AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004600


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004600 MtrunA17_Chr1g0198751 60.131 459 97 5 4 377 6 463 0.0 532
MsaG004600 MtrunA17_Chr1g0198741 76.408 284 32 4 112 376 8 275 2.21e-151 429
MsaG004600 MtrunA17_Chr5g0422431 55.378 437 133 10 1 381 1 431 3.24e-150 432
MsaG004600 MtrunA17_Chr7g0227071 53.271 214 98 1 6 217 5 218 4.44e-78 249
MsaG004600 MtrunA17_Chr2g0282871 54.762 210 92 2 30 236 25 234 1.30e-71 226
MsaG004600 MtrunA17_Chr4g0046431 45.878 279 131 8 14 275 19 294 1.01e-69 222
MsaG004600 MtrunA17_Chr8g0389661 51.131 221 98 4 34 246 27 245 5.76e-68 223
MsaG004600 MtrunA17_Chr4g0040541 55.080 187 79 2 35 216 24 210 2.34e-65 209
MsaG004600 MtrunA17_Chr8g0367761 52.195 205 90 4 14 210 19 223 8.52e-65 207
MsaG004600 MtrunA17_Chr2g0324961 55.914 186 78 2 35 216 25 210 1.81e-60 197
MsaG004600 MtrunA17_Chr6g0484441 33.333 180 89 10 55 226 4 160 1.65e-15 77.0
MsaG004600 MtrunA17_Chr2g0318101 36.000 150 70 10 54 196 13 143 1.11e-12 68.6
MsaG004600 MtrunA17_Chr1g0147421 31.765 170 93 9 56 218 27 180 1.22e-11 65.5
MsaG004600 MtrunA17_Chr8g0359921 34.752 141 76 6 56 195 14 139 2.02e-11 64.7
MsaG004600 MtrunA17_Chr6g0453451 34.507 142 75 6 56 195 20 145 3.44e-11 63.9
MsaG004600 MtrunA17_Chr3g0139331 30.675 163 91 9 56 212 11 157 6.09e-11 63.5
MsaG004600 MtrunA17_Chr3g0124761 35.417 144 72 8 56 196 7 132 6.14e-11 62.8
MsaG004600 MtrunA17_Chr4g0018391 24.891 229 142 9 56 276 7 213 6.61e-11 63.2
MsaG004600 MtrunA17_Chr7g0217711 32.468 154 86 7 44 195 7 144 9.07e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004600 AT1G25580.1 60.700 257 90 3 1 251 1 252 1.33e-109 329
MsaG004600 AT3G01600.1 51.339 224 104 3 5 226 4 224 1.19e-72 231
MsaG004600 AT5G14490.2 52.093 215 100 2 3 215 2 215 3.47e-71 225
MsaG004600 AT5G14490.4 52.093 215 100 2 3 215 2 215 3.58e-71 227
MsaG004600 AT5G14490.1 52.113 213 99 2 5 215 7 218 1.46e-70 226
MsaG004600 AT5G14490.3 52.113 213 99 2 5 215 7 218 2.80e-70 225
MsaG004600 AT4G29230.3 56.250 192 73 3 34 216 28 217 4.81e-70 227
MsaG004600 AT4G29230.1 56.250 192 73 3 34 216 28 217 1.88e-69 227
MsaG004600 AT4G29230.2 55.729 192 73 3 34 216 28 216 1.62e-68 224
MsaG004600 AT1G28470.1 50.679 221 98 3 7 221 28 243 2.66e-67 216
MsaG004600 AT5G56620.2 52.308 195 80 3 34 216 22 215 8.95e-65 212
MsaG004600 AT5G56620.3 52.308 195 80 3 34 216 22 215 1.10e-64 212
MsaG004600 AT5G56620.1 52.308 195 80 3 34 216 22 215 1.57e-64 211
MsaG004600 AT4G28500.1 49.776 223 98 5 5 216 2 221 3.39e-64 207
MsaG004600 AT3G18400.1 32.544 169 93 7 55 218 4 156 1.24e-13 71.6
MsaG004600 AT5G18270.2 30.041 243 121 14 48 269 13 227 1.37e-13 71.6
MsaG004600 AT5G18270.1 30.041 243 121 14 48 269 13 227 1.96e-13 71.2
MsaG004600 AT5G39610.1 33.721 172 86 7 41 211 10 154 1.19e-12 68.6
MsaG004600 AT1G01720.1 36.111 144 71 8 56 196 7 132 3.46e-12 67.0
MsaG004600 AT3G04420.2 31.056 161 94 7 57 214 4 150 2.12e-11 64.7
MsaG004600 AT1G02230.1 31.361 169 92 8 57 218 4 155 2.30e-11 65.1
MsaG004600 AT3G12910.1 30.864 162 91 8 45 200 9 155 2.87e-11 64.3
MsaG004600 AT1G02220.1 29.375 160 93 6 57 213 4 146 3.00e-11 65.1
MsaG004600 AT3G04420.1 31.056 161 94 7 57 214 4 150 6.74e-11 63.5
MsaG004600 AT5G61430.1 32.000 175 94 8 56 223 16 172 8.81e-11 63.2

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTCTTGGTCTACAAAAT+TGG 0.165705 1:+71558187 None:intergenic
TGCCAGTGTGGTCAAGATTT+TGG 0.220058 1:+71557400 None:intergenic
TATGGTGAGTTTCTTGTTCT+TGG 0.221376 1:+71558174 None:intergenic
ATAGTTGCTTCCGCGGTTTC+AGG 0.226841 1:+71558269 None:intergenic
TCCACAACATGTTGACAATT+AGG 0.244707 1:+71561133 None:intergenic
AGGTTCAGTGGTCGCAAAAT+TGG 0.270772 1:+71558223 None:intergenic
ATTTATCACTACTCTTAAAA+TGG 0.271764 1:-71558771 MsaT004600.1:CDS
CCAGCAGCAGCAAGCCATAT+TGG 0.276087 1:-71558315 MsaT004600.1:CDS
TCGAACCAAGAAAATGTTTC+CGG 0.290852 1:+71557546 None:intergenic
TGACATGCCACTGAATCTAT+TGG 0.299354 1:-71557577 MsaT004600.1:CDS
CATCTGATCAAGAGATAATA+TGG 0.323541 1:-71558850 MsaT004600.1:CDS
TCTTCTAACTGAGGAAGATT+TGG 0.326168 1:+71557693 None:intergenic
GGATCAAATTTAACACCTTT+AGG 0.328542 1:+71558872 None:intergenic
CCACAACATGTTGACAATTA+GGG 0.332418 1:+71561134 None:intergenic
ATGTCTTTCTTTAACTGCTC+TGG 0.340220 1:+71557432 None:intergenic
GAATCTATTGGATTCACTTC+CGG 0.358496 1:-71557565 MsaT004600.1:CDS
TGTTCTTGGTCTACAAAATT+GGG 0.368626 1:+71558188 None:intergenic
GTACACTTGCAACCGCTATA+AGG 0.374099 1:-71561213 MsaT004600.1:CDS
CAGCAGCAGCAAGCCATATT+GGG 0.389779 1:-71558314 MsaT004600.1:CDS
TATAAGCTTTCACTGCTCTA+TGG 0.392319 1:+71558588 None:intergenic
CTTTATATGTTTCCAGAGAA+TGG 0.394253 1:-71558437 MsaT004600.1:CDS
TGAACTCCGTTCAAGAAGAT+AGG 0.395219 1:+71558485 None:intergenic
CCAATATGGCTTGCTGCTGC+TGG 0.415718 1:+71558315 None:intergenic
ACCGCTATAAGGTGTGCATC+TGG 0.428125 1:-71561202 MsaT004600.1:CDS
TATGTCCGCTGGCACAAGAC+TGG 0.431620 1:-71558518 MsaT004600.1:CDS
GGTTCAGTGGTCGCAAAATT+GGG 0.435686 1:+71558224 None:intergenic
GCAGTGAAAGCTTATAGTAC+TGG 0.438200 1:-71558581 MsaT004600.1:CDS
CGACATTCGATTAAGTCAAC+TGG 0.441693 1:-71557352 MsaT004600.1:intron
AGAATGGCTACTTAATAGTC+AGG 0.475425 1:-71557673 MsaT004600.1:CDS
TTAACACCTTTAGGAAGTCC+AGG 0.482399 1:+71558881 None:intergenic
AATATAGGTGTTTCACAAGA+TGG 0.488029 1:-71558629 MsaT004600.1:intron
CAGAAGAGGATGAGAGGGAA+GGG 0.488806 1:-71558364 MsaT004600.1:CDS
GTTATGCATCAGTATCATCT+TGG 0.493181 1:-71558389 MsaT004600.1:CDS
CTTTCGACATATGATCATCT+AGG 0.495768 1:-71557456 MsaT004600.1:CDS
TAGAAACTCAATTTCATGTA+GGG 0.504338 1:-71557611 MsaT004600.1:CDS
ACTCATCCTCAGCATTTGCC+AGG 0.505505 1:-71558731 MsaT004600.1:intron
TTTCCAGAGAATGGAGGAAA+AGG 0.510158 1:-71558428 MsaT004600.1:CDS
ACTACTCTTAAAATGGATGA+TGG 0.510952 1:-71558764 MsaT004600.1:CDS
ACAAAATTGGGACTGATAAG+AGG 0.512652 1:+71558200 None:intergenic
GTGATAAATGCATCGATGAA+AGG 0.516322 1:+71558785 None:intergenic
AAGAGTTTGCTTATGTCCGC+TGG 0.517104 1:-71558529 MsaT004600.1:CDS
TGATAAATGCATCGATGAAA+GGG 0.518562 1:+71558786 None:intergenic
ACAGAAGAGGATGAGAGGGA+AGG 0.522455 1:-71558365 MsaT004600.1:CDS
CGAAAGCGGCGAAGAATATG+TGG 0.522848 1:-71558554 MsaT004600.1:CDS
TAGCGGTTGCAAGTGTACTT+TGG 0.525421 1:+71561218 None:intergenic
TTCTTGAACGGAGTTCAGAA+AGG 0.529603 1:-71558479 MsaT004600.1:CDS
ATCTTCCTCAGTTAGAAGAA+TGG 0.529692 1:-71557689 MsaT004600.1:CDS
CAATTAGGGCACGCTCTGGT+AGG 0.534555 1:+71561148 None:intergenic
CATATTATCTCTTGATCAGA+TGG 0.535616 1:+71558851 None:intergenic
TGGCACTTGCTTGCAAAAGT+TGG 0.539348 1:-71558830 MsaT004600.1:CDS
TCAAAAGATGCAGTTGCAGA+AGG 0.542148 1:+71557187 None:intergenic
TCTTTCCAGTCTTGTGCCAG+CGG 0.546974 1:+71558513 None:intergenic
TTGACAATTAGGGCACGCTC+TGG 0.548349 1:+71561144 None:intergenic
GAGTGGCCTGGACTTCCTAA+AGG 0.554416 1:-71558887 MsaT004600.1:CDS
ATGCAGACCATCGTGGTTGG+TGG 0.556083 1:-71561242 MsaT004600.1:intron
GTAGAAACTCAATTTCATGT+AGG 0.560253 1:-71557612 MsaT004600.1:CDS
TGGAACAGAAGAGGATGAGA+GGG 0.560783 1:-71558369 MsaT004600.1:CDS
TCACAGGAGCTATATCGACT+AGG 0.561856 1:-71557219 MsaT004600.1:CDS
CCCTAATTGTCAACATGTTG+TGG 0.563512 1:-71561134 MsaT004600.1:CDS
AGAAACTCACCATATTCCTC+AGG 0.572055 1:-71558165 MsaT004600.1:intron
TTGCTTGCAAAAGTTGGTGA+AGG 0.575602 1:-71558824 MsaT004600.1:CDS
TAGGTAACACAAGAGTGGCC+TGG 0.577846 1:-71558899 MsaT004600.1:CDS
CACAGGAGCTATATCGACTA+GGG 0.578105 1:-71557218 MsaT004600.1:CDS
ATAGTCAGGATGACTGTGAA+GGG 0.580319 1:-71557659 MsaT004600.1:CDS
ACTAAACCTATCTTCTTGAA+CGG 0.586510 1:-71558491 MsaT004600.1:CDS
CTTATAGGAATTCAGCTCAC+AGG 0.592344 1:-71557235 MsaT004600.1:intron
TTGGAACAGAAGAGGATGAG+AGG 0.602637 1:-71558370 MsaT004600.1:CDS
AATAGTCAGGATGACTGTGA+AGG 0.603938 1:-71557660 MsaT004600.1:CDS
TGAAATTGAGTTTCTACCGT+CGG 0.610371 1:+71557618 None:intergenic
CAGTTGACTTAATCGAATGT+CGG 0.615405 1:+71557353 None:intergenic
AATGCATCGATGAAAGGGTG+AGG 0.617026 1:+71558791 None:intergenic
GTATCATCTTGGAACAGAAG+AGG 0.624650 1:-71558378 MsaT004600.1:CDS
AGTAGCCATTCTTCTAACTG+AGG 0.625387 1:+71557684 None:intergenic
ATTCGCAATAGTTGCTTCCG+CGG 0.627295 1:+71558262 None:intergenic
TCCAGATGCACACCTTATAG+CGG 0.632029 1:+71561201 None:intergenic
CAAGCTCTACATTGCCAGTG+TGG 0.632863 1:+71557388 None:intergenic
TATATGCAGACCATCGTGGT+TGG 0.636765 1:-71561245 MsaT004600.1:intron
TCAAGATGTTCCTGAAACCG+CGG 0.637589 1:-71558279 MsaT004600.1:CDS
AGTGAATCCAATAGATTCAG+TGG 0.638302 1:+71557570 None:intergenic
AGAGCAGTTAAAGAAAGACA+TGG 0.639913 1:-71557430 MsaT004600.1:CDS
GTTGTTAGGTAACACAAGAG+TGG 0.643631 1:-71558904 MsaT004600.1:intron
TATCCACCTGGCAAATGCTG+AGG 0.644206 1:+71558725 None:intergenic
ATAGTACTGGAAGTCGAAAG+CGG 0.647551 1:-71558568 MsaT004600.1:CDS
ACTGATAAGAGGAGGTTCAG+TGG 0.655003 1:+71558211 None:intergenic
CTTATATATGCAGACCATCG+TGG 0.659760 1:-71561249 MsaT004600.1:intron
TCCGAAAATTGATCTACCGA+CGG 0.660122 1:-71557634 MsaT004600.1:CDS
TATATGTTTCCAGAGAATGG+AGG 0.668040 1:-71558434 MsaT004600.1:CDS
TGCCAAAATCTTGACCACAC+TGG 0.683464 1:-71557402 MsaT004600.1:CDS
CTTTGGTCCACCAACCACGA+TGG 0.684049 1:+71561235 None:intergenic
AAATTGGGACTGATAAGAGG+AGG 0.689769 1:+71558203 None:intergenic
AGGAGCTATATCGACTAGGG+TGG 0.690179 1:-71557215 MsaT004600.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 71557180 71562874 71557180 ID=MsaG004600
Chr1 mRNA 71557180 71562874 71557180 ID=MsaT004600.1;Parent=MsaG004600
Chr1 exon 71557180 71557242 71557180 ID=MsaT004600.1.exon7;Parent=MsaT004600.1
Chr1 CDS 71557180 71557242 71557180 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71557353 71557479 71557353 ID=MsaT004600.1.exon6;Parent=MsaT004600.1
Chr1 CDS 71557353 71557479 71557353 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71557528 71557721 71557528 ID=MsaT004600.1.exon5;Parent=MsaT004600.1
Chr1 CDS 71557528 71557721 71557528 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71558166 71558644 71558166 ID=MsaT004600.1.exon4;Parent=MsaT004600.1
Chr1 CDS 71558166 71558644 71558166 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71558732 71558918 71558732 ID=MsaT004600.1.exon3;Parent=MsaT004600.1
Chr1 CDS 71558732 71558918 71558732 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71561123 71561258 71561123 ID=MsaT004600.1.exon2;Parent=MsaT004600.1
Chr1 CDS 71561123 71561258 71561123 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Chr1 exon 71562867 71562874 71562867 ID=MsaT004600.1.exon1;Parent=MsaT004600.1
Chr1 CDS 71562867 71562874 71562867 ID=cds.MsaT004600.1;Parent=MsaT004600.1
Gene Sequence

>MsaT004600.1

ATGGCTGAACCATCGTGGTTGGTGGACCAAAGTACACTTGCAACCGCTATAAGGTGTGCATCTGGAATGACCGCAAAAGTTACATCAGAAAGTAATCCTACCAGAGCGTGCCCTAATTGTCAACATGTTGTGGACAATACTCATGTAACACAAGAGTGGCCTGGACTTCCTAAAGGTGTTAAATTTGATCCATCTGATCAAGAGATAATATGGCACTTGCTTGCAAAAGTTGGTGAAGGAAGTTCAAAACCTCACCCTTTCATCGATGCATTTATCACTACTCTTAAAATGGATGATGGCATTTGTTATACTCATCCTCAGCATTTGCCAGGTGTTTCACAAGATGGAATTGTTTCACACTTTTTCCATAGAGCAGTGAAAGCTTATAGTACTGGAAGTCGAAAGCGGCGAAGAATATGTGGTCAAGAGTTTGCTTATGTCCGCTGGCACAAGACTGGAAAGACTAAACCTATCTTCTTGAACGGAGTTCAGAAAGGCTGCAAAAAGATTATGGTTCTTTATATGTTTCCAGAGAATGGAGGAAAAGGTGCAAAAACTAACTGGGTTATGCATCAGTATCATCTTGGAACAGAAGAGGATGAGAGGGAAGGGAACTATGTTATATCTAAAGTATTTTACCAGCAGCAGCAAGCCATATTGGGAAGAAAAGATGATCAAGATGTTCCTGAAACCGCGGAAGCAACTATTGCGAATGTTGATCTTGTCACTCCCAATTTTGCGACCACTGAACCTCCTCTTATCAGTCCCAATTTTGTAGACCAAGAACAAGAAACTCACCATATTCCTCAGATTCTACCAAATCTTCCTCAGTTAGAAGAATGGCTACTTAATAGTCAGGATGACTGTGAAGGGCTTCCGAAAATTGATCTACCGACGGTAGAAACTCAATTTCATGTAGGGATTAATAACATTGACATGCCACTGAATCTATTGGATTCACTTCCGGAAACATTTTCTTGGTTCGAATATTTATTTCAAAGCCATCTTTCGACATATGATCATCTAGGACCAGAGCAGTTAAAGAAAGACATGGAAGAGTGCCAAAATCTTGACCACACTGGCAATGTAGAGCTTGACTCAGAATCTTCCGACATTCGATTAAGTCAACTGCTCACAGGAGCTATATCGACTAGGGTGGTAATGCCTTCTGCAACTGCATCTTTTGATAAATAG

Protein sequence

>MsaT004600.1

MAEPSWLVDQSTLATAIRCASGMTAKVTSESNPTRACPNCQHVVDNTHVTQEWPGLPKGVKFDPSDQEIIWHLLAKVGEGSSKPHPFIDAFITTLKMDDGICYTHPQHLPGVSQDGIVSHFFHRAVKAYSTGSRKRRRICGQEFAYVRWHKTGKTKPIFLNGVQKGCKKIMVLYMFPENGGKGAKTNWVMHQYHLGTEEDEREGNYVISKVFYQQQQAILGRKDDQDVPETAEATIANVDLVTPNFATTEPPLISPNFVDQEQETHHIPQILPNLPQLEEWLLNSQDDCEGLPKIDLPTVETQFHVGINNIDMPLNLLDSLPETFSWFEYLFQSHLSTYDHLGPEQLKKDMEECQNLDHTGNVELDSESSDIRLSQLLTGAISTRVVMPSATASFDK*