AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027365

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027365 MtrunA17_Chr5g0422461 98.435 575 7 1 1 573 1 575 0.0 1159
MsaG027365 MtrunA17_Chr7g0245041 39.086 394 199 9 104 463 86 472 7.97e-84 270
MsaG027365 MtrunA17_Chr8g0334531 41.546 414 195 9 105 479 104 509 9.04e-84 270
MsaG027365 MtrunA17_Chr4g0002001 30.374 214 109 7 264 464 118 304 2.13e-15 77.4
MsaG027365 MtrunA17_Chr1g0187371 27.830 212 111 6 267 464 126 309 6.17e-13 70.1
MsaG027365 MtrunA17_Chr7g0245081 37.069 116 58 3 372 484 1 104 4.77e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027365 AT1G68830.1 83.107 515 87 0 59 573 48 562 0.0 905
MsaG027365 AT5G01920.1 40.943 403 194 7 112 477 96 491 1.86e-87 280
MsaG027365 AT5G01920.2 40.943 403 194 7 112 477 96 491 1.86e-87 280
MsaG027365 AT2G38620.4 30.986 213 111 7 263 464 55 242 1.88e-15 77.0
MsaG027365 AT2G38620.2 27.566 341 178 14 149 464 8 304 2.51e-15 77.8

Find 118 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTGCTTTGTCTTATCTT+TGG 0.201448 5:+43445469 MsaT027365.1:CDS
CCTGGTGTTGTTCTTGCTTT+TGG 0.208005 5:+43445450 MsaT027365.1:CDS
AATATGGTGCTGTTGAAATT+TGG 0.221217 5:+43446811 MsaT027365.1:CDS
AAGTCTTTGGCCAAGGAAAA+TGG 0.232514 5:-43445217 None:intergenic
CTCCTGAATATTGGCTTATA+TGG 0.234852 5:+43447039 MsaT027365.1:CDS
TGGTGCTTTGTCTTATCTTT+GGG 0.266282 5:+43445470 MsaT027365.1:CDS
CGAGCAACACAACAGGATTA+TGG 0.267381 5:+43448892 MsaT027365.1:CDS
AGGGTTTGATTCTAAGTCTT+TGG 0.275538 5:-43445230 None:intergenic
GCCTTTGCCTTGCTTTATAT+CGG 0.279262 5:-43448777 None:intergenic
TTGTGCACCAGCCTTCTTCT+TGG 0.291467 5:-43449442 None:intergenic
ATTGACGGTTGAATTGTATA+AGG 0.298216 5:-43448621 None:intergenic
GGTTGTTTAGACCTACTTTC+AGG 0.304865 5:+43445550 MsaT027365.1:CDS
CTTTGTGACTCCAATTCCTT+TGG 0.309079 5:-43445166 None:intergenic
CAGGTCGAAACATTGATTCT+TGG 0.309965 5:+43447493 MsaT027365.1:intron
TTGAAGAAGGCGACTGAATA+TGG 0.312551 5:+43446795 MsaT027365.1:CDS
TACAACTTTCATTCCTCTCT+TGG 0.323203 5:-43449579 None:intergenic
AAGAGACTACCAACATTATA+TGG 0.329901 5:-43447113 None:intergenic
CATTCCTAAAGAGTTTCTTT+TGG 0.331479 5:+43447822 MsaT027365.1:CDS
GGATCCAAAAGAAACTCTTT+AGG 0.332998 5:-43447826 None:intergenic
TGGTGGTGGTTCATTGTTTG+AGG 0.346610 5:-43445250 None:intergenic
TGTGCACCAGCCTTCTTCTT+GGG 0.348907 5:-43449441 None:intergenic
CAAGTGGATTATTCAGCTTA+TGG 0.349059 5:+43448924 MsaT027365.1:CDS
CAAAGAAGACTCCTGAATAT+TGG 0.362523 5:+43447030 MsaT027365.1:CDS
CTGCACTCTCTCCAGTCTTA+TGG 0.363671 5:+43448074 MsaT027365.1:CDS
ATTCAGCTTATGGCAAAATC+AGG 0.382255 5:+43448934 MsaT027365.1:CDS
ACATTCAAAATAATTGATCT+TGG 0.382791 5:+43447766 MsaT027365.1:CDS
CTCCATATAAGCCAATATTC+AGG 0.386303 5:-43447041 None:intergenic
TTGGATTTAGATGGCGGAAT+AGG 0.392942 5:+43448730 MsaT027365.1:CDS
CAACACCAACACCTACAAAA+AGG 0.400926 5:-43445344 None:intergenic
ACTGTTGCAACCAAAGGAAT+TGG 0.403712 5:+43445156 MsaT027365.1:CDS
TTTGAGCTGTTGGATTTAGA+TGG 0.405059 5:+43448721 MsaT027365.1:CDS
AAGCCTTCTTTGTCAAAGTA+AGG 0.405199 5:-43448826 None:intergenic
CTTTGACAAAGAAGGCTTGT+TGG 0.405734 5:+43448831 MsaT027365.1:CDS
ACAAGATTTGCCAAAGGGAT+TGG 0.407482 5:+43447522 MsaT027365.1:CDS
GCTACACCTGGTGTTGCTCC+TGG 0.415742 5:+43445492 MsaT027365.1:CDS
CATCCTTACTTTGACAAAGA+AGG 0.421240 5:+43448823 MsaT027365.1:CDS
GGTGGTGGTTCATTGTTTGA+GGG 0.422407 5:-43445249 None:intergenic
ACAACTTTCATTCCTCTCTT+GGG 0.423424 5:-43449578 None:intergenic
GGAGAGAGTGCAGTTGCAAC+TGG 0.425506 5:-43448064 None:intergenic
TCTTATCTTTGGGCTACACC+TGG 0.433977 5:+43445480 MsaT027365.1:CDS
TAGGAGAGGCTTTGAGCTGT+TGG 0.438205 5:+43448711 MsaT027365.1:CDS
TGGCTTATATGGAGGTTTGA+AGG 0.443769 5:+43447050 MsaT027365.1:CDS
AGTCACACCTCTTTAATTGA+CGG 0.447260 5:-43448636 None:intergenic
GGCTTGAATGTTACTGTCCC+TGG 0.447608 5:+43445432 MsaT027365.1:CDS
GGCTTATATGGAGGTTTGAA+GGG 0.452837 5:+43447051 MsaT027365.1:CDS
ATTTAGATGGCGGAATAGGA+TGG 0.466045 5:+43448734 MsaT027365.1:CDS
CTCAACTGGTATTGTGCATA+GGG 0.466971 5:+43447609 MsaT027365.1:CDS
ATCACCACAAAAGCCATTCA+TGG 0.467695 5:+43445291 MsaT027365.1:CDS
TTAGACGGTCTTCACTCAAC+TGG 0.479359 5:+43447595 MsaT027365.1:CDS
AATCCATTCACCACCATGAA+TGG 0.480510 5:-43445304 None:intergenic
CTATTATCAGAGTGTAAGCC+AGG 0.482456 5:-43448598 None:intergenic
GGCAAAATCAGGAACAGAAA+AGG 0.483650 5:+43448945 MsaT027365.1:CDS
AAAGCATTTGGTGGAGGAGA+TGG 0.488211 5:+43449553 MsaT027365.1:CDS
CTTGCACTGCATGGTGGTGG+TGG 0.491350 5:-43445264 None:intergenic
AAGCCATTCATGGTGGTGAA+TGG 0.493552 5:+43445301 MsaT027365.1:CDS
CTCGATGTGGCGCTGAACTT+AGG 0.499449 5:+43448692 MsaT027365.1:CDS
AATAATAATACCTTTGATGA+GGG 0.500325 5:-43446401 None:intergenic
GGAAATTGTGCCCAAGAAGA+AGG 0.504841 5:+43449431 MsaT027365.1:intron
CTGAATATTGGCTTATATGG+AGG 0.508004 5:+43447042 MsaT027365.1:CDS
CCAAAAGCAAGAACAACACC+AGG 0.508205 5:-43445450 None:intergenic
ACTCAACTGGTATTGTGCAT+AGG 0.510063 5:+43447608 MsaT027365.1:CDS
TGGTCTAATATTCCTCCAAA+TGG 0.512216 5:+43448237 MsaT027365.1:CDS
AATTCCTTTGGTTGCAACAG+TGG 0.512321 5:-43445154 None:intergenic
AGTTTAACCTGCCATAAGAC+TGG 0.523445 5:-43448085 None:intergenic
ACATTCAAGCCACTAGACTT+AGG 0.534526 5:-43445420 None:intergenic
AATTCAACCGTCAATTAAAG+AGG 0.535042 5:+43448629 MsaT027365.1:CDS
CTGTAGATATCAAATCTGTC+AGG 0.543319 5:-43448211 None:intergenic
AATCTTGCACTGCATGGTGG+TGG 0.543569 5:-43445267 None:intergenic
GAGGTACAAGATTTGCCAAA+GGG 0.544928 5:+43447517 MsaT027365.1:CDS
TGATTCTAAGTCTTTGGCCA+AGG 0.549378 5:-43445224 None:intergenic
CAACTCTTGTTCGCATTAGA+CGG 0.553953 5:+43447580 MsaT027365.1:CDS
CTTCAGCTCTTAAAGTGCAA+AGG 0.564633 5:+43449478 MsaT027365.1:CDS
GTGCTCATAATGTACTGCTC+TGG 0.567167 5:-43448016 None:intergenic
ATTCACTGAAGCTCAACTAC+AGG 0.570689 5:+43448975 MsaT027365.1:CDS
ACTCTCTCCAGTCTTATGGC+AGG 0.570820 5:+43448078 MsaT027365.1:CDS
CCACACTCCATCACAGTGCA+TGG 0.571570 5:-43445372 None:intergenic
TAACAAACCTTCCTGAAAGT+AGG 0.572935 5:-43445561 None:intergenic
ATTTGATACTCACCATTTGG+AGG 0.574767 5:-43448249 None:intergenic
ACTGGAGCTGAGGGTGCAGA+TGG 0.578510 5:-43448046 None:intergenic
AGATTTGATATCTACAGTAC+TGG 0.579644 5:+43448217 MsaT027365.1:CDS
ATTGTGCCCAAGAAGAAGGC+TGG 0.580227 5:+43449435 MsaT027365.1:CDS
TTTAGATGGCGGAATAGGAT+GGG 0.582248 5:+43448735 MsaT027365.1:CDS
AAAACAGGAAAAGCATTTGG+TGG 0.582619 5:+43449544 MsaT027365.1:CDS
GAGCTGTTGGATTTAGATGG+CGG 0.583483 5:+43448724 MsaT027365.1:CDS
CAATAATAATACCTTTGATG+AGG 0.584378 5:-43446402 None:intergenic
ACAGGAAAAGCATTTGGTGG+AGG 0.584401 5:+43449547 MsaT027365.1:CDS
CGAAACATTGATTCTTGGCG+AGG 0.584582 5:+43447498 MsaT027365.1:CDS
GTGATGAATCTTGCACTGCA+TGG 0.588583 5:-43445273 None:intergenic
TCAGAGAAAATAATGTTCTG+TGG 0.589145 5:-43447640 None:intergenic
ATGGCCACTGTTGCAACCAA+AGG 0.589790 5:+43445150 MsaT027365.1:CDS
GTGACTATGACTTGGTTGCA+TGG 0.590726 5:+43448653 MsaT027365.1:CDS
TGCAGTTGCAACTGGAGCTG+AGG 0.594722 5:-43448056 None:intergenic
AGGTGACTTAGTCTTGAAGA+AGG 0.596316 5:+43446782 MsaT027365.1:CDS
GTTTAGACCTACTTTCAGGA+AGG 0.597459 5:+43445554 MsaT027365.1:CDS
CATAAGCTGAATAATCCACT+TGG 0.599152 5:-43448923 None:intergenic
GCTTATATGGAGGTTTGAAG+GGG 0.600363 5:+43447052 MsaT027365.1:CDS
ACTCTGCAATAGATCAGCTA+AGG 0.600527 5:-43447081 None:intergenic
AGCACTCTTCCTAAGTCTAG+TGG 0.608042 5:+43445411 MsaT027365.1:CDS
TGGACTTCCATGCACTGTGA+TGG 0.608649 5:+43445365 MsaT027365.1:CDS
AAAATCAGGAACAGAAAAGG+AGG 0.609977 5:+43448948 MsaT027365.1:CDS
CGAGGTACAAGATTTGCCAA+AGG 0.612682 5:+43447516 MsaT027365.1:CDS
GCTGCTACAGACTTGCGAGT+TGG 0.612827 5:+43447790 MsaT027365.1:CDS
CCATGCACTGTGATGGAGTG+TGG 0.621185 5:+43445372 MsaT027365.1:CDS
CAATGGTCCGATATAAAGCA+AGG 0.622058 5:+43448770 MsaT027365.1:CDS
TCCGATATAAAGCAAGGCAA+AGG 0.623569 5:+43448776 MsaT027365.1:CDS
TATCTATCATGCAAAATCTG+AGG 0.626573 5:+43448857 MsaT027365.1:CDS
GCAGTTGCAACTGGAGCTGA+GGG 0.634177 5:-43448055 None:intergenic
TCAGGAACAGAAAAGGAGGG+TGG 0.634221 5:+43448952 MsaT027365.1:CDS
CAAAAGCAAGAACAACACCA+GGG 0.646990 5:-43445449 None:intergenic
GAGGAGATGGATCCCAAGAG+AGG 0.662184 5:+43449566 MsaT027365.1:CDS
AAAGAGGTGTGACTATGACT+TGG 0.672074 5:+43448645 MsaT027365.1:CDS
ATGAATCTTGCACTGCATGG+TGG 0.677136 5:-43445270 None:intergenic
AAAACTGTGGAGCCTCGATG+TGG 0.677269 5:+43448679 MsaT027365.1:CDS
TGTGGCGCTGAACTTAGGAG+AGG 0.694905 5:+43448697 MsaT027365.1:CDS
AAATCAGGAACAGAAAAGGA+GGG 0.696429 5:+43448949 MsaT027365.1:CDS
ATTATGGAGAAGCTGCCAAG+TGG 0.696799 5:+43448908 MsaT027365.1:CDS
CTAAGTTCAGCGCCACATCG+AGG 0.705406 5:-43448691 None:intergenic
ACCACAAAAGCCATTCATGG+TGG 0.707798 5:+43445294 MsaT027365.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 43445150 43449593 43445150 ID=MsaG027365
Chr5 mRNA 43445150 43449593 43445150 ID=MsaT027365.1;Parent=MsaG027365
Chr5 exon 43445150 43445575 43445150 ID=MsaT027365.1.exon1;Parent=MsaT027365.1
Chr5 CDS 43445150 43445575 43445150 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43446326 43446412 43446326 ID=MsaT027365.1.exon2;Parent=MsaT027365.1
Chr5 CDS 43446326 43446412 43446326 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43446780 43446899 43446780 ID=MsaT027365.1.exon3;Parent=MsaT027365.1
Chr5 CDS 43446780 43446899 43446780 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43447023 43447121 43447023 ID=MsaT027365.1.exon4;Parent=MsaT027365.1
Chr5 CDS 43447023 43447121 43447023 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43447496 43447664 43447496 ID=MsaT027365.1.exon5;Parent=MsaT027365.1
Chr5 CDS 43447496 43447664 43447496 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43447758 43447851 43447758 ID=MsaT027365.1.exon6;Parent=MsaT027365.1
Chr5 CDS 43447758 43447851 43447758 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43448006 43448099 43448006 ID=MsaT027365.1.exon7;Parent=MsaT027365.1
Chr5 CDS 43448006 43448099 43448006 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43448202 43448258 43448202 ID=MsaT027365.1.exon8;Parent=MsaT027365.1
Chr5 CDS 43448202 43448258 43448202 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43448592 43449005 43448592 ID=MsaT027365.1.exon9;Parent=MsaT027365.1
Chr5 CDS 43448592 43449005 43448592 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Chr5 exon 43449432 43449593 43449432 ID=MsaT027365.1.exon10;Parent=MsaT027365.1
Chr5 CDS 43449432 43449593 43449432 ID=cds.MsaT027365.1;Parent=MsaT027365.1
Gene Sequence

>MsaT027365.1

ATGGCCACTGTTGCAACCAAAGGAATTGGAGTCACAAAGCTCCATCCCTACAACCCCAACAAAAAATCCATTTTCCTTGGCCAAAGACTTAGAATCAAACCCTCAAACAATGAACCACCACCACCATGCAGTGCAAGATTCATCACCACAAAAGCCATTCATGGTGGTGAATGGATTCTTGAATCAGCTCACAACCTTTTTGTAGGTGTTGGTGTTGGACTTCCATGCACTGTGATGGAGTGTGGAGATATGATCTATAGAAGCACTCTTCCTAAGTCTAGTGGCTTGAATGTTACTGTCCCTGGTGTTGTTCTTGCTTTTGGTGCTTTGTCTTATCTTTGGGCTACACCTGGTGTTGCTCCTGGTTTTTTTGATATGTTTGTTCTTGCTTTTGTTGAAAGGTTGTTTAGACCTACTTTCAGGAAGGATGATTTTGTTTTAGGGAAGAAGCTGGGGGAGGGATCATTTGGAGTTGTTTATAGAGTGACACTAGCCAAAAAGCCCTCATCAAAGGAAGGTGACTTAGTCTTGAAGAAGGCGACTGAATATGGTGCTGTTGAAATTTGGATGAATGAACGAGTACGAAGAGCTTGTGCAAACAGCTGTGCAGATTTTGTTTATGGTTTTCTTGAGAGGTCTACAAAGAAGACTCCTGAATATTGGCTTATATGGAGGTTTGAAGGGGATGCTACCTTAGCTGATCTATTGCAGAGTAGAGATTTTCCATATAATGTCGAAACATTGATTCTTGGCGAGGTACAAGATTTGCCAAAGGGATTGGAAAGAGAAAATAAAATTATTCAAACAATCATAAGACAACTCTTGTTCGCATTAGACGGTCTTCACTCAACTGGTATTGTGCATAGGGATATTAAGCCACAGAACATTATTTTCTCTGAAGGGTCTCGTACATTCAAAATAATTGATCTTGGAGCTGCTACAGACTTGCGAGTTGGCATTAACTACATTCCTAAAGAGTTTCTTTTGGATCCAAGATATGCTGCACCAGAGCAGTACATTATGAGCACGCAAACTCCATCTGCACCCTCAGCTCCAGTTGCAACTGCACTCTCTCCAGTCTTATGGCAGTTGAATCTTCCTGACAGATTTGATATCTACAGTACTGGTCTAATATTCCTCCAAATGGCATTTCCTGGCTTACACTCTGATAATAGCCTTATACAATTCAACCGTCAATTAAAGAGGTGTGACTATGACTTGGTTGCATGGAGAAAAACTGTGGAGCCTCGATGTGGCGCTGAACTTAGGAGAGGCTTTGAGCTGTTGGATTTAGATGGCGGAATAGGATGGGAACTTTTGACGTCAATGGTCCGATATAAAGCAAGGCAAAGGCTGAGTGCTAAAGCAGCGTTAGCTCATCCTTACTTTGACAAAGAAGGCTTGTTGGCATTATCTATCATGCAAAATCTGAGGCTTAAGTTTTTTCGAGCAACACAACAGGATTATGGAGAAGCTGCCAAGTGGATTATTCAGCTTATGGCAAAATCAGGAACAGAAAAGGAGGGTGGATTCACTGAAGCTCAACTACAGGAACTTAGAGAAATTGTGCCCAAGAAGAAGGCTGGTGCACAAAGAAATGCTCTAGCTTCAGCTCTTAAAGTGCAAAGGAAAATTATAAAAACTTTAAACGAGAGTATGGATGAGCTCAGCAAAAACAGGAAAAGCATTTGGTGGAGGAGATGGATCCCAAGAGAGGAATGA
Protein sequence

>MsaT027365.1

MATVATKGIGVTKLHPYNPNKKSIFLGQRLRIKPSNNEPPPPCSARFITTKAIHGGEWILESAHNLFVGVGVGLPCTVMECGDMIYRSTLPKSSGLNVTVPGVVLAFGALSYLWATPGVAPGFFDMFVLAFVERLFRPTFRKDDFVLGKKLGEGSFGVVYRVTLAKKPSSKEGDLVLKKATEYGAVEIWMNERVRRACANSCADFVYGFLERSTKKTPEYWLIWRFEGDATLADLLQSRDFPYNVETLILGEVQDLPKGLERENKIIQTIIRQLLFALDGLHSTGIVHRDIKPQNIIFSEGSRTFKIIDLGAATDLRVGINYIPKEFLLDPRYAAPEQYIMSTQTPSAPSAPVATALSPVLWQLNLPDRFDIYSTGLIFLQMAFPGLHSDNSLIQFNRQLKRCDYDLVAWRKTVEPRCGAELRRGFELLDLDGGIGWELLTSMVRYKARQRLSAKAALAHPYFDKEGLLALSIMQNLRLKFFRATQQDYGEAAKWIIQLMAKSGTEKEGGFTEAQLQELREIVPKKKAGAQRNALASALKVQRKIIKTLNESMDELSKNRKSIWWRRWIPREE*