AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028627


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028627 MtrunA17_Chr5g0431351 95.392 217 7 1 1 214 1 217 2.38e-152 421
MsaG028627 MtrunA17_Chr4g0071811 54.348 92 38 2 126 213 293 384 1.72e-22 94.0
MsaG028627 MtrunA17_Chr7g0226451 39.098 133 42 2 120 213 219 351 2.19e-20 87.8
MsaG028627 MtrunA17_Chr1g0209861 44.144 111 42 3 121 213 316 424 1.58e-19 85.9
MsaG028627 MtrunA17_Chr8g0390971 35.567 194 81 6 45 213 226 400 6.08e-19 84.3
MsaG028627 MtrunA17_Chr1g0150471 49.275 69 32 1 145 213 232 297 4.11e-14 69.7
MsaG028627 MtrunA17_Chr3g0136701 67.442 43 14 0 171 213 232 274 1.48e-11 62.4
MsaG028627 MtrunA17_Chr4g0072871 67.442 43 14 0 171 213 298 340 3.09e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028627 AT1G07050.1 63.964 111 29 4 109 213 88 193 8.59e-38 130
MsaG028627 AT1G07050.2 61.905 105 29 4 109 207 88 187 7.79e-33 117
MsaG028627 AT5G14370.1 53.211 109 36 3 120 213 228 336 2.99e-28 108
MsaG028627 AT4G25990.1 53.922 102 39 3 116 213 286 383 1.34e-23 97.4
MsaG028627 AT5G57180.2 53.846 91 40 2 123 213 337 425 5.75e-23 95.9
MsaG028627 AT1G73870.1 41.844 141 58 5 91 213 253 387 2.26e-20 88.6
MsaG028627 AT4G25990.2 47.009 117 39 4 116 213 286 398 7.77e-20 87.0
MsaG028627 AT4G25990.3 52.083 96 38 3 116 207 286 377 1.82e-19 85.9
MsaG028627 AT1G49130.1 52.747 91 34 3 125 213 237 320 2.86e-19 84.7
MsaG028627 AT1G49130.2 51.648 91 35 2 125 213 230 313 3.28e-19 84.3
MsaG028627 AT5G57180.1 51.765 85 39 2 123 207 337 419 9.13e-19 84.0
MsaG028627 AT1G25440.1 38.562 153 75 4 80 213 251 403 1.23e-18 83.6
MsaG028627 AT1G68520.1 41.525 118 51 3 114 213 282 399 1.64e-18 83.2
MsaG028627 AT2G24790.1 61.111 54 21 0 160 213 218 271 3.55e-13 67.4
MsaG028627 AT5G24930.1 48.101 79 38 2 136 213 261 337 1.63e-12 65.9
MsaG028627 AT5G57660.1 69.767 43 13 0 171 213 285 327 1.27e-11 63.2

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTCATGTTCTTCTTTCTT+TGG 0.183818 5:+66080902 None:intergenic
GGTCTGACCGTGGCTCTCTT+TGG 0.244079 5:-66080529 MsaT028627.1:CDS
GCTCTCTCTTCTTCCAATAT+TGG 0.250193 5:+66079754 None:intergenic
TTTGAACTATCAAGAGGTTT+TGG 0.259887 5:-66080558 MsaT028627.1:CDS
AAAAGTGTGACCTTGATTCT+TGG 0.281388 5:+66079628 None:intergenic
GAAGAGAAGCAAGTGTTCTT+AGG 0.336563 5:-66079729 MsaT028627.1:CDS
GTCTGACCGTGGCTCTCTTT+GGG 0.337400 5:-66080528 MsaT028627.1:CDS
GATGGGAGAAGTGCCAATAT+TGG 0.355037 5:-66079767 MsaT028627.1:CDS
AGTGTAAGATTTGTTGAAGT+TGG 0.374346 5:+66080853 None:intergenic
ATAGTAGTAATGAGCTTCAT+TGG 0.401933 5:-66080736 MsaT028627.1:CDS
TCATCTTTCCCTTCATCAAA+GGG 0.417676 5:+66080689 None:intergenic
AAGAGAGAAAATTACAATGA+TGG 0.429279 5:-66080626 MsaT028627.1:CDS
ACTAACATATGAGCCACTAT+TGG 0.440550 5:+66080475 None:intergenic
CTCATCTTTCCCTTCATCAA+AGG 0.449537 5:+66080688 None:intergenic
TATAAGCAAATGCAATTATG+AGG 0.459488 5:-66080663 MsaT028627.1:CDS
TGAGCTTCATTGGGATATCA+TGG 0.472007 5:-66080726 MsaT028627.1:CDS
GAGGGATTTCCCTTTGATGA+AGG 0.484035 5:-66080698 MsaT028627.1:CDS
TAGTAGTAATGAGCTTCATT+GGG 0.508412 5:-66080735 MsaT028627.1:CDS
AGGGATTTCCCTTTGATGAA+GGG 0.520507 5:-66080697 MsaT028627.1:CDS
AACATATGAGCCACTATTGG+AGG 0.534168 5:+66080478 None:intergenic
TCATTGGGATATCATGGAAT+GGG 0.534580 5:-66080720 MsaT028627.1:CDS
TTCATTGGGATATCATGGAA+TGG 0.539426 5:-66080721 MsaT028627.1:CDS
GGTATTTGAGTGGTAGCGTC+TGG 0.540746 5:+66080878 None:intergenic
TTTGAATTTGAACTATCAAG+AGG 0.551159 5:-66080564 MsaT028627.1:CDS
CGCTTTGTGAAGAGACATTG+AGG 0.551371 5:-66079501 None:intergenic
TAAGATTTGTTGAAGTTGGA+TGG 0.551571 5:+66080857 None:intergenic
TGATAAAAGACCAAGAATCA+AGG 0.578251 5:-66079638 MsaT028627.1:intron
ATATGAGCCACTATTGGAGG+AGG 0.606351 5:+66080481 None:intergenic
TTGGGATATCATGGAATGGG+AGG 0.609318 5:-66080717 MsaT028627.1:CDS
GAAGTTGGATGGTATTTGAG+TGG 0.615620 5:+66080868 None:intergenic
TGGGATATCATGGAATGGGA+GGG 0.659236 5:-66080716 MsaT028627.1:CDS
CATTAGCCCAAAGAGAGCCA+CGG 0.677020 5:+66080522 None:intergenic
TTGGATGCATGGTCTGACCG+TGG 0.694015 5:-66080539 MsaT028627.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 66079503 66080951 66079503 ID=MsaG028627
Chr5 mRNA 66079503 66080951 66079503 ID=MsaT028627.1;Parent=MsaG028627
Chr5 exon 66079503 66079526 66079503 ID=MsaT028627.1.exon3;Parent=MsaT028627.1
Chr5 CDS 66079503 66079526 66079503 ID=cds.MsaT028627.1;Parent=MsaT028627.1
Chr5 exon 66079639 66079788 66079639 ID=MsaT028627.1.exon2;Parent=MsaT028627.1
Chr5 CDS 66079639 66079788 66079639 ID=cds.MsaT028627.1;Parent=MsaT028627.1
Chr5 exon 66080481 66080951 66080481 ID=MsaT028627.1.exon1;Parent=MsaT028627.1
Chr5 CDS 66080481 66080951 66080481 ID=cds.MsaT028627.1;Parent=MsaT028627.1
Gene Sequence

>MsaT028627.1

ATGAGATACACTTCATCTCTTAGAAGTCCAAAGAAAGAAGAACATGAAGTACCAGACGCTACCACTCAAATACCATCCAACTTCAACAAATCTTACACTAATGAAGATTTCTATCTTTTCGACGAACTCGAAGAGTACTTGAACATTGAAGAAGAAGAAGAACAAAAGGTATCATCACCACAAAACACTTGTAATAGTAGTAATGAGCTTCATTGGGATATCATGGAATGGGAGGGATTTCCCTTTGATGAAGGGAAAGATGAGAATATAAGCAAATGCAATTATGAGGAGAAGAAGATAATAAAGAGAGAAAATTACAATGATGGTTTTTGGGAAGTGGATGATGAAAAGAGTGTAGCTTTGAATTTGAATTTGAACTATCAAGAGGTTTTGGATGCATGGTCTGACCGTGGCTCTCTTTGGGCTAATGATTGTTCTTTTTCATTTTCCTCCTCCAATAGTGGCTCATATATGGGAGAAGTGCCAATATTGGAAGAAGAGAGAGCAAGAAGAGAAGCAAGTGTTCTTAGGTATAAAGAAAAACGTCAGAACAGATTGTTCTCAAAGAAGATAAGATACCAAGTTCGAAAATTAAACGCTGATAAAAGACCAAGAATCAAGGGTCGCTTTGTGAAGAGACATTGA

Protein sequence

>MsaT028627.1

MRYTSSLRSPKKEEHEVPDATTQIPSNFNKSYTNEDFYLFDELEEYLNIEEEEEQKVSSPQNTCNSSNELHWDIMEWEGFPFDEGKDENISKCNYEEKKIIKRENYNDGFWEVDDEKSVALNLNLNYQEVLDAWSDRGSLWANDCSFSFSSSNSGSYMGEVPILEEERARREASVLRYKEKRQNRLFSKKIRYQVRKLNADKRPRIKGRFVKRH*