AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030289

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030289 MtrunA17_Chr3g0082121 54.592 196 65 3 34 213 19 206 8.03e-58 193
MsaG030289 MtrunA17_Chr5g0401121 53.435 131 42 2 34 149 36 162 2.72e-36 125
MsaG030289 MtrunA17_Chr7g0258861 39.884 173 85 5 58 213 10 180 6.15e-29 110
MsaG030289 MtrunA17_Chr2g0324011 39.535 172 86 4 58 213 10 179 5.00e-28 110
MsaG030289 MtrunA17_Chr1g0164591 57.447 94 31 2 121 213 1 86 2.27e-26 103
MsaG030289 MtrunA17_Chr5g0448761 34.091 176 97 3 58 214 60 235 1.08e-24 101
MsaG030289 MtrunA17_Chr6g0458391 39.231 130 60 4 52 164 219 346 1.57e-19 86.3
MsaG030289 MtrunA17_Chr6g0458391 34.921 126 64 4 58 167 91 214 1.08e-12 66.6
MsaG030289 MtrunA17_Chr2g0287651 30.918 207 107 6 41 214 45 248 2.05e-16 77.4
MsaG030289 MtrunA17_Chr2g0329031 35.294 119 62 3 53 157 7 124 9.03e-14 69.7
MsaG030289 MtrunA17_Chr8g0363841 31.056 161 94 5 65 209 24 183 1.47e-13 68.9
MsaG030289 MtrunA17_Chr1g0203721 26.776 183 115 4 49 213 54 235 5.71e-13 67.4
MsaG030289 MtrunA17_Chr1g0203051 27.160 162 91 3 64 203 85 241 6.07e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030289 AT4G38180.1 31.527 203 117 5 33 214 46 247 1.22e-22 95.9
MsaG030289 AT1G10240.2 27.778 180 109 6 52 210 42 221 6.28e-13 67.4
MsaG030289 AT1G10240.1 27.778 180 109 6 52 210 42 221 6.28e-13 67.4
MsaG030289 AT1G76320.1 33.333 129 67 3 62 178 1 122 1.17e-12 66.6
MsaG030289 AT1G76320.4 33.333 129 67 3 62 178 1 122 1.17e-12 66.6
MsaG030289 AT1G76320.2 33.333 129 67 3 62 178 1 122 1.21e-12 66.6
MsaG030289 AT1G76320.3 33.333 129 67 3 62 178 1 122 1.58e-12 66.2

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGAGTACAATAAAATAAT+TGG 0.163936 6:-5936733 MsaT030289.1:CDS
TTCAGATTGTGTCAATAAAT+TGG 0.215486 6:-5936866 MsaT030289.1:intron
TACAATAAAATAATTGGATT+TGG 0.283208 6:-5936727 MsaT030289.1:CDS
TTTGGTATTCGTCGAGAATA+TGG 0.287007 6:-5936709 MsaT030289.1:CDS
CTTTAGTGACTGCTTCCTTT+TGG 0.289370 6:+5936291 None:intergenic
ATATATTCATGCAAATCTTT+TGG 0.296908 6:+5936382 None:intergenic
TCTGCTCTAGGCTCTCCTTT+TGG 0.334046 6:+5936598 None:intergenic
ATGGTCGGAGACGGCGGCGG+CGG 0.340105 6:+5937360 None:intergenic
ATTGTCTTGGGAGATGAATC+TGG 0.347852 6:-5936412 MsaT030289.1:CDS
CTGTATTCCACCAGCTTGCT+TGG 0.359827 6:+5936357 None:intergenic
AACGGGATGTTTAGCGTGTA+TGG 0.363695 6:-5936569 MsaT030289.1:CDS
TAGTGTTGGTAGCGGGATGA+TGG 0.379857 6:+5937389 None:intergenic
TGGTCGGAGACGGCGGCGGC+GGG 0.433188 6:+5937361 None:intergenic
CGAATTACCTTGAAACCAAA+AGG 0.440066 6:-5936306 MsaT030289.1:CDS
GTTGCCATTGTTGTTGATCA+AGG 0.451321 6:-5937328 MsaT030289.1:intron
AACAACAATGGCAACGACGC+TGG 0.455535 6:+5937336 None:intergenic
ACAAGCATCGCAAATTGTCT+TGG 0.464528 6:-5936425 MsaT030289.1:CDS
AGTGTTGGTAGCGGGATGAT+GGG 0.467292 6:+5937390 None:intergenic
CCCGTTCTAATTTCTGCTCT+AGG 0.484916 6:+5936586 None:intergenic
ACAACAATGGCAACGACGCT+GGG 0.492706 6:+5937337 None:intergenic
GGTTCGTTAGTGTTGGTAGC+GGG 0.498876 6:+5937382 None:intergenic
TGCCAACAATGTACCTCACT+TGG 0.498928 6:-5936797 MsaT030289.1:CDS
TTCCAAGTGAGGTACATTGT+TGG 0.502644 6:+5936795 None:intergenic
CAAGCATCGCAAATTGTCTT+GGG 0.503047 6:-5936424 MsaT030289.1:CDS
CGAATCATATGAACTTGCTC+AGG 0.505518 6:+5936472 None:intergenic
TGGTTTCAAGGTAATTCGTA+AGG 0.511193 6:+5936311 None:intergenic
AGGAAGCAGTCACTAAAGTA+AGG 0.513310 6:-5936286 None:intergenic
CCTAGAGCAGAAATTAGAAC+GGG 0.514531 6:-5936586 MsaT030289.1:CDS
GGGATGGTCGGAGACGGCGG+CGG 0.517961 6:+5937357 None:intergenic
GGAAATGAAGTTTGATTCTG+AGG 0.518232 6:-5936776 MsaT030289.1:CDS
GACAAAAGACGTCAACCAAA+AGG 0.519618 6:-5936613 MsaT030289.1:CDS
GGCAACGACGCTGGGATGGT+CGG 0.521595 6:+5937345 None:intergenic
CAATGGCAACGACGCTGGGA+TGG 0.532998 6:+5937341 None:intergenic
CTTGCTCAGGTTGAAGTTGG+TGG 0.533039 6:+5936485 None:intergenic
GCTGGGATGGTCGGAGACGG+CGG 0.539521 6:+5937354 None:intergenic
CAAAATGTGCAACGCGGACA+AGG 0.541485 6:-5936826 MsaT030289.1:CDS
GGCGGCGGGTTCGTTAGTGT+TGG 0.541693 6:+5937375 None:intergenic
GCCTAGAGCAGAAATTAGAA+CGG 0.562387 6:-5936587 MsaT030289.1:CDS
GGGTTCGTTAGTGTTGGTAG+CGG 0.570528 6:+5937381 None:intergenic
GACGCTGGGATGGTCGGAGA+CGG 0.576079 6:+5937351 None:intergenic
GAACTTGCTCAGGTTGAAGT+TGG 0.578098 6:+5936482 None:intergenic
TATATATCCAAGCAAGCTGG+TGG 0.588298 6:-5936364 MsaT030289.1:CDS
GAATATATATCCAAGCAAGC+TGG 0.590655 6:-5936367 MsaT030289.1:CDS
GCTGGTGGAATACAGACAGT+TGG 0.597501 6:-5936349 MsaT030289.1:CDS
TCAAACTTCATTTCCAAGTG+AGG 0.602359 6:+5936784 None:intergenic
GTGTTGGTAGCGGGATGATG+GGG 0.607110 6:+5937391 None:intergenic
TGCTTCAAAGAGGGTGTACG+AGG 0.626130 6:-5936640 MsaT030289.1:intron
AATGAAGTTTGATTCTGAGG+CGG 0.641025 6:-5936773 MsaT030289.1:CDS
ATTACCTTGATCAACAACAA+TGG 0.644727 6:+5937324 None:intergenic
CATGAACAAAATGTGCAACG+CGG 0.740922 6:-5936832 MsaT030289.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 5936288 5937422 5936288 ID=MsaG030289
Chr6 mRNA 5936288 5937422 5936288 ID=MsaT030289.1;Parent=MsaG030289
Chr6 exon 5936288 5936650 5936288 ID=MsaT030289.1.exon3;Parent=MsaT030289.1
Chr6 CDS 5936288 5936650 5936288 ID=cds.MsaT030289.1;Parent=MsaT030289.1
Chr6 exon 5936696 5936883 5936696 ID=MsaT030289.1.exon2;Parent=MsaT030289.1
Chr6 CDS 5936696 5936883 5936696 ID=cds.MsaT030289.1;Parent=MsaT030289.1
Chr6 exon 5937329 5937422 5937329 ID=MsaT030289.1.exon1;Parent=MsaT030289.1
Chr6 CDS 5937329 5937422 5937329 ID=cds.MsaT030289.1;Parent=MsaT030289.1
Gene Sequence

>MsaT030289.1

ATGAGCGAACCCCATCATCCCGCTACCAACACTAACGAACCCGCCGCCGCCGTCTCCGACCATCCCAGCGTCGTTGCCATTGTTGTTGATCAAGATTGTGTCAATAAATTGGTTAAGAACATTCATGAACAAAATGTGCAACGCGGACAAGGAAGTATTGCCAACAATGTACCTCACTTGGAAATGAAGTTTGATTCTGAGGCGGCAGCTTATGAATTTTATAATGAGTACAATAAAATAATTGGATTTGGTATTCGTCGAGAATATGGAAATAAAAGCAGAGGTGTACGAGGTGTTGACAAAAGACGTCAACCAAAAGGAGAGCCTAGAGCAGAAATTAGAACGGGATGTTTAGCGTGTATGGTTATTTTACTCGATCGGAAGATAGAGAAATATAAAGTTGTTGACTTTATAGCTGAACATAACCACCAACTTCAACCTGAGCAAGTTCATATGATTCGCTCTCATCGACGCATATCTGAGACACAAGCATCGCAAATTGTCTTGGGAGATGAATCTGGATTAAGACCAAAAGATTTGCATGAATATATATCCAAGCAAGCTGGTGGAATACAGACAGTTGGTTTTACAAAAAAAGACCTTACGAATTACCTTGAAACCAAAAGGAAGCAGTCACTAAAGTAA
Protein sequence

>MsaT030289.1

MSEPHHPATNTNEPAAAVSDHPSVVAIVVDQDCVNKLVKNIHEQNVQRGQGSIANNVPHLEMKFDSEAAAYEFYNEYNKIIGFGIRREYGNKSRGVRGVDKRRQPKGEPRAEIRTGCLACMVILLDRKIEKYKVVDFIAEHNHQLQPEQVHMIRSHRRISETQASQIVLGDESGLRPKDLHEYISKQAGGIQTVGFTKKDLTNYLETKRKQSLK*