDS
CATACTTGAACAAATTTGAA+GGG 0.523429 1:-33506914 MsaT002177.1:CDS
GGGATTGCAAGCTTAAGAGT+TGG 0.529065 1:-33506894 MsaT002177.1:CDS
ATGATCATGATATTCTAAAG+AGG 0.534079 1:-33505996 MsaT002177.1:CDS
GTTGTCAGTTCAGTAAAGGT+TGG 0.536590 1:-33503774 MsaT002177.1:CDS
TGCAAGCTTAAGAGTTGGAG+AGG 0.542791 1:-33506889 MsaT002177.1:CDS
ATTCTAAAGAGGAAAGACAT+TGG 0.551775 1:-33505985 MsaT002177.1:CDS
CTAATTCTATGACTACTGGT+TGG 0.561386 1:-33506821 MsaT002177.1:CDS
GAGAATTCCCAAGAAATATG+TGG 0.561715 1:-33507720 MsaT002177.1:CDS
AGAGGAGACAGCTATGAAAG+TGG 0.577915 1:-33506871 MsaT002177.1:CDS
ATGATCTTGAAAAGTTGCAT+GGG 0.587535 1:+33506934 None:intergenic
GAAATACTTGTCTCCTAGAG+CGG 0.589908 1:-33503717 MsaT002177.1:CDS
CCAAACCCTAAGAAGTTGCA+AGG 0.590895 1:-33506687 MsaT002177.1:intron
ATGACACAAACTTACGCCCA+TGG 0.594951 1:-33507059 MsaT002177.1:CDS
TATGTGGAGAAATATTGGAA+AGG 0.617787 1:-33507704 MsaT002177.1:CDS
ACTATTACTAAAGCCATCAA+GGG 0.618938 1:-33506711 MsaT002177.1:CDS
ATTTATGGAAGAAAGCAAAG+TGG 0.622753 1:-33503746 MsaT002177.1:CDS
AAATTGTGGAGTTGAAAATG+GGG 0.628496 1:-33503843 MsaT002177.1:CDS
TGATGAGAGTGAAATACCAA+AGG 0.631208 1:-33507405 MsaT002177.1:CDS
AATTGTGGAGTTGAAAATGG+GGG 0.632867 1:-33503842 MsaT002177.1:CDS
TTTGGTAAATTCCAAACACC+CGG 0.637463 1:-33504005 MsaT002177.1:intron
ATTGTGGAGTTGAAAATGGG+GGG 0.654265 1:-33503841 MsaT002177.1:CDS
TGTGTTTAAAGTTTCCATTG+TGG 0.655197 1:-33503677 MsaT002177.1:CDS
ACTTACCAAGATATGACCAT+GGG 0.667874 1:+33507043 None:intergenic
ATATTATCTTATGAAAATCG+GGG 0.668785 1:+33507865 None:intergenic
TATAAGGTTCTATCCCACAA+TGG 0.669677 1:+33503663 None:intergenic
TACTTACCAAGATATGACCA+TGG 0.678715 1:+33507042 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 33503672 33507904 33503672 ID=MsaG002177
Chr1 mRNA 33503672 33507904 33503672 ID=MsaT002177.1;Parent=MsaG002177
Chr1 exon 33503672 33503905 33503672 ID=MsaT002177.1.exon7;Parent=MsaT002177.1
Chr1 CDS 33503672 33503905 33503672 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33504006 33504070 33504006 ID=MsaT002177.1.exon6;Parent=MsaT002177.1
Chr1 CDS 33504006 33504070 33504006 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33505944 33506033 33505944 ID=MsaT002177.1.exon5;Parent=MsaT002177.1
Chr1 CDS 33505944 33506033 33505944 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33506688 33506961 33506688 ID=MsaT002177.1.exon4;Parent=MsaT002177.1
Chr1 CDS 33506688 33506961 33506688 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33507049 33507182 33507049 ID=MsaT002177.1.exon3;Parent=MsaT002177.1
Chr1 CDS 33507049 33507182 33507049 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33507333 33507741 33507333 ID=MsaT002177.1.exon2;Parent=MsaT002177.1
Chr1 CDS 33507333 33507741 33507333 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Chr1 exon 33507848 33507904 33507848 ID=MsaT002177.1.exon1;Parent=MsaT002177.1
Chr1 CDS 33507848 33507904 33507848 ID=cds.MsaT002177.1;Parent=MsaT002177.1
Gene Sequence

>MsaT002177.1

ATGTCATTTCAATACATCCCCGATTTTCATAAGATAATATTGCAAGATAAGAAGCTTAGAATTCCCAAGAAATATGTGGAGAAATATTGGAAAGGAATATCAAACCCAATATTTCTTAAATTTCCAAATGGTGTTCAACAAGAAATATTTTGGGTGGAGAATAATGGTGATATTTGGTTTCAAAAAAATTGGGATAATTTTGCAAAGTCTCTCAAATATGGAAATCTTTTAATTTTTAAATATATTGGTGGATCATATTTCAAGGTTAAGATATTTGGTGTCAATGCTTTAGAAATAGATTATTCCAATATAAAATCTGTTGATGAAGTTGTTGAAGCTAGAAAAGAAGATAAAGAAATTGTTGATTTGACTGATGAGAGTGAAATACCAAAGGAAGCTCAAATGATAACAAATGGGAAGAGAAAAATGAGTATAGATATTGACACTCTTAAGCAAAAATTCCCAGGTAGGAACATTGAAGACACAATTAAGAAAGTTAAAAAATGCTCTAGAATTGAAGTTGTTAATGAGACAACCAATAATGAGAATCCCTTCTTTGAAGTTTTAATGACACAAACTTACGCCCATGGTCATATCTTGGTGATCCCATGCAACTTTTCAAGATCATACTTGAACAAATTTGAAGGGATTGCAAGCTTAAGAGTTGGAGAGGAGACAGCTATGAAAGTGGATATAGTGTTTAACAATAAAAGATCTTCTAATTCTATGACTACTGGTTGGAAGTCATTTAACCAAAAATATAACTTAGAAGTTGGTGATATATGTAAATTTGTGATGACTCAAAGAGAACCACTTTTATTCACTATTACTATTACTAAAGCCATCAAGGGACCAAACCCTAAGAAGTTGCAAGAAGGGATCTCTTATGATGATCATGATATTCTAAAGAGGAAAGACATTGGAGAAACTTGTAGGACCCTTCCAAAAGTGCATGCTCTTCAGGAATCAAAGGGTCAAAACGTGATGAAACACAATACATTCAAGGTTTTGGTAAATTCCAAACACCCGCATGCACCAAAGAGATTTATGGAAAGAGGATGTCGTGAAAAAATTGTGGAGTTGAAAATGGGGGGACAATCATGGTTCGTAAAAGTGATTTATTATCCTAGTATTCGTGGTTGTCAGTTCAGTAAAGGTTGGATAAAATTTATGGAAGAAAGCAAAGTGGAAATTGGAAATACTTGTCTCCTAGAGCGGATTGATGAGAAAAAGTATGTGTTTAAAGTTTCCATTGTGGGATAG

Protein sequence

>MsaT002177.1

MSFQYIPDFHKIILQDKKLRIPKKYVEKYWKGISNPIFLKFPNGVQQEIFWVENNGDIWFQKNWDNFAKSLKYGNLLIFKYIGGSYFKVKIFGVNALEIDYSNIKSVDEVVEARKEDKEIVDLTDESEIPKEAQMITNGKRKMSIDIDTLKQKFPGRNIEDTIKKVKKCSRIEVVNETTNNENPFFEVLMTQTYAHGHILVIPCNFSRSYLNKFEGIASLRVGEETAMKVDIVFNNKRSSNSMTTGWKSFNQKYNLEVGDICKFVMTQREPLLFTITITKAIKGPNPKKLQEGISYDDHDILKRKDIGETCRTLPKVHALQESKGQNVMKHNTFKVLVNSKHPHAPKRFMERGCREKIVELKMGGQSWFVKVIYYPSIRGCQFSKGWIKFMEESKVEIGNTCLLERIDEKKYVFKVSIVG*