AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038740

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038740 MtrunA17_Chr7g0249811 94.048 336 17 3 1 334 1 335 0.0 599
MsaG038740 MtrunA17_Chr8g0336681 45.528 246 104 5 115 332 97 340 1.14e-56 187
MsaG038740 MtrunA17_Chr4g0002801 36.986 365 159 11 1 328 1 331 3.53e-52 175
MsaG038740 MtrunA17_Chr2g0333641 36.182 351 154 9 1 326 1 306 5.17e-52 174
MsaG038740 MtrunA17_Chr2g0333621 36.901 355 152 10 1 327 1 311 3.24e-51 172
MsaG038740 MtrunA17_Chr4g0002781 35.121 373 174 11 1 328 1 350 2.64e-49 168
MsaG038740 MtrunA17_Chr5g0400661 35.461 282 133 5 95 327 53 334 7.44e-43 150
MsaG038740 MtrunA17_Chr5g0400621 42.408 191 101 1 148 329 141 331 5.05e-41 146
MsaG038740 MtrunA17_Chr4g0054561 45.251 179 91 2 155 326 146 324 2.07e-40 144
MsaG038740 MtrunA17_Chr4g0049331 40.164 244 123 6 101 323 62 303 4.30e-40 143
MsaG038740 MtrunA17_Chr2g0333611 43.548 186 97 3 153 331 35 219 2.48e-39 138
MsaG038740 MtrunA17_Chr5g0400671 41.243 177 98 1 157 327 147 323 1.55e-38 139
MsaG038740 MtrunA17_Chr4g0054551 43.575 179 94 2 155 326 146 324 4.72e-38 138
MsaG038740 MtrunA17_Chr6g0468491 42.857 182 94 3 152 323 124 305 3.80e-37 135
MsaG038740 MtrunA17_Chr2g0307131 41.176 187 100 2 152 328 166 352 6.19e-37 135
MsaG038740 MtrunA17_Chr4g0054581 38.579 197 106 2 152 334 186 381 2.05e-36 135
MsaG038740 MtrunA17_Chr2g0307141 41.111 180 97 1 163 333 182 361 6.09e-36 133
MsaG038740 MtrunA17_Chr4g0033391 36.792 212 110 4 127 328 120 317 6.89e-35 129
MsaG038740 MtrunA17_Chr7g0225901 38.710 186 98 4 132 308 63 241 3.22e-34 126
MsaG038740 MtrunA17_Chr4g0033291 34.118 255 152 5 90 328 71 325 4.06e-34 127
MsaG038740 MtrunA17_Chr2g0280161 42.442 172 89 2 162 323 175 346 5.81e-33 125
MsaG038740 MtrunA17_Chr2g0333541 44.565 184 88 3 152 323 83 264 5.91e-33 123
MsaG038740 MtrunA17_Chr4g0033281 35.071 211 125 4 132 330 118 328 8.05e-31 119
MsaG038740 MtrunA17_Chr4g0054621 30.000 260 164 5 82 328 84 338 5.84e-30 117
MsaG038740 MtrunA17_Chr4g0054571 35.950 242 123 7 117 328 91 330 2.42e-29 115
MsaG038740 MtrunA17_Chr5g0400641 40.667 150 80 1 167 307 1 150 6.50e-29 109
MsaG038740 MtrunA17_Chr6g0468461 37.037 162 96 2 146 307 156 311 9.05e-26 105
MsaG038740 MtrunA17_Chr4g0002851 38.000 150 83 3 174 323 53 192 9.92e-23 94.0
MsaG038740 MtrunA17_Chr7g0233441 37.143 140 81 2 187 323 57 192 2.67e-22 92.8
MsaG038740 MtrunA17_Chr4g0002831 37.748 151 91 3 174 323 52 200 2.29e-20 87.8
MsaG038740 MtrunA17_Chr8g0336671 64.000 50 17 1 148 197 20 68 1.80e-13 65.1
MsaG038740 MtrunA17_Chr8g0346161 25.500 200 127 6 134 313 256 453 2.54e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038740 AT4G37850.2 39.013 223 115 6 118 326 109 324 3.20e-36 133
MsaG038740 AT4G37850.1 39.013 223 115 6 118 326 109 324 3.20e-36 133
MsaG038740 AT2G22770.1 40.609 197 93 2 156 328 124 320 8.85e-36 132
MsaG038740 AT2G22750.2 38.636 264 117 7 73 322 65 297 1.35e-32 123
MsaG038740 AT2G22750.5 38.636 264 117 7 73 322 89 321 2.40e-32 123
MsaG038740 AT2G22750.3 38.636 264 117 7 73 322 93 325 2.59e-32 123
MsaG038740 AT2G22760.1 40.556 180 94 3 157 323 112 291 3.11e-32 122
MsaG038740 AT2G22750.1 39.015 264 115 8 73 322 65 296 8.61e-32 121
MsaG038740 AT2G22750.4 39.015 264 115 8 73 322 93 324 1.27e-31 121
MsaG038740 AT2G22760.2 38.650 163 88 2 157 307 112 274 6.53e-27 107
MsaG038740 AT4G09820.1 31.452 124 74 2 165 288 364 476 2.23e-14 74.3
MsaG038740 AT5G57150.1 28.485 165 99 5 165 311 55 218 2.22e-12 66.6
MsaG038740 AT5G57150.5 28.758 153 91 4 165 299 55 207 2.57e-12 65.9
MsaG038740 AT5G57150.2 28.758 153 91 4 165 299 56 208 2.74e-12 65.9
MsaG038740 AT5G57150.3 28.758 153 91 4 165 299 56 208 2.92e-12 65.9
MsaG038740 AT5G46760.1 22.881 236 154 4 75 291 329 555 8.37e-12 66.6
MsaG038740 AT5G57150.4 27.215 158 87 4 165 299 56 208 1.21e-11 64.7
MsaG038740 AT4G29930.2 25.490 153 112 2 165 316 55 206 2.97e-11 62.8

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGAATTTGATTTCTTATA+TGG 0.194480 7:+80101728 MsaT038740.1:CDS
GCCACATACCTTCTATCTTT+TGG 0.267929 7:+80102156 MsaT038740.1:CDS
CTCCAACTCAATCAAGTCTT+TGG 0.295695 7:+80102110 MsaT038740.1:CDS
TCAAAAGCGCATTAAAGAAT+TGG 0.305540 7:+80103178 MsaT038740.1:CDS
GATTTCCACTTGAATATTGC+TGG 0.322703 7:-80103230 None:intergenic
CATGATACCTGGCTTGAAAA+AGG 0.331924 7:+80102362 MsaT038740.1:CDS
GAAGAGGGTTCACATGATTC+TGG 0.333045 7:-80101928 None:intergenic
GACAGTACAAGATCACTTAA+TGG 0.377290 7:+80102287 MsaT038740.1:CDS
TGTGACATTGGTTCAATGAT+TGG 0.382838 7:-80102195 None:intergenic
AGTTGTTGTACTATTGCCTT+GGG 0.387217 7:-80101971 None:intergenic
CACATGATTCTGGTTCTTCA+AGG 0.387684 7:-80101918 None:intergenic
AAATCTGAGAAAATATCTAT+TGG 0.423346 7:+80104313 MsaT038740.1:CDS
TGTAATCAACATTTGTGCTC+AGG 0.432810 7:+80103448 MsaT038740.1:CDS
TAGTTGTTGTACTATTGCCT+TGG 0.441021 7:-80101972 None:intergenic
TTGAGTTACCAAAAGATAGA+AGG 0.445013 7:-80102164 None:intergenic
AAGCAACAAAGAAGGTTAGA+AGG 0.446951 7:+80102256 MsaT038740.1:CDS
TGGCTGAGAGGAAGAGGAGA+AGG 0.451096 7:+80102307 MsaT038740.1:CDS
GCACTTTCAGCCATGATACC+TGG 0.455730 7:+80102351 MsaT038740.1:CDS
TTCCAAAGACTTGATTGAGT+TGG 0.458779 7:-80102112 None:intergenic
AAAGGACAAAATACTATTTG+TGG 0.476362 7:-80102025 None:intergenic
TGCAACAATGGAGGATTCAC+TGG 0.488783 7:+80101707 None:intergenic
AAGGACAAAATACTATTTGT+GGG 0.492056 7:-80102024 None:intergenic
GGCTGAGAGGAAGAGGAGAA+GGG 0.495214 7:+80102308 MsaT038740.1:CDS
TGAAGCTAGAGTCAAAGAAA+AGG 0.495694 7:+80103301 MsaT038740.1:CDS
ACTTAATGGCTGAGAGGAAG+AGG 0.503095 7:+80102301 MsaT038740.1:CDS
ACAACTATAATAAATGTTGA+AGG 0.516555 7:+80101988 MsaT038740.1:CDS
TCTGAGAAAATATCTATTGG+AGG 0.519320 7:+80104316 MsaT038740.1:CDS
CTTTGTTCCAATAAAACCCA+AGG 0.520956 7:+80101955 MsaT038740.1:CDS
AATCTCAAGCAGTGATTCTG+AGG 0.530393 7:-80103279 None:intergenic
AATTCATTGTGAGAAGCAAA+AGG 0.532564 7:+80103337 MsaT038740.1:CDS
AAAGATAGAAGGTATGTGGC+TGG 0.543699 7:-80102153 None:intergenic
ATTGGAACAAAGATAAGAAG+AGG 0.546112 7:-80101944 None:intergenic
AGTGAAGGAAGCAACAAAGA+AGG 0.546734 7:+80102248 MsaT038740.1:CDS
TGAAGAAGACAGCATGGCCA+TGG 0.560524 7:+80104277 MsaT038740.1:CDS
GACAGATGAAGCAAGAGTGA+AGG 0.560915 7:+80102233 MsaT038740.1:CDS
TGTCACATAAAACTAAAAGA+AGG 0.567489 7:+80102211 MsaT038740.1:CDS
AGTAGTAGCATGTTACCATT+CGG 0.568567 7:+80103413 MsaT038740.1:CDS
ACCAAAAGATAGAAGGTATG+TGG 0.570819 7:-80102157 None:intergenic
TTGCTCATCAAATGTGGTGG+TGG 0.571745 7:-80101875 None:intergenic
CAAATCCAGCAATATTCAAG+TGG 0.578490 7:+80103225 MsaT038740.1:CDS
AAATAAACTTGTCTCATCAA+AGG 0.579876 7:-80102043 None:intergenic
TTGGAACAAAGATAAGAAGA+GGG 0.598491 7:-80101943 None:intergenic
CATGGCCATGGATGACCTTG+TGG 0.614537 7:+80104289 MsaT038740.1:CDS
CTCTTGCTCATCAAATGTGG+TGG 0.624271 7:-80101878 None:intergenic
AAACTCTTGCTCATCAAATG+TGG 0.646764 7:-80101881 None:intergenic
GATGGATGAAGAAGACAGCA+TGG 0.648869 7:+80104271 MsaT038740.1:intron
ACAAGAATAGAAGCACCGAA+TGG 0.665943 7:-80103428 None:intergenic
AAGATCACTTAATGGCTGAG+AGG 0.675984 7:+80102295 MsaT038740.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 80101714 80104358 80101714 ID=MsaG038740
Chr7 mRNA 80101714 80104358 80101714 ID=MsaT038740.1;Parent=MsaG038740
Chr7 exon 80101714 80101749 80101714 ID=MsaT038740.1.exon1;Parent=MsaT038740.1
Chr7 CDS 80101714 80101749 80101714 ID=cds.MsaT038740.1;Parent=MsaT038740.1
Chr7 exon 80101844 80102383 80101844 ID=MsaT038740.1.exon2;Parent=MsaT038740.1
Chr7 CDS 80101844 80102383 80101844 ID=cds.MsaT038740.1;Parent=MsaT038740.1
Chr7 exon 80103128 80103469 80103128 ID=MsaT038740.1.exon3;Parent=MsaT038740.1
Chr7 CDS 80103128 80103469 80103128 ID=cds.MsaT038740.1;Parent=MsaT038740.1
Chr7 exon 80104272 80104358 80104272 ID=MsaT038740.1.exon4;Parent=MsaT038740.1
Chr7 CDS 80104272 80104358 80104272 ID=cds.MsaT038740.1;Parent=MsaT038740.1
Gene Sequence

>MsaT038740.1

ATGGAGGATTCACTGGAGAATTTGATTTCTTATATGGAAATGGAAGATGATGTCTTGAATCAAAGTACCACCACCACATTTGATGAGCAAGAGTTTCTCAAAGATATCATCCTTGAAGAACCAGAATCATGTGAACCCTCTTCTTATCTTTGTTCCAATAAAACCCAAGGCAATAGTACAACAACTATAATAAATGTTGAAGGTGATGCGACTAGTCCCACAAATAGTATTTTGTCCTTTGATGAGACAAGTTTATTTTGTGGTGACTATGAGAATGTTGAAACAAACCACAAAAGTAATAGCTCCAACTCAATCAAGTCTTTGGAAAGATCTTGTGTTTCTTCTCCAGCCACATACCTTCTATCTTTTGGTAACTCAAGTATTGAACCAATCATTGAACCAATGTCACATAAAACTAAAAGAAGGACAGATGAAGCAAGAGTGAAGGAAGCAACAAAGAAGGTTAGAAGGTCATGTGAGACAGTACAAGATCACTTAATGGCTGAGAGGAAGAGGAGAAGGGAATTAACAGAGAATATCATAGCACTTTCAGCCATGATACCTGGCTTGAAAAAGATGGACAAGTGTTATGTACTTAGTGAAGCTGTGAATCACACAAAACAGCTTCAAAAGCGCATTAAAGAATTGGAGAATCAAAATAAAGACAACAAAGCAAATCCAGCAATATTCAAGTGGAAATCTCAAGTTTCATCAAATAAAAAGAAATCCTCAGAATCACTGCTTGAGATTGAAGCTAGAGTCAAAGAAAAGGAAGTACTCATCAGAATTCATTGTGAGAAGCAAAAGGACATAGTGCTTAAAATACATGAATTGCTTGAAAAGTTCAATCTCACTATAACAAGTAGTAGCATGTTACCATTCGGTGCTTCTATTCTTGTAATCAACATTTGTGCTCAGATGGATGAAGAAGACAGCATGGCCATGGATGACCTTGTGGAAAATCTGAGAAAATATCTATTGGAGGCACATGAGAGTCAATTGTGA
Protein sequence

>MsaT038740.1

MEDSLENLISYMEMEDDVLNQSTTTTFDEQEFLKDIILEEPESCEPSSYLCSNKTQGNSTTTIINVEGDATSPTNSILSFDETSLFCGDYENVETNHKSNSSNSIKSLERSCVSSPATYLLSFGNSSIEPIIEPMSHKTKRRTDEARVKEATKKVRRSCETVQDHLMAERKRRRELTENIIALSAMIPGLKKMDKCYVLSEAVNHTKQLQKRIKELENQNKDNKANPAIFKWKSQVSSNKKKSSESLLEIEARVKEKEVLIRIHCEKQKDIVLKIHELLEKFNLTITSSSMLPFGASILVINICAQMDEEDSMAMDDLVENLRKYLLEAHESQL*