AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026080

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026080 MtrunA17_Chr5g0409841 85.532 235 27 3 1 230 1 233 8.75e-138 385
MsaG026080 MtrunA17_Chr5g0440731 60.791 278 59 3 1 228 17 294 3.65e-102 298
MsaG026080 MtrunA17_Chr5g0440741 60.072 278 56 4 1 228 17 289 3.37e-98 287
MsaG026080 MtrunA17_Chr5g0409831 64.167 240 63 5 1 228 1 229 8.66e-93 271
MsaG026080 MtrunA17_Chr1g0210471 38.889 162 77 6 41 197 76 220 4.12e-25 99.0
MsaG026080 MtrunA17_Chr1g0162081 51.579 95 39 2 75 164 104 196 5.71e-25 99.8
MsaG026080 MtrunA17_Chr5g0436501 42.424 165 74 5 37 186 75 233 8.51e-25 98.6
MsaG026080 MtrunA17_Chr3g0104071 47.009 117 54 2 84 200 143 251 3.64e-23 95.5
MsaG026080 MtrunA17_Chr7g0241761 47.500 120 50 4 84 201 136 244 4.23e-23 95.1
MsaG026080 MtrunA17_Chr4g0062741 41.379 116 62 3 84 199 134 243 8.30e-23 94.0
MsaG026080 MtrunA17_Chr5g0429521 62.667 75 25 2 84 157 128 200 1.47e-22 93.6
MsaG026080 MtrunA17_Chr2g0331031 55.556 72 30 1 84 155 105 174 2.19e-21 90.9
MsaG026080 MtrunA17_Chr4g0055931 38.596 114 65 2 43 153 47 158 3.31e-21 90.1
MsaG026080 MtrunA17_Chr3g0135671 48.810 84 42 1 82 164 85 168 1.85e-20 86.3
MsaG026080 MtrunA17_Chr6g0488471 55.714 70 29 1 84 153 93 160 9.26e-20 85.5
MsaG026080 MtrunA17_Chr8g0365011 47.917 96 36 2 81 162 83 178 2.66e-19 84.3
MsaG026080 MtrunA17_Chr8g0389241 57.143 70 27 2 84 153 101 167 7.00e-19 83.2
MsaG026080 MtrunA17_Chr5g0415191 47.674 86 38 1 50 135 71 149 3.85e-18 81.6
MsaG026080 MtrunA17_Chr4g0059701 55.385 65 28 1 71 134 66 130 8.45e-18 80.1
MsaG026080 MtrunA17_Chr8g0364731 54.688 64 29 0 97 160 10 73 1.22e-17 77.8
MsaG026080 MtrunA17_Chr3g0092621 43.421 76 41 1 83 158 79 152 5.44e-17 75.9
MsaG026080 MtrunA17_Chr5g0432921 39.286 140 72 5 37 175 69 196 6.71e-17 76.6
MsaG026080 MtrunA17_Chr1g0192061 49.367 79 38 2 85 162 58 135 2.81e-16 74.3
MsaG026080 MtrunA17_Chr5g0432941 37.903 124 67 4 57 175 78 196 1.14e-15 73.2
MsaG026080 MtrunA17_Chr6g0452791 44.872 78 43 0 90 167 82 159 4.84e-15 70.5
MsaG026080 MtrunA17_Chr8g0370121 43.284 67 38 0 83 149 95 161 1.17e-13 68.2
MsaG026080 MtrunA17_Chr3g0113121 44.444 99 45 4 89 180 96 191 2.33e-13 67.0
MsaG026080 MtrunA17_Chr5g0409951 42.222 90 43 2 4 92 28 109 1.49e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026080 AT5G08520.1 40.876 137 72 3 35 164 58 192 5.84e-25 100
MsaG026080 AT5G58900.1 62.667 75 25 2 84 157 137 209 2.30e-23 95.5
MsaG026080 AT3G10580.2 40.152 132 69 4 72 199 77 202 3.66e-23 94.4
MsaG026080 AT5G04760.1 55.000 80 34 1 76 155 87 164 5.40e-23 93.2
MsaG026080 AT3G10580.1 40.152 132 69 4 72 199 77 202 6.83e-23 94.4
MsaG026080 AT1G49010.1 50.000 86 40 2 80 164 126 209 1.94e-22 93.6
MsaG026080 AT5G61620.1 47.287 129 44 6 78 198 102 214 3.58e-22 92.8
MsaG026080 AT5G23650.1 40.714 140 73 3 71 210 103 232 8.08e-22 92.4
MsaG026080 AT3G11280.2 41.667 132 69 3 74 199 113 242 1.67e-21 90.1
MsaG026080 AT3G11280.1 41.667 132 69 3 74 199 113 242 1.67e-21 90.1
MsaG026080 AT5G47390.1 45.833 96 49 2 80 174 88 181 3.30e-21 90.9
MsaG026080 AT2G38090.1 58.667 75 28 2 84 157 137 209 5.06e-21 89.4
MsaG026080 AT5G01200.1 58.667 75 28 2 84 157 142 214 7.95e-21 88.6
MsaG026080 AT5G56840.1 54.286 70 31 1 84 153 87 155 4.11e-19 83.2
MsaG026080 AT5G05790.2 49.451 91 40 2 73 159 116 204 8.63e-19 83.2
MsaG026080 AT5G05790.1 49.451 91 40 2 73 159 116 204 8.63e-19 83.2
MsaG026080 AT1G19000.2 49.367 79 35 1 61 134 70 148 2.74e-18 82.0
MsaG026080 AT1G19000.1 49.367 79 35 1 61 134 70 148 2.74e-18 82.0
MsaG026080 AT1G74840.2 57.812 64 27 0 71 134 79 142 6.03e-18 80.1
MsaG026080 AT3G16350.1 45.349 86 47 0 50 135 99 184 6.65e-18 82.0
MsaG026080 AT1G74840.1 57.812 64 27 0 71 134 79 142 6.90e-18 80.5
MsaG026080 AT1G70000.1 47.674 86 30 2 65 135 60 145 7.74e-18 80.1
MsaG026080 AT1G70000.2 47.674 86 30 2 65 135 60 145 7.74e-18 80.1
MsaG026080 AT4G09450.1 38.211 123 60 3 35 157 52 158 1.82e-17 78.2
MsaG026080 AT3G10590.1 45.361 97 47 3 62 156 84 176 5.83e-15 71.2

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTATATCTTTCACATTT+TGG 0.095253 5:-16508569 None:intergenic
TGAGAAGATGCGCGACTTAT+TGG 0.189075 5:+16508812 MsaT026080.1:CDS
TGTGATGTATAGGTTGTTTC+TGG 0.210646 5:+16508437 MsaT026080.1:intron
TCCAATCGGTTCTACAATTC+CGG 0.270420 5:+16508776 MsaT026080.1:CDS
TTTGCTTCATGATTTCCTTC+TGG 0.308505 5:-16496465 None:intergenic
TTCTCAAGTTTCTCTATATC+CGG 0.389268 5:-16508795 None:intergenic
GCATGGCTAGCTATTTGAAT+TGG 0.389834 5:-16508528 None:intergenic
ACGTTATTATCATTAGAGTT+TGG 0.391291 5:-16496393 None:intergenic
TGTTGGTCCATGCTACTCTC+AGG 0.426716 5:-16496318 None:intergenic
TTGTGCTTGCTTTGTCCAAT+CGG 0.442636 5:+16508762 MsaT026080.1:CDS
GGATATTTCAAAAGAATTTG+TGG 0.448838 5:+16508494 MsaT026080.1:CDS
TGGAAGGAATCTCATCTTGT+TGG 0.451198 5:-16508665 None:intergenic
GACACTGATGTCGTTGAGTC+GGG 0.460235 5:+16496354 MsaT026080.1:CDS
GAGTTTGGAATTGCGACGGC+AGG 0.472532 5:-16496378 None:intergenic
ATGTGAAAGATATAGAGAAA+AGG 0.501033 5:+16508574 MsaT026080.1:CDS
GATACAAGCTTAAACAAGAA+TGG 0.522087 5:+16508618 MsaT026080.1:CDS
TGTCAAGTATCCCTCGTTGT+TGG 0.525541 5:-16496335 None:intergenic
GTTGGTCCATGCTACTCTCA+GGG 0.529569 5:-16496317 None:intergenic
AAAGAGAGGGCGTAAGGAAA+GGG 0.530997 5:+16496485 MsaT026080.1:CDS
CAAAGAGAGGGCGTAAGGAA+AGG 0.532803 5:+16496484 MsaT026080.1:CDS
TGACACTGATGTCGTTGAGT+CGG 0.533047 5:+16496353 MsaT026080.1:CDS
ATATGGTAAGGGACGTTGGA+AGG 0.542186 5:+16508473 MsaT026080.1:CDS
ATGTATAGGTTGTTTCTGGA+GGG 0.542704 5:+16508441 MsaT026080.1:intron
TGAAGCAAAGAGAGGGCGTA+AGG 0.548372 5:+16496479 MsaT026080.1:CDS
GTCTGCTGCATTCCTTGAGG+AGG 0.549374 5:-16508708 None:intergenic
GGAAATCATGAAGCAAAGAG+AGG 0.559557 5:+16496471 MsaT026080.1:CDS
TCCGGAATTGTAGAACCGAT+TGG 0.561152 5:-16508777 None:intergenic
TGTATAGGTTGTTTCTGGAG+GGG 0.562950 5:+16508442 MsaT026080.1:intron
CAAAATGAGACTCCTCCTCA+AGG 0.570138 5:+16508696 MsaT026080.1:CDS
GGACAAAGCAAGCACAACAT+AGG 0.584982 5:-16508756 None:intergenic
GGCGTAAGGAAAGGGTACAT+TGG 0.585151 5:+16496493 MsaT026080.1:CDS
TAAGGAAAGGGTACATTGGA+CGG 0.593107 5:+16496497 MsaT026080.1:CDS
TTGGTCCATGCTACTCTCAG+GGG 0.607107 5:-16496316 None:intergenic
GATGTATAGGTTGTTTCTGG+AGG 0.607647 5:+16508440 MsaT026080.1:intron
CAAGCTGAGTCAGTGCCAGA+AGG 0.610015 5:+16496450 MsaT026080.1:CDS
GAAAGGGTACATTGGACGGA+AGG 0.614122 5:+16496501 MsaT026080.1:CDS
TGTGTCTGCTGCATTCCTTG+AGG 0.629158 5:-16508711 None:intergenic
ATCATATTGATCTAAATGAG+CGG 0.629575 5:+16496277 MsaT026080.1:CDS
TGGTCCATGCTACTCTCAGG+GGG 0.640410 5:-16496315 None:intergenic
ATTAGAGTTTGGAATTGCGA+CGG 0.644987 5:-16496382 None:intergenic
GAAATCATGAAGCAAAGAGA+GGG 0.647840 5:+16496472 MsaT026080.1:CDS
TCATTTAGATCAATATGATG+AGG 0.668191 5:-16496273 None:intergenic
AGTAGCATGGACCAACAACG+AGG 0.722639 5:+16496324 MsaT026080.1:CDS
GTAGCATGGACCAACAACGA+GGG 0.737047 5:+16496325 MsaT026080.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16496246 16508854 16496246 ID=MsaG026080
Chr5 mRNA 16496246 16508854 16496246 ID=MsaT026080.1;Parent=MsaG026080
Chr5 exon 16496246 16496532 16496246 ID=MsaT026080.1.exon1;Parent=MsaT026080.1
Chr5 CDS 16496246 16496532 16496246 ID=cds.MsaT026080.1;Parent=MsaT026080.1
Chr5 exon 16508449 16508854 16508449 ID=MsaT026080.1.exon2;Parent=MsaT026080.1
Chr5 CDS 16508449 16508854 16508449 ID=cds.MsaT026080.1;Parent=MsaT026080.1
Gene Sequence

>MsaT026080.1

ATGGAAGGAAGAAAAGTTCAACAATTACCTCATCATATTGATCTAAATGAGCGGACTTCAATTCAAGATCCCCCTGAGAGTAGCATGGACCAACAACGAGGGATACTTGACACTGATGTCGTTGAGTCGGGTCCTGCCGTCGCAATTCCAAACTCTAATGATAATAACGTCGCAACTCTAAACTCTAATGATAATAACTTAGTTCAAGCTGAGTCAGTGCCAGAAGGAAATCATGAAGCAAAGAGAGGGCGTAAGGAAAGGGTACATTGGACGGAAGGTGAACATAAGTTGTTTCTGGAGGGGCTAGAAAAATATGGTAAGGGACGTTGGAAGGATATTTCAAAAGAATTTGTGGTGACAAAGACTCCAATTCAAATAGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATATAGAGAAAAGGAAGAAGAGAAGAAGCATTCACGATACAAGCTTAAACAAGAATGGCACACTAGTCACTCTTGCTGTTGACCAACAAGATGAGATTCCTTCCATTGAGCAGCAAAATGAGACTCCTCCTCAAGGAATGCAGCAGACACAAACACAACAAAATGAGATTTCTCCTATGTTGTGCTTGCTTTGTCCAATCGGTTCTACAATTCCGGATATAGAGAAACTTGAGAAGATGCGCGACTTATTGGCAAAAGAACTTCGACGCTAG
Protein sequence

>MsaT026080.1

MEGRKVQQLPHHIDLNERTSIQDPPESSMDQQRGILDTDVVESGPAVAIPNSNDNNVATLNSNDNNLVQAESVPEGNHEAKRGRKERVHWTEGEHKLFLEGLEKYGKGRWKDISKEFVVTKTPIQIASHAQKYFIHQNVKDIEKRKKRRSIHDTSLNKNGTLVTLAVDQQDEIPSIEQQNETPPQGMQQTQTQQNEISPMLCLLCPIGSTIPDIEKLEKMRDLLAKELRR*