AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000452


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000452 MtrunA17_Chr1g0151681 97.175 531 8 1 1 531 1 524 0.0 1061
MsaG000452 MtrunA17_Chr4g0025521 35.739 291 157 7 250 523 217 494 7.06e-48 177
MsaG000452 MtrunA17_Chr3g0141941 38.462 260 150 5 247 500 159 414 1.44e-44 164
MsaG000452 MtrunA17_Chr1g0155681 37.548 261 144 5 252 500 172 425 7.96e-44 164
MsaG000452 MtrunA17_Chr7g0267481 43.005 193 96 4 318 500 239 427 5.04e-43 162
MsaG000452 MtrunA17_Chr8g0373801 38.739 222 120 5 306 517 447 662 1.00e-41 160
MsaG000452 MtrunA17_Chr1g0177751 35.915 284 152 5 251 517 162 432 2.98e-41 157
MsaG000452 MtrunA17_Chr3g0141931 36.842 266 146 7 247 500 162 417 6.92e-41 153
MsaG000452 MtrunA17_Chr5g0403251 38.739 222 117 6 306 518 394 605 2.98e-40 155
MsaG000452 MtrunA17_Chr8g0387321 41.899 179 95 4 325 494 254 432 5.76e-39 150
MsaG000452 MtrunA17_Chr4g0008591 31.541 279 167 7 247 522 193 450 4.47e-37 144
MsaG000452 MtrunA17_Chr7g0240371 37.624 202 117 5 329 525 200 397 1.75e-36 142
MsaG000452 MtrunA17_Chr4g0028701 29.755 326 185 8 247 528 242 567 3.46e-35 140
MsaG000452 MtrunA17_Chr2g0327021 36.923 195 105 3 322 498 312 506 1.02e-33 135
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000452 AT4G32980.1 58.228 316 110 6 191 505 152 446 3.09e-110 337
MsaG000452 AT4G32980.2 58.228 316 110 6 191 505 152 446 3.09e-110 337
MsaG000452 AT2G16400.1 36.918 279 149 7 247 517 111 370 2.24e-43 161
MsaG000452 AT2G27220.1 41.622 185 82 5 324 500 131 297 5.18e-42 156
MsaG000452 AT2G27220.3 41.622 185 82 5 324 500 131 297 5.18e-42 156
MsaG000452 AT1G19700.1 34.799 273 145 7 247 500 162 420 7.01e-42 158
MsaG000452 AT1G19700.3 34.799 273 145 7 247 500 162 420 7.01e-42 158
MsaG000452 AT1G19700.5 34.799 273 145 7 247 500 162 420 7.01e-42 158
MsaG000452 AT1G19700.4 34.799 273 145 7 247 500 162 420 7.01e-42 158
MsaG000452 AT1G19700.2 34.799 273 145 7 247 500 162 420 7.01e-42 158
MsaG000452 AT4G34610.2 32.873 362 199 12 149 500 56 383 1.21e-41 157
MsaG000452 AT4G34610.4 32.873 362 199 12 149 500 56 383 1.21e-41 157
MsaG000452 AT4G34610.3 32.873 362 199 12 149 500 56 383 1.21e-41 157
MsaG000452 AT4G34610.1 32.873 362 199 12 149 500 56 383 1.21e-41 157
MsaG000452 AT1G75410.1 35.632 261 152 6 247 500 164 415 2.47e-41 156
MsaG000452 AT1G75410.2 35.632 261 152 6 247 500 164 415 2.47e-41 156
MsaG000452 AT2G27220.2 42.941 170 71 5 339 500 164 315 1.77e-38 147
MsaG000452 AT1G75430.1 40.314 191 99 3 323 500 83 271 4.94e-38 141
MsaG000452 AT4G36870.2 36.538 208 114 4 305 500 366 567 2.56e-37 147
MsaG000452 AT4G36870.1 36.538 208 114 4 305 500 366 567 2.56e-37 147
MsaG000452 AT2G23760.2 37.255 204 110 4 307 498 294 491 4.80e-36 142
MsaG000452 AT2G23760.1 37.255 204 110 4 307 498 294 491 4.80e-36 142
MsaG000452 AT2G23760.3 37.255 204 110 4 307 498 294 491 4.80e-36 142
MsaG000452 AT5G41410.1 39.899 198 105 5 319 503 267 463 2.36e-35 140
MsaG000452 AT2G27990.1 40.462 173 99 3 328 499 323 492 1.68e-34 137
MsaG000452 AT2G35940.3 29.064 406 239 10 126 492 51 446 6.63e-34 136
MsaG000452 AT2G35940.1 29.064 406 239 10 126 492 51 446 6.63e-34 136
MsaG000452 AT2G35940.2 29.064 406 239 10 126 492 51 446 6.63e-34 136
MsaG000452 AT5G02030.1 36.813 182 100 3 332 498 234 415 1.14e-29 123
MsaG000452 AT2G23760.4 29.688 256 110 5 307 498 294 543 1.11e-27 117
MsaG000452 AT1G75410.3 30.962 239 149 6 247 478 164 393 9.53e-26 109
MsaG000452 AT4G36870.4 31.551 187 110 4 305 479 366 546 9.97e-23 102
MsaG000452 AT4G36870.3 30.811 185 110 4 305 477 366 544 1.08e-21 99.0
MsaG000452 AT1G75430.2 31.081 148 87 3 323 457 83 228 1.52e-13 71.6
MsaG000452 AT2G27990.2 32.824 131 84 3 328 457 323 450 1.08e-12 70.5

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCATACATATTCAATAAT+TGG 0.188620 1:-6009515 MsaT000452.1:CDS
AATGGAATTCCAATACTTTC+TGG 0.223215 1:-6009720 MsaT000452.1:CDS
ATCTTTCTGGCAAGCCCCTT+TGG 0.227378 1:+6007927 None:intergenic
AACCAAAACAACATCATAAA+TGG 0.230798 1:-6009738 MsaT000452.1:CDS
ATGGAACTTTCTATGAGTTT+AGG 0.232674 1:-6009162 MsaT000452.1:CDS
TCTTTCTGGCAAGCCCCTTT+GGG 0.243439 1:+6007928 None:intergenic
AAATGCTTCTCTGCATCTTT+AGG 0.274049 1:+6007620 None:intergenic
TCTTGATGAGATAAACTATT+CGG 0.288114 1:-6009037 MsaT000452.1:CDS
TTCCATTTATGATGTTGTTT+TGG 0.288436 1:+6009736 None:intergenic
TGGAACTTTCTATGAGTTTA+GGG 0.292728 1:-6009161 MsaT000452.1:CDS
AACGGTTTCTCGACTATATA+AGG 0.297571 1:-6008107 MsaT000452.1:CDS
CTGTTTCCGTTCTACGTGAT+TGG 0.305984 1:-6007904 MsaT000452.1:CDS
AACCCCTTGTGTGCAACTTT+TGG 0.320504 1:-6009474 MsaT000452.1:CDS
TATTCGGGTTCTGGTGTTAG+AGG 0.338538 1:-6009021 MsaT000452.1:CDS
GAGATAAACTATTCGGGTTC+TGG 0.339602 1:-6009030 MsaT000452.1:CDS
ACAAGCCTCATGTAGTAGTA+TGG 0.375487 1:-6009181 MsaT000452.1:CDS
GAATGGAACAAGATCGGGTT+TGG 0.377735 1:-6009205 MsaT000452.1:CDS
TTTGATGATTGCCATCCATT+TGG 0.383458 1:+6009357 None:intergenic
AAGATACCTTGCTGTAATTC+AGG 0.388861 1:-6009097 MsaT000452.1:CDS
GGTTTATAAATGCGCGTGTT+CGG 0.404462 1:-6007231 MsaT000452.1:CDS
AAGTTCATTGCTACAATTTG+AGG 0.409458 1:+6009302 None:intergenic
CTTGATGAGATAAACTATTC+GGG 0.413238 1:-6009036 MsaT000452.1:CDS
AGAACGGAAACAGATCTTTC+TGG 0.415143 1:+6007914 None:intergenic
TAAATGCGCGTGTTCGGCTA+TGG 0.423300 1:-6007225 MsaT000452.1:CDS
TTCATTCATTCAAAAGCAAT+GGG 0.425095 1:-6007990 MsaT000452.1:CDS
TATCTTGATCCTAATATTGC+CGG 0.425897 1:+6009114 None:intergenic
TGCCAATTATTGAATATGTA+TGG 0.427184 1:+6009513 None:intergenic
GCATACATTTCCTCAATCAA+TGG 0.431572 1:+6007199 None:intergenic
AAATGTTTAATATGAATTGA+AGG 0.435021 1:-6007096 None:intergenic
CTTGCAACATCACCAACTTC+AGG 0.442716 1:-6009270 MsaT000452.1:CDS
TAGCAAACATATTCTTTCCA+TGG 0.443732 1:-6008068 MsaT000452.1:CDS
GGGCTCTTCAACAGTTGAAA+AGG 0.453231 1:-6007970 MsaT000452.1:CDS
CAGTCAATATAGTCAATGTT+TGG 0.454449 1:-6008209 MsaT000452.1:CDS
TTATTAACAATGAGATTTGA+GGG 0.454533 1:+6009594 None:intergenic
TGCACACTTTGCTGTCAAAA+CGG 0.454758 1:-6008125 MsaT000452.1:CDS
TGAAAAGGAAAGATCAGTTA+TGG 0.458634 1:-6007955 MsaT000452.1:CDS
GTTATTAACAATGAGATTTG+AGG 0.462088 1:+6009593 None:intergenic
CTTCATTCATTCAAAAGCAA+TGG 0.463764 1:-6007991 MsaT000452.1:CDS
TGTTCTCCACCAGAAAGTAT+TGG 0.466176 1:+6009711 None:intergenic
GCAAAGTGTGCATGTATTTG+TGG 0.466187 1:+6008136 None:intergenic
AGCATGAATGGAACAAGATC+GGG 0.483225 1:-6009210 MsaT000452.1:CDS
AAAGCTCAAGAGAGTAATGT+TGG 0.486264 1:-6009420 MsaT000452.1:CDS
ATTTATTCCTATCCTTCGCT+TGG 0.489525 1:+6008966 None:intergenic
TTCATGGTCAGAAGAGGATA+AGG 0.491594 1:-6008029 MsaT000452.1:CDS
AGCAAACATATTCTTTCCAT+GGG 0.494717 1:-6008067 MsaT000452.1:CDS
ACTGTTAAAATTTGATCCCA+TGG 0.497477 1:+6008051 None:intergenic
GACTTAACTCATAGCATGAA+TGG 0.499550 1:-6009222 MsaT000452.1:CDS
ATGAGAGCAGTGAAAGAAGC+AGG 0.499804 1:-6007135 MsaT000452.1:CDS
GGTTCTGGTGTTAGAGGCCG+AGG 0.503924 1:-6009015 MsaT000452.1:CDS
TGGTTGTGTAGGTATCAAAC+TGG 0.504145 1:-6007252 MsaT000452.1:intron
AAGTGGGTTGACTAGAAGTC+AGG 0.504398 1:-6007585 MsaT000452.1:intron
AACAAATGAATTATCAGCTA+TGG 0.505083 1:+6009650 None:intergenic
TCTTGAAGACCAATTCTAGC+AGG 0.505334 1:+6009555 None:intergenic
AGAAAAGCTTGTCGAAATGA+AGG 0.508701 1:-6007163 MsaT000452.1:CDS
ATCAGTTATGGAGGCCCCAA+AGG 0.509828 1:-6007943 MsaT000452.1:CDS
CTTTCTGGCAAGCCCCTTTG+GGG 0.514861 1:+6007929 None:intergenic
TCAGTTATGGAGGCCCCAAA+GGG 0.515348 1:-6007942 MsaT000452.1:CDS
TCAGCATAAGCTTCTGACAT+AGG 0.527852 1:+6008931 None:intergenic
TCATGTCATATTCGCCGATA+GGG 0.529853 1:-6009389 MsaT000452.1:CDS
ATAGGGAACATCGATCCAAA+TGG 0.530007 1:-6009372 MsaT000452.1:CDS
TAGCATGAATGGAACAAGAT+CGG 0.530199 1:-6009211 MsaT000452.1:CDS
ACAAAGTTGATTTATTTCCT+CGG 0.530630 1:+6008998 None:intergenic
GGTCAATGCTCAGAGATTAG+TGG 0.536668 1:-6009249 MsaT000452.1:CDS
ATGCTGATTCTTCATTGCAA+AGG 0.542693 1:-6008915 MsaT000452.1:CDS
GCTATGGAAACCATTGATTG+AGG 0.555071 1:-6007209 MsaT000452.1:CDS
ATCACCAAAAGTTGCACACA+AGG 0.561105 1:+6009470 None:intergenic
TCTGAGCATTGACCTGAAGT+TGG 0.571861 1:+6009258 None:intergenic
CACCAAAAGTTGCACACAAG+GGG 0.572833 1:+6009472 None:intergenic
TAACAGTTCATGGTCAGAAG+AGG 0.576067 1:-6008035 MsaT000452.1:CDS
GGAATTCCAATACTTTCTGG+TGG 0.576914 1:-6009717 MsaT000452.1:CDS
ACTCTTGATGCTTCTACAGA+TGG 0.577737 1:-6008866 MsaT000452.1:intron
ACTGCTCAAATGAACATGGC+TGG 0.584941 1:-6009840 MsaT000452.1:CDS
AACACAACCAAGCGAAGGAT+AGG 0.588145 1:-6008973 MsaT000452.1:CDS
TTGTTACATCACAACATGGA+AGG 0.589701 1:-6009632 MsaT000452.1:CDS
AATGAATAGCAATGAATGAG+TGG 0.594918 1:+6009771 None:intergenic
AAACATCCAATCACGTAGAA+CGG 0.600137 1:+6007898 None:intergenic
TTCATGTCATATTCGCCGAT+AGG 0.602007 1:-6009390 MsaT000452.1:CDS
ACAACATGGAAGGACTATTG+TGG 0.614360 1:-6009622 MsaT000452.1:CDS
TTTGGATCGATGTTCCCTAT+CGG 0.616890 1:+6009375 None:intergenic
TAGATAATACTTACGGATGG+AGG 0.617974 1:+6007867 None:intergenic
TATATAAGGACTTGAGAGAG+AGG 0.620065 1:-6008093 MsaT000452.1:CDS
AAGTTCCATACTACTACATG+AGG 0.620943 1:+6009176 None:intergenic
GGAACATCGATCCAAATGGA+TGG 0.633164 1:-6009368 MsaT000452.1:CDS
TCACCAAAAGTTGCACACAA+GGG 0.650888 1:+6009471 None:intergenic
TCATTTGTTACATCACAACA+TGG 0.664816 1:-6009636 MsaT000452.1:CDS
AAAGGAAAGATCAGTTATGG+AGG 0.667219 1:-6007952 MsaT000452.1:CDS
TGTCGAACACAACCAAGCGA+AGG 0.672572 1:-6008978 MsaT000452.1:CDS
GTACACTGCTCAAATGAACA+TGG 0.673477 1:-6009844 MsaT000452.1:CDS
GTATTTCCTGAATTACAGCA+AGG 0.683112 1:+6009091 None:intergenic
CAGTTATGGAGGCCCCAAAG+GGG 0.731077 1:-6007941 MsaT000452.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 6007099 6009880 6007099 ID=MsaG000452
Chr1 mRNA 6007099 6009880 6007099 ID=MsaT000452.1;Parent=MsaG000452
Chr1 exon 6007099 6007263 6007099 ID=MsaT000452.1.exon4;Parent=MsaT000452.1
Chr1 CDS 6007099 6007263 6007099 ID=cds.MsaT000452.1;Parent=MsaT000452.1
Chr1 exon 6007586 6007646 6007586 ID=MsaT000452.1.exon3;Parent=MsaT000452.1
Chr1 CDS 6007586 6007646 6007586 ID=cds.MsaT000452.1;Parent=MsaT000452.1
Chr1 exon 6007881 6008236 6007881 ID=MsaT000452.1.exon2;Parent=MsaT000452.1
Chr1 CDS 6007881 6008236 6007881 ID=cds.MsaT000452.1;Parent=MsaT000452.1
Chr1 exon 6008867 6009880 6008867 ID=MsaT000452.1.exon1;Parent=MsaT000452.1
Chr1 CDS 6008867 6009880 6008867 ID=cds.MsaT000452.1;Parent=MsaT000452.1
Gene Sequence

>MsaT000452.1

ATGGAGAATGATGTGTACACTGCTCAAATGAACATGGCTGGTCAAGTTTCAAATATAGAAGATATCACACAACATCTAACACAAAAGCCACTCATTCATTGCTATTCATTTGACCTTAACAACCAAAACAACATCATAAATGGAATTCCAATACTTTCTGGTGGAGAACAAGATCAACATGTTGATGCTAGTTTCATGAATCAAGTTACCATAGCTGATAATTCATTTGTTACATCACAACATGGAAGGACTATTGTGGAAAATCCCTCAAATCTCATTGTTAATAACAATGACTTTTCAGTTCCTGCTAGAATTGGTCTTCAAGAAAATTTAGAAGCAATAGTTCCATACATATTCAATAATTGGCATGATACTTCAAACTCAAACCCCTTGTGTGCAACTTTTGGTGATAATAATAGCTATGTTAACAAGTTTTTGAAAGCTCAAGAGAGTAATGTTGGAACTGAATTCATGTCATATTCGCCGATAGGGAACATCGATCCAAATGGATGGCAATCATCAAATGTTGCTAACTTAACAAATCTTGCTTATAGTTCCTCAAATTGTAGCAATGAACTTTCACTAAGTCTTGCAACATCACCAACTTCAGGTCAATGCTCAGAGATTAGTGGTTCTGACTTAACTCATAGCATGAATGGAACAAGATCGGGTTTGGAACAAGCCTCATGTAGTAGTATGGAACTTTCTATGAGTTTAGGGAATGATAAACATGTCAAGTTTTCGCCGGCAATATTAGGATCAAGATACCTTGCTGTAATTCAGGAAATACTTGTTCAAATTGCAACATATTCATTTGAAAATCTTGATGAGATAAACTATTCGGGTTCTGGTGTTAGAGGCCGAGGAAATAAATCAACTTTGTCGAACACAACCAAGCGAAGGATAGGAATAAATCGCGATGAGAGTCCTATGTCAGAAGCTTATGCTGATTCTTCATTGCAAAGGCATGCTGTTGAATCAAAGCAATCTCAACTCTTGATGCTTCTACAGATGGTGGACAGTCAATATAGTCAATGTTTGGATGAGATTCACACTGTCGTATCAGCATTTCATGCTGCTACTGAGCTCGATCCACAAATACATGCACACTTTGCTGTCAAAACGGTTTCTCGACTATATAAGGACTTGAGAGAGAGGATTAGCAAACATATTCTTTCCATGGGATCAAATTTTAACAGTTCATGGTCAGAAGAGGATAAGGAATTGTCTGTTGAAACTTCATTCATTCAAAAGCAATGGGCTCTTCAACAGTTGAAAAGGAAAGATCAGTTATGGAGGCCCCAAAGGGGCTTGCCAGAAAGATCTGTTTCCGTTCTACGTGATTGGATGTTTCAGAATTTCCTCCATCCGTATCCTAAAGATGCAGAGAAGCATTTACTTGCAATAAAAAGTGGGTTGACTAGAAGTCAGGTATCAAACTGGTTTATAAATGCGCGTGTTCGGCTATGGAAACCATTGATTGAGGAAATGTATGCTGAAATGAATAGAAGAAAAGCTTGTCGAAATGAAGGAGAAAATGAGAGCAGTGAAAGAAGCAGGATAAGCATTAACAATCAAATGTTTAATATGAATTGA

Protein sequence

>MsaT000452.1

MENDVYTAQMNMAGQVSNIEDITQHLTQKPLIHCYSFDLNNQNNIINGIPILSGGEQDQHVDASFMNQVTIADNSFVTSQHGRTIVENPSNLIVNNNDFSVPARIGLQENLEAIVPYIFNNWHDTSNSNPLCATFGDNNSYVNKFLKAQESNVGTEFMSYSPIGNIDPNGWQSSNVANLTNLAYSSSNCSNELSLSLATSPTSGQCSEISGSDLTHSMNGTRSGLEQASCSSMELSMSLGNDKHVKFSPAILGSRYLAVIQEILVQIATYSFENLDEINYSGSGVRGRGNKSTLSNTTKRRIGINRDESPMSEAYADSSLQRHAVESKQSQLLMLLQMVDSQYSQCLDEIHTVVSAFHAATELDPQIHAHFAVKTVSRLYKDLRERISKHILSMGSNFNSSWSEEDKELSVETSFIQKQWALQQLKRKDQLWRPQRGLPERSVSVLRDWMFQNFLHPYPKDAEKHLLAIKSGLTRSQVSNWFINARVRLWKPLIEEMYAEMNRRKACRNEGENESSERSRISINNQMFNMN*