AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009752

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009752 MtrunA17_Chr2g0316551 89.062 320 4 2 1 290 30 348 0.0 565
MsaG009752 MtrunA17_Chr2g0325131 51.155 303 96 7 5 276 28 309 2.11e-83 254
MsaG009752 MtrunA17_Chr4g0040891 52.613 287 84 10 27 277 43 313 7.19e-75 232
MsaG009752 MtrunA17_Chr8g0380611 51.456 103 43 2 143 245 229 324 1.48e-23 99.0
MsaG009752 MtrunA17_Chr5g0432701 51.064 94 46 0 149 242 158 251 1.60e-22 95.9
MsaG009752 MtrunA17_Chr4g0036071 45.614 114 58 1 148 261 358 467 8.31e-22 95.1
MsaG009752 MtrunA17_Chr2g0329551 39.231 130 71 1 148 269 219 348 2.17e-21 93.2
MsaG009752 MtrunA17_Chr3g0107491 46.316 95 51 0 148 242 175 269 8.58e-21 91.3
MsaG009752 MtrunA17_Chr6g0463571 49.474 95 48 0 148 242 149 243 1.37e-20 89.7
MsaG009752 MtrunA17_Chr3g0128781 46.316 95 51 0 148 242 106 200 1.77e-19 86.7
MsaG009752 MtrunA17_Chr1g0156051 49.495 99 46 2 147 243 384 480 1.07e-13 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009752 AT3G58120.1 52.143 280 77 6 26 257 39 309 1.58e-79 244
MsaG009752 AT2G42380.2 49.811 265 82 6 29 256 42 292 3.80e-69 217
MsaG009752 AT3G58120.2 49.012 253 72 6 26 230 39 282 4.42e-61 195
MsaG009752 AT2G42380.1 46.038 265 81 7 29 256 42 281 7.68e-59 191
MsaG009752 AT2G42380.5 47.899 238 73 6 29 229 42 265 2.80e-54 177
MsaG009752 AT2G42380.3 39.303 201 71 6 29 192 42 228 5.60e-27 105
MsaG009752 AT2G42380.4 39.303 201 71 6 29 192 42 228 5.60e-27 105
MsaG009752 AT1G58110.1 55.172 87 39 0 159 245 238 324 1.74e-23 99.0
MsaG009752 AT1G58110.2 55.172 87 39 0 159 245 238 324 1.74e-23 99.0
MsaG009752 AT2G40620.1 49.474 95 48 0 148 242 146 240 1.06e-21 94.0
MsaG009752 AT4G38900.2 50.526 95 47 0 148 242 392 486 1.22e-21 95.1
MsaG009752 AT4G38900.3 50.526 95 47 0 148 242 392 486 1.22e-21 95.1
MsaG009752 AT2G31370.5 40.000 140 79 1 148 282 199 338 1.37e-21 93.6
MsaG009752 AT1G43700.1 43.333 120 67 1 139 258 183 301 2.40e-21 92.4
MsaG009752 AT2G31370.2 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT2G31370.4 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT2G31370.1 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT2G31370.7 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT2G31370.3 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT2G31370.6 40.000 140 79 1 148 282 199 338 2.45e-21 93.2
MsaG009752 AT1G06070.1 41.880 117 62 1 148 264 208 318 4.09e-21 92.8
MsaG009752 AT1G06850.1 48.936 94 48 0 149 242 147 240 4.68e-21 91.7
MsaG009752 AT2G21230.4 45.631 103 56 0 147 249 367 469 3.82e-20 90.5
MsaG009752 AT2G21230.1 45.631 103 56 0 147 249 367 469 3.82e-20 90.5
MsaG009752 AT5G04840.1 48.039 102 48 1 159 260 177 273 4.26e-20 88.6
MsaG009752 AT4G38900.1 47.525 101 47 1 148 242 392 492 2.00e-19 88.6
MsaG009752 AT2G21230.3 42.202 109 57 1 147 249 367 475 8.01e-18 83.6
MsaG009752 AT2G21230.2 48.780 82 42 0 148 229 368 449 8.90e-16 77.4
MsaG009752 AT5G04840.2 54.167 72 33 0 159 230 177 248 2.18e-15 74.7
MsaG009752 AT1G35490.2 39.785 93 51 1 149 241 170 257 3.42e-15 74.7
MsaG009752 AT1G35490.1 39.785 93 51 1 149 241 170 257 3.42e-15 74.7
MsaG009752 AT1G06850.2 71.111 45 13 0 149 193 147 191 1.32e-12 66.2
MsaG009752 AT2G12900.1 37.374 99 62 0 146 244 112 210 1.53e-12 66.6
MsaG009752 AT5G07160.1 39.785 93 56 0 150 242 48 140 4.50e-12 63.2
MsaG009752 AT2G13150.1 35.000 100 65 0 146 245 145 244 2.08e-11 63.5

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGCAATCCGTTGCTTTA+TGG 0.114715 2:+64112351 None:intergenic
CTTCATTGTTATTGCTATTT+TGG 0.139041 2:+64113724 None:intergenic
TTGTATATATACCAGAATTT+TGG 0.218450 2:-64112674 MsaT009752.1:intron
TTCAGTGCAGGTGATGTTTC+CGG 0.261998 2:+64113566 None:intergenic
GTCACCACGAGTTGCATTCT+TGG 0.266371 2:-64112410 MsaT009752.1:CDS
CAGAGAACATGGATATTAAT+TGG 0.292855 2:+64113820 None:intergenic
GGTGGCTGTGGTCGTGGTGG+TGG 0.293722 2:+64114053 None:intergenic
GATGGTCAGAAGTATTATTC+TGG 0.294836 2:+64114028 None:intergenic
AAGGAGTGTAACATCTTTAC+AGG 0.306155 2:-64112590 MsaT009752.1:intron
TGTTGTTGTGGCTGTGATGT+TGG 0.396153 2:+64111367 None:intergenic
GTGATGGTGGTGATTGTTGA+TGG 0.405926 2:+64114010 None:intergenic
GGCTGTGGTCGTGGTGGTGG+AGG 0.412837 2:+64114056 None:intergenic
CTGGGTGGTGGCTGTGGTCG+TGG 0.413794 2:+64114047 None:intergenic
CCAACAAAACATACAAAAGA+TGG 0.422195 2:-64111443 MsaT009752.1:CDS
TGTGGCTGTGATGTTGGTGT+TGG 0.423054 2:+64111373 None:intergenic
ATGTTCTCTGACAATGTTGC+CGG 0.425101 2:-64113807 MsaT009752.1:CDS
GGATTTGTTCCTTGTGCTGA+TGG 0.435817 2:+64111338 None:intergenic
CGATAAGGCGTGGGGCTCAC+AGG 0.446573 2:-64113945 MsaT009752.1:CDS
AAGGAACAAATCCTCAGTTA+AGG 0.450733 2:-64111328 None:intergenic
CATCTTTGAAAAGCTTGTCC+TGG 0.451454 2:+64112323 None:intergenic
AAAGCAACGGATTGCAGCAT+TGG 0.460058 2:-64112347 MsaT009752.1:CDS
TCATCGACGGCTTCATCCTT+AGG 0.467958 2:+64113636 None:intergenic
ATGGTCAGAAGTATTATTCT+GGG 0.476907 2:+64114029 None:intergenic
ATCTTTGAAAAGCTTGTCCT+GGG 0.477116 2:+64112324 None:intergenic
GGCAATCAGCTCAGAGGTCA+AGG 0.479409 2:-64112645 MsaT009752.1:CDS
TCCTCGACTTCTCCTCGATA+AGG 0.487643 2:-64113960 MsaT009752.1:CDS
ACGGATTGCAGCATTGGCCC+AGG 0.491712 2:-64112341 MsaT009752.1:CDS
ATCCACAACGGTTTCAGTGC+AGG 0.497157 2:+64113554 None:intergenic
AGGAACAAATCCTCAGTTAA+GGG 0.498353 2:-64111327 None:intergenic
AGAAGTATTATTCTGGGTGG+TGG 0.505308 2:+64114035 None:intergenic
AATACATTTCTGAGCTTGAA+AGG 0.505449 2:-64112609 MsaT009752.1:CDS
AGAAGGAAATAGAAAGGTTG+AGG 0.509958 2:-64111477 MsaT009752.1:CDS
GCATCCAACACCATTGCCAT+TGG 0.510208 2:+64113696 None:intergenic
CAGTAAGAATCATACGTTGA+TGG 0.511877 2:+64112386 None:intergenic
ACTTCTCCTCGATAAGGCGT+GGG 0.514254 2:-64113954 MsaT009752.1:CDS
TGGATCCCAAGAGGGTCAAA+AGG 0.516377 2:-64113536 MsaT009752.1:intron
ACACGAACTGTCGTCATCGA+CGG 0.522351 2:+64113623 None:intergenic
ATTATTCTGGGTGGTGGCTG+TGG 0.527672 2:+64114041 None:intergenic
CATCACAACAATTACCATCA+TGG 0.531974 2:-64113993 MsaT009752.1:CDS
GACTTCTCCTCGATAAGGCG+TGG 0.532570 2:-64113955 MsaT009752.1:CDS
GAAACCAATGGCAATGGTGT+TGG 0.533241 2:-64113700 MsaT009752.1:CDS
GGCAACATTGTCAGAGAACA+TGG 0.535418 2:+64113809 None:intergenic
TGATGGAAAGATTGTTGTTG+TGG 0.543696 2:+64111355 None:intergenic
TGGTCGGAGGATGGTGACGA+TGG 0.544700 2:+64113744 None:intergenic
GGTCGGAGGATGGTGACGAT+GGG 0.544837 2:+64113745 None:intergenic
CATTAAAGAAGGAAATAGAA+AGG 0.550196 2:-64111483 MsaT009752.1:CDS
GCGGCAGCACCATCATCCTC+CGG 0.550627 2:-64113585 MsaT009752.1:CDS
GGAGGATGGTGACGATGGGT+TGG 0.554167 2:+64113749 None:intergenic
CATGATGGTAATTGTTGTGA+TGG 0.559426 2:+64113994 None:intergenic
CAACAAAACATACAAAAGAT+GGG 0.561228 2:-64111442 MsaT009752.1:CDS
ACATCAAGAAGCATTAAAGA+AGG 0.562831 2:-64111494 MsaT009752.1:CDS
TCATCATGAGGTGAAGCCTA+AGG 0.575470 2:-64113652 MsaT009752.1:CDS
TGATGAAGATAATGCTCTTG+AGG 0.578485 2:+64113669 None:intergenic
GGTGGTGGCTGTGGTCGTGG+TGG 0.585497 2:+64114050 None:intergenic
GACGTTGATGACAACGGCAA+AGG 0.589110 2:+64113771 None:intergenic
GACCCTCTTGGGATCCACAA+CGG 0.590222 2:+64113542 None:intergenic
CAAAGGCGGGAAAGATACGC+CGG 0.592526 2:+64113788 None:intergenic
TTGATGACAACGGCAAAGGC+GGG 0.594747 2:+64113775 None:intergenic
GTTGATGACAACGGCAAAGG+CGG 0.597344 2:+64113774 None:intergenic
AGGAATTCGTCTATCCATGA+TGG 0.597813 2:+64113979 None:intergenic
GTGAGCCCCACGCCTTATCG+AGG 0.599484 2:+64113948 None:intergenic
TAAGGCGTGGGGCTCACAGG+CGG 0.603287 2:-64113942 MsaT009752.1:intron
GTGATGTTTCCGGAGGATGA+TGG 0.605743 2:+64113576 None:intergenic
GTTAATAGTAACATTAACAA+TGG 0.606660 2:-64111412 MsaT009752.1:CDS
TGAAGAGAAACCAATGGCAA+TGG 0.607257 2:-64113706 MsaT009752.1:CDS
CACCTGCACTGAAACCGTTG+TGG 0.612559 2:-64113556 MsaT009752.1:CDS
AACCGTTGTGGATCCCAAGA+GGG 0.623443 2:-64113544 MsaT009752.1:CDS
GATGGTAATTGTTGTGATGG+TGG 0.623528 2:+64113997 None:intergenic
TAACAATGAAGAGAAACCAA+TGG 0.626582 2:-64113712 MsaT009752.1:CDS
GCAATCAGCTCAGAGGTCAA+GGG 0.637616 2:-64112644 MsaT009752.1:CDS
AGAGCATTATCTTCATCATG+AGG 0.643559 2:-64113664 MsaT009752.1:CDS
GCCTTATCGAGGAGAAGTCG+AGG 0.651890 2:+64113959 None:intergenic
AGTGCAGGTGATGTTTCCGG+AGG 0.655701 2:+64113569 None:intergenic
CTTCTCCTCGATAAGGCGTG+GGG 0.658846 2:-64113953 MsaT009752.1:CDS
AAACCGTTGTGGATCCCAAG+AGG 0.664635 2:-64113545 MsaT009752.1:CDS
GTCAGAAGTATTATTCTGGG+TGG 0.668741 2:+64114032 None:intergenic
ACAATCTTTCCATCAGCACA+AGG 0.669520 2:-64111347 MsaT009752.1:CDS
CTAATAGGCAATCAGCTCAG+AGG 0.670951 2:-64112651 MsaT009752.1:CDS
ACAACAGTGCCATAAAGCAA+CGG 0.673543 2:-64112360 MsaT009752.1:CDS
GGGTTGGACGTTGATGACAA+CGG 0.716785 2:+64113765 None:intergenic
TGGTCCAAGAATGCAACTCG+TGG 0.753629 2:+64112406 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 64111330 64114091 64111330 ID=MsaG009752
Chr2 mRNA 64111330 64114091 64111330 ID=MsaT009752.1;Parent=MsaG009752
Chr2 exon 64111330 64111517 64111330 ID=MsaT009752.1.exon5;Parent=MsaT009752.1
Chr2 CDS 64111330 64111517 64111330 ID=cds.MsaT009752.1;Parent=MsaT009752.1
Chr2 exon 64112323 64112449 64112323 ID=MsaT009752.1.exon4;Parent=MsaT009752.1
Chr2 CDS 64112323 64112449 64112323 ID=cds.MsaT009752.1;Parent=MsaT009752.1
Chr2 exon 64112591 64112681 64112591 ID=MsaT009752.1.exon3;Parent=MsaT009752.1
Chr2 CDS 64112591 64112681 64112591 ID=cds.MsaT009752.1;Parent=MsaT009752.1
Chr2 exon 64113537 64113854 64113537 ID=MsaT009752.1.exon2;Parent=MsaT009752.1
Chr2 CDS 64113537 64113854 64113537 ID=cds.MsaT009752.1;Parent=MsaT009752.1
Chr2 exon 64113943 64114091 64113943 ID=MsaT009752.1.exon1;Parent=MsaT009752.1
Chr2 CDS 64113943 64114091 64113943 ID=cds.MsaT009752.1;Parent=MsaT009752.1
Gene Sequence

>MsaT009752.1

ATGTCAAACATCACCTCCACCACCACGACCACAGCCACCACCCAGAATAATACTTCTGACCATCAACAATCACCACCATCACAACAATTACCATCATGGATAGACGAATTCCTCGACTTCTCCTCGATAAGGCGTGGGGCTCACAGGCGACTGGATGATGACCAATTAATATCCATGTTCTCTGACAATGTTGCCGGCGTATCTTTCCCGCCTTTGCCGTTGTCATCAACGTCCAACCCATCGTCACCATCCTCCGACCAAAATAGCAATAACAATGAAGAGAAACCAATGGCAATGGTGTTGGATGCACAACCTCAAGAGCATTATCTTCATCATGAGGTGAAGCCTAAGGATGAAGCCGTCGATGACGACAGTTCGTGTAAAAATGAGGTAGCGGCGGCAGCACCATCATCCTCCGGAAACATCACCTGCACTGAAACCGTTGTGGATCCCAAGAGGGTCAAAAGAATTTTGGCTAATAGGCAATCAGCTCAGAGGTCAAGGGTGAGAAAGTTACAATACATTTCTGAGCTTGAAAGGAGTGTAACATCTTTACAGACGGAGGTTTCAGCACTGTCACCACGAGTTGCATTCTTGGACCATCAACGTATGATTCTTACTGTCGACAACAGTGCCATAAAGCAACGGATTGCAGCATTGGCCCAGGACAAGCTTTTCAAAGATGCACATCAAGAAGCATTAAAGAAGGAAATAGAAAGGTTGAGGCAAATCTATCACCAACAAAACATACAAAAGATGGGAAATTCAGTTAATAGTAACATTAACAATGGTCATTCTCTTCAATCTCCAACACCAACATCACAGCCACAACAACAATCTTTCCATCAGCACAAGGAACAAATCCTCAGTTAA
Protein sequence

>MsaT009752.1

MSNITSTTTTTATTQNNTSDHQQSPPSQQLPSWIDEFLDFSSIRRGAHRRLDDDQLISMFSDNVAGVSFPPLPLSSTSNPSSPSSDQNSNNNEEKPMAMVLDAQPQEHYLHHEVKPKDEAVDDDSSCKNEVAAAAPSSSGNITCTETVVDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQTEVSALSPRVAFLDHQRMILTVDNSAIKQRIAALAQDKLFKDAHQEALKKEIERLRQIYHQQNIQKMGNSVNSNINNGHSLQSPTPTSQPQQQSFHQHKEQILS*