AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008010


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008010 MtrunA17_Chr2g0298751 85.246 244 27 1 1 235 1 244 1.16e-149 416
MsaG008010 MtrunA17_Chr8g0365711 32.353 170 107 2 42 211 243 404 1.69e-23 97.8
MsaG008010 MtrunA17_Chr2g0320291 29.319 191 112 5 42 227 132 304 8.43e-20 86.3
MsaG008010 MtrunA17_Chr1g0211081 29.279 222 130 6 12 209 280 498 2.17e-19 86.7
MsaG008010 MtrunA17_Chr4g0028071 32.692 156 92 3 42 196 148 291 1.08e-16 77.8
MsaG008010 MtrunA17_Chr7g0252041 30.645 186 124 3 40 223 283 465 4.54e-16 76.6
MsaG008010 MtrunA17_Chr3g0131691 29.730 185 126 3 39 223 294 474 2.44e-15 74.7
MsaG008010 MtrunA17_Chr4g0049331 26.396 197 123 5 2 196 99 275 2.94e-14 70.9
MsaG008010 MtrunA17_Chr7g0275821 31.126 151 83 5 44 194 253 382 2.27e-13 68.6
MsaG008010 MtrunA17_Chr7g0260841 53.623 69 27 2 44 112 356 419 5.81e-13 67.8
MsaG008010 MtrunA17_Chr8g0366751 51.667 60 29 0 44 103 463 522 1.68e-12 66.2
MsaG008010 MtrunA17_Chr2g0333611 24.405 168 111 3 44 210 46 198 4.23e-12 63.5
MsaG008010 MtrunA17_Chr5g0411341 48.611 72 34 1 44 112 494 565 6.25e-12 64.7
MsaG008010 MtrunA17_Chr8g0346151 50.000 62 24 1 44 105 280 334 7.94e-12 64.3
MsaG008010 MtrunA17_Chr2g0333641 26.768 198 115 6 44 233 138 313 1.31e-11 63.2
MsaG008010 MtrunA17_Chr2g0280161 29.032 155 94 3 44 196 178 318 1.34e-11 63.2
MsaG008010 MtrunA17_Chr4g0048851 35.714 140 62 5 41 155 45 181 2.07e-11 61.2
MsaG008010 MtrunA17_Chr5g0400661 24.786 234 139 9 1 210 97 317 2.76e-11 62.4
MsaG008010 MtrunA17_Chr8g0346161 60.000 45 18 0 44 88 292 336 3.01e-11 62.4
MsaG008010 MtrunA17_Chr1g0185621 47.368 57 30 0 32 88 464 520 3.67e-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
MsaG008010 AT5G57150.1 60.909 220 81 4 13 232 25 239 6.69e-82 245
MsaG008010 AT5G57150.5 63.402 194 66 4 13 206 25 213 1.07e-72 221
MsaG008010 AT5G57150.2 63.542 192 65 4 17 208 30 216 1.74e-72 220
MsaG008010 AT5G57150.3 64.211 190 63 4 17 206 30 214 1.92e-72 220
MsaG008010 AT4G29930.1 49.200 250 104 4 1 229 1 248 2.28e-72 221
MsaG008010 AT5G57150.4 64.211 190 63 4 17 206 30 214 1.79e-71 219
MsaG008010 AT4G29930.6 49.167 240 93 3 1 229 1 222 5.43e-71 217
MsaG008010 AT4G29930.2 48.750 240 91 3 1 229 1 219 2.59e-70 215
MsaG008010 AT4G29930.3 48.684 228 94 4 1 207 1 226 4.69e-63 197
MsaG008010 AT4G29930.7 48.684 228 94 4 1 207 1 226 4.69e-63 197
MsaG008010 AT4G29930.5 48.165 218 81 3 1 207 1 197 9.81e-61 191
MsaG008010 AT4G29930.4 47.429 175 69 4 1 154 1 173 9.55e-41 138
MsaG008010 AT2G28160.2 32.278 158 91 4 42 196 130 274 4.84e-18 81.6
MsaG008010 AT2G28160.1 32.278 158 91 4 42 196 130 274 6.17e-18 81.6
MsaG008010 AT1G12860.1 30.978 184 120 3 40 223 264 440 1.66e-15 75.5
MsaG008010 AT3G26744.1 29.570 186 124 3 40 223 304 484 5.63e-15 73.9
MsaG008010 AT3G26744.4 29.570 186 124 3 40 223 304 484 5.63e-15 73.9
MsaG008010 AT3G26744.2 29.570 186 124 3 40 223 304 484 5.63e-15 73.9
MsaG008010 AT2G16910.1 29.570 186 116 4 42 216 313 494 1.61e-14 72.8
MsaG008010 AT1G01260.1 55.738 61 27 0 44 104 434 494 1.75e-14 72.8
MsaG008010 AT1G01260.2 55.738 61 27 0 44 104 434 494 1.75e-14 72.8
MsaG008010 AT1G01260.3 55.738 61 27 0 44 104 434 494 1.75e-14 72.8
MsaG008010 AT3G26744.6 31.875 160 102 3 40 197 304 458 4.49e-14 71.2
MsaG008010 AT2G46510.1 58.182 55 23 0 44 98 396 450 1.13e-13 70.1
MsaG008010 AT1G12860.2 32.278 158 100 2 40 197 264 414 3.65e-13 68.6
MsaG008010 AT4G37850.2 29.444 180 107 6 44 219 153 316 5.57e-13 67.4
MsaG008010 AT4G37850.1 29.444 180 107 6 44 219 153 316 5.57e-13 67.4
MsaG008010 AT5G46760.1 35.256 156 80 8 44 193 416 556 6.58e-13 68.2
MsaG008010 AT1G32640.1 55.000 60 25 1 44 103 453 510 1.18e-12 67.4
MsaG008010 AT4G16430.1 56.364 55 24 0 44 98 321 375 1.42e-12 67.0
MsaG008010 AT4G17880.1 30.625 160 78 4 44 193 417 553 1.22e-11 64.3
MsaG008010 AT5G46830.1 28.804 184 106 4 44 219 344 510 1.26e-11 63.9

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGATAATGGAACTTGAATT+TGG 0.174122 2:-26527414 MsaT008010.1:CDS
CTGATTTGTTCTCTTCTTCT+TGG 0.191764 2:+26527329 None:intergenic
GGATAAAGCTTCAATTATTA+AGG 0.255192 2:-26527490 MsaT008010.1:CDS
GGATTGGATGAGGCTTTAAC+AGG 0.339402 2:-26528024 MsaT008010.1:CDS
ATGTTTACCTTGCTAATGTT+TGG 0.350291 2:+26527877 None:intergenic
GGTTATTCAAGCTGAGATAA+TGG 0.356832 2:-26527427 MsaT008010.1:CDS
TGTTTACCTTGCTAATGTTT+GGG 0.357210 2:+26527878 None:intergenic
GCACTTCATTAGATGCTCAT+AGG 0.359003 2:+26521598 None:intergenic
GCCTGAGAAAGAGGATATAT+TGG 0.364460 2:+26526139 None:intergenic
TTGTGGTTGCAGTTGGGGAT+TGG 0.368783 2:-26528040 MsaT008010.1:intron
TTTACCTCAAGGACTTCAAT+TGG 0.374167 2:+26527276 None:intergenic
TAAGAGTTGCAATGGCTGTT+TGG 0.389325 2:+26521635 None:intergenic
CACTTCATTAGATGCTCATA+GGG 0.407342 2:+26521599 None:intergenic
TAGATGCTCATAGGGCTTAG+AGG 0.411365 2:+26521607 None:intergenic
TTGCAGTTGGGGATTGGATG+AGG 0.422701 2:-26528034 MsaT008010.1:intron
GTGCTGAGTACAACCCTTAC+CGG 0.425637 2:-26528174 MsaT008010.1:CDS
ACATTGTCTCTGAGAGGAAC+AGG 0.441534 2:-26527945 MsaT008010.1:CDS
TACATGTTGGTCTCCCGGTA+AGG 0.449399 2:+26528160 None:intergenic
AGATAATGGAACTTGAATTT+GGG 0.453081 2:-26527413 MsaT008010.1:CDS
TGAGCATGACATGTAACAAA+AGG 0.468788 2:-26526223 MsaT008010.1:CDS
GCGGATGGTGCAGCATCATC+AGG 0.473222 2:-26527982 MsaT008010.1:CDS
GCCAATATATCCTCTTTCTC+AGG 0.477840 2:-26526140 MsaT008010.1:CDS
ACACATGGAAGAGAATATAA+TGG 0.483631 2:-26526249 MsaT008010.1:CDS
CGAAAGCCTGCCTGAGAAAG+AGG 0.487286 2:+26526130 None:intergenic
TTACCTACATGTTGGTCTCC+CGG 0.526666 2:+26528155 None:intergenic
AAGAGCTTCCTGTGTTGCTA+AGG 0.527358 2:-26527353 MsaT008010.1:CDS
ACATGTTGGTCTCCCGGTAA+GGG 0.528733 2:+26528161 None:intergenic
ATATATCCTCTTTCTCAGGC+AGG 0.530610 2:-26526136 MsaT008010.1:CDS
ACTCTTGCATGAGCAAGAAA+AGG 0.532981 2:-26527448 MsaT008010.1:CDS
TGATGATGCTGCACCATCCG+CGG 0.544506 2:+26527984 None:intergenic
GAGCATGACATGTAACAAAA+GGG 0.547151 2:-26526222 MsaT008010.1:CDS
CTTTCCAATTGAAGTCCTTG+AGG 0.548914 2:-26527280 MsaT008010.1:intron
AGGGTCATTAAGAGTTGCAA+TGG 0.565369 2:+26521627 None:intergenic
TTCTTGGACCTTAGCAACAC+AGG 0.566724 2:+26527345 None:intergenic
CTCAGCACCAATGTTCTCCA+TGG 0.577641 2:+26528189 None:intergenic
AGATGCTCATAGGGCTTAGA+GGG 0.580755 2:+26521608 None:intergenic
TGCTGAGTACAACCCTTACC+GGG 0.581537 2:-26528173 MsaT008010.1:CDS
TTCGAAGACAGTCTTCATTG+AGG 0.583420 2:-26526111 MsaT008010.1:intron
GCAGCTTAGGGTTACACACA+TGG 0.606797 2:-26526264 MsaT008010.1:intron
TTAACAACCATGGAGAACAT+TGG 0.610292 2:-26528196 None:intergenic
TAACAAAAGGGCAGACACAA+TGG 0.615640 2:-26526210 MsaT008010.1:CDS
TATGATTCAAGCTCCGCGGA+TGG 0.621734 2:-26527997 MsaT008010.1:CDS
GATTGGATGAGGCTTTAACA+GGG 0.623983 2:-26528023 MsaT008010.1:CDS
GGACCACTGCTCTAAGTGCA+AGG 0.633774 2:+26527899 None:intergenic
CTAAGAACATTGTCTCTGAG+AGG 0.650410 2:-26527951 MsaT008010.1:CDS
ACTCCTTGCACTTAGAGCAG+TGG 0.656584 2:-26527902 MsaT008010.1:CDS
AGTGGTCCCAAACATTAGCA+AGG 0.661525 2:-26527884 MsaT008010.1:intron
TTGTCTCTGAGAGGAACAGG+AGG 0.687982 2:-26527942 MsaT008010.1:CDS
GTATTATGATTCAAGCTCCG+CGG 0.725456 2:-26528001 MsaT008010.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 26521606 26528209 26521606 ID=MsaG008010
Chr2 mRNA 26521606 26528209 26521606 ID=MsaT008010.1;Parent=MsaG008010
Chr2 exon 26521606 26521695 26521606 ID=MsaT008010.1.exon5;Parent=MsaT008010.1
Chr2 CDS 26521606 26521695 26521606 ID=cds.MsaT008010.1;Parent=MsaT008010.1
Chr2 exon 26526112 26526282 26526112 ID=MsaT008010.1.exon4;Parent=MsaT008010.1
Chr2 CDS 26526112 26526282 26526112 ID=cds.MsaT008010.1;Parent=MsaT008010.1
Chr2 exon 26527281 26527514 26527281 ID=MsaT008010.1.exon3;Parent=MsaT008010.1
Chr2 CDS 26527281 26527514 26527281 ID=cds.MsaT008010.1;Parent=MsaT008010.1
Chr2 exon 26527885 26528050 26527885 ID=MsaT008010.1.exon2;Parent=MsaT008010.1
Chr2 CDS 26527885 26528050 26527885 ID=cds.MsaT008010.1;Parent=MsaT008010.1
Chr2 exon 26528163 26528209 26528163 ID=MsaT008010.1.exon1;Parent=MsaT008010.1
Chr2 CDS 26528163 26528209 26528163 ID=cds.MsaT008010.1;Parent=MsaT008010.1
Gene Sequence

>MsaT008010.1

ATGGAGAACATTGGTGCTGAGTACAACCCTTACCGGGAGACCAACATTTGGGGATTGGATGAGGCTTTAACAGGGTATTATGATTCAAGCTCCGCGGATGGTGCAGCATCATCAGGAGTTTCATCTAAGAACATTGTCTCTGAGAGGAACAGGAGGAATAAGCTTAATGAAAGACTCCTTGCACTTAGAGCAGTGGTCCCAAACATTAGCAAGATGGATAAAGCTTCAATTATTAAGGATGCTATTGAGTACATACAACTCTTGCATGAGCAAGAAAAGGTTATTCAAGCTGAGATAATGGAACTTGAATTTGGGATGCCTAATAATATTAATCAAAACTATGATTTTGATCAAGAGCTTCCTGTGTTGCTAAGGTCCAAGAAGAAGAGAACAAATCAGTTATATGATTCTATCAGTACAAGAAACTTTCCAATTGAAGTCCTTGAGCTTAGGGTTACACACATGGAAGAGAATATAATGGTAGTGAGCATGACATGTAACAAAAGGGCAGACACAATGGTAAAATTGTGTGAAGTTTTCGAATCTTTGAAGCTCAAAATTATTACTGCCAATATATCCTCTTTCTCAGGCAGGCTTTCGAAGACAGTCTTCATTGAGGCAAATGAGGAAGATAAAGATCTATTGCAAATGAAGATCCAAACAGCCATTGCAACTCTTAATGACCCTCTAAGCCCTATGAGCATCTAA

Protein sequence

>MsaT008010.1

MENIGAEYNPYRETNIWGLDEALTGYYDSSSADGAASSGVSSKNIVSERNRRNKLNERLLALRAVVPNISKMDKASIIKDAIEYIQLLHEQEKVIQAEIMELEFGMPNNINQNYDFDQELPVLLRSKKKRTNQLYDSISTRNFPIEVLELRVTHMEENIMVVSMTCNKRADTMVKLCEVFESLKLKIITANISSFSGRLSKTVFIEANEEDKDLLQMKIQTAIATLNDPLSPMSI*