AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036050

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036050 MtrunA17_Chr1g0203051 39.506 162 92 3 101 261 36 192 2.90e-32 125
MsaG036050 MtrunA17_Chr1g0171741 36.170 235 127 8 27 252 15 235 1.96e-30 114
MsaG036050 MtrunA17_Chr8g0389811 40.945 127 73 2 127 252 62 187 9.56e-30 111
MsaG036050 MtrunA17_Chr2g0331371 38.854 157 91 1 101 252 2 158 7.85e-28 106
MsaG036050 MtrunA17_Chr6g0473421 37.209 129 76 1 101 224 2 130 4.71e-24 95.1
MsaG036050 MtrunA17_Chr2g0287651 34.783 138 89 1 140 276 66 203 4.03e-20 90.1
MsaG036050 MtrunA17_Chr1g0172931 37.736 106 66 0 126 231 53 158 2.18e-19 82.8
MsaG036050 MtrunA17_Chr1g0202341 33.562 146 85 4 111 252 16 153 2.50e-13 69.7
MsaG036050 MtrunA17_Chr5g0448761 40.594 101 58 2 154 252 65 165 3.50e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGGTTTGCCCGAAATTA+TGG 0.193772 7:+26622556 MsaT036050.1:CDS
CTTAATTTGTCCTTGAATAT+TGG 0.220988 7:+26622020 MsaT036050.1:CDS
GAACAGAGAATCCATAATTT+CGG 0.305857 7:-26622567 None:intergenic
TAATGTGATATACAAGAAAT+TGG 0.311968 7:+26622861 MsaT036050.1:CDS
CCGGCCCCTCCATCATTGTC+TGG 0.314013 7:-26622238 None:intergenic
AATGATGGAGGGGCCGGGCT+TGG 0.365155 7:+26622244 MsaT036050.1:CDS
AACTCATACCTTGCTATATC+AGG 0.368955 7:-26622502 None:intergenic
AGGGGCCGGGCTTGGAAGTT+CGG 0.375330 7:+26622252 MsaT036050.1:CDS
TTAACTAATCTTTCTATAAG+TGG 0.395323 7:-26622841 None:intergenic
AACAGAGAATCCATAATTTC+GGG 0.402497 7:-26622566 None:intergenic
TTTGTCCTTGAATATTGGTA+TGG 0.415591 7:+26622025 MsaT036050.1:CDS
CCAACACCTCCATCATTGTC+TGG 0.418184 7:-26622298 None:intergenic
CCTTCACTTTGAGCCTGTAA+TGG 0.420462 7:-26622130 None:intergenic
CCAGACAATGATGGAGGGGC+CGG 0.440535 7:+26622238 MsaT036050.1:CDS
AGTGATTGTTATAAAAGATA+TGG 0.450495 7:+26622441 MsaT036050.1:CDS
ATTAAGTTCAGTGTCAGATC+TGG 0.463888 7:-26622003 None:intergenic
TGCGACAAGGTGTGGGTGTA+TGG 0.469129 7:+26622714 MsaT036050.1:CDS
AATGATGGAGGTGTTGGGCT+TGG 0.469838 7:+26622304 MsaT036050.1:CDS
TTCGCAAAGGGCAAGTGATA+AGG 0.473189 7:+26622587 MsaT036050.1:CDS
TCATGAGTTGAATGGTACTT+TGG 0.474562 7:+26622807 MsaT036050.1:CDS
AAGGTATGAGTTTGCTGAGT+TGG 0.476224 7:+26622513 MsaT036050.1:CDS
CAGACAATGATGGAGGGGCC+GGG 0.495947 7:+26622239 MsaT036050.1:CDS
CAGACAATGATGGAGGTGTT+GGG 0.496845 7:+26622299 MsaT036050.1:CDS
CGGCCCCTCCATCATTGTCT+GGG 0.499000 7:-26622237 None:intergenic
GTTGTGCTTGGAAGTTCAGC+TGG 0.499240 7:+26622196 MsaT036050.1:CDS
TTGTCCTTGAATATTGGTAT+GGG 0.501082 7:+26622026 MsaT036050.1:CDS
CGTGCACACCATCGTTGTCC+AGG 0.507374 7:-26622393 None:intergenic
GATGACTATGCTGGTGGAGT+TGG 0.509880 7:+26622334 MsaT036050.1:CDS
TCCATCCGAACTTCCAAGCC+CGG 0.510901 7:-26622257 None:intergenic
ATGGATTCTCTGTTCGCAAA+GGG 0.511572 7:+26622575 MsaT036050.1:CDS
CAAGTGATAAGGAATCGGTT+TGG 0.519885 7:+26622598 MsaT036050.1:CDS
TCAAGTGACGGAGTTGTGCT+TGG 0.520259 7:+26622184 MsaT036050.1:CDS
AAGGGCAAGTGATAAGGAAT+CGG 0.531381 7:+26622593 MsaT036050.1:CDS
CCAGACAATGATGGAGGTGT+TGG 0.532027 7:+26622298 MsaT036050.1:CDS
ATTCCCCATACCAATATTCA+AGG 0.532350 7:-26622030 None:intergenic
AAGGAATCGGTTTGGAGACG+TGG 0.535384 7:+26622606 MsaT036050.1:CDS
GCCGGGCTTGGAAGTTCGGA+TGG 0.542792 7:+26622256 MsaT036050.1:CDS
GACCACAATCATGAGTTGAA+TGG 0.554817 7:+26622799 MsaT036050.1:CDS
GCTTGGAAGTTCAGCTGGAG+AGG 0.560470 7:+26622201 MsaT036050.1:CDS
CAACACCTCCATCATTGTCT+GGG 0.571208 7:-26622297 None:intergenic
CTACATGACCCAGACAATGA+TGG 0.573767 7:+26622229 MsaT036050.1:CDS
TATGGATTCTCTGTTCGCAA+AGG 0.575008 7:+26622574 MsaT036050.1:CDS
CTGGTATGTCATCAGATTTG+TGG 0.576938 7:+26622774 MsaT036050.1:CDS
TATGCTGGTGGAGTTGGACG+TGG 0.584517 7:+26622340 MsaT036050.1:CDS
CCATTACAGGCTCAAAGTGA+AGG 0.586779 7:+26622130 MsaT036050.1:CDS
ATACATGACCCAGACAATGA+TGG 0.587249 7:+26622289 MsaT036050.1:CDS
TGTCCTTGAATATTGGTATG+GGG 0.592439 7:+26622027 MsaT036050.1:CDS
GCTCAAAGTGAAGGAAGTGA+TGG 0.596948 7:+26622139 MsaT036050.1:CDS
GGAAGTTCAGATGACTATGC+TGG 0.610661 7:+26622325 MsaT036050.1:CDS
TCCGCTGTGGGATCAAGTGA+CGG 0.612686 7:+26622172 MsaT036050.1:CDS
TACCATTCAACTCATGATTG+TGG 0.617130 7:-26622801 None:intergenic
TTTCTGCACCTGATATAGCA+AGG 0.617857 7:+26622494 MsaT036050.1:CDS
GTTGGACGTGGAAGTTCAGA+CGG 0.619188 7:+26622352 MsaT036050.1:CDS
TAACAGTGGATTAACAGTTG+AGG 0.636914 7:+26622669 MsaT036050.1:CDS
TGACCCAGACAATGATGGAG+GGG 0.639340 7:+26622234 MsaT036050.1:CDS
ATGACCCAGACAATGATGGA+GGG 0.639707 7:+26622233 MsaT036050.1:CDS
CATGACCCAGACAATGATGG+AGG 0.646872 7:+26622232 MsaT036050.1:CDS
TTACATGACCTGGACAACGA+TGG 0.664699 7:+26622385 MsaT036050.1:CDS
GGTGACAGCATATCCGCTGT+GGG 0.668719 7:+26622160 MsaT036050.1:CDS
TGGTGACAGCATATCCGCTG+TGG 0.674303 7:+26622159 MsaT036050.1:CDS
ACGTGGAAGTTCAGACGGAG+AGG 0.674565 7:+26622357 MsaT036050.1:CDS
AGTTCAGATGACTATGCTGG+TGG 0.675281 7:+26622328 MsaT036050.1:CDS
CATGACCCAGACAATGATGG+AGG 0.692290 7:+26622292 MsaT036050.1:CDS
TCCGTCACTTGATCCCACAG+CGG 0.789423 7:-26622173 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 26621996 26622894 26621996 ID=MsaG036050
Chr7 mRNA 26621996 26622894 26621996 ID=MsaT036050.1;Parent=MsaG036050
Chr7 exon 26621996 26622058 26621996 ID=MsaT036050.1.exon1;Parent=MsaT036050.1
Chr7 CDS 26621996 26622058 26621996 ID=cds.MsaT036050.1;Parent=MsaT036050.1
Chr7 exon 26622124 26622894 26622124 ID=MsaT036050.1.exon2;Parent=MsaT036050.1
Chr7 CDS 26622124 26622894 26622124 ID=cds.MsaT036050.1;Parent=MsaT036050.1
Gene Sequence

>MsaT036050.1

ATGGAAGCCAGATCTGACACTGAACTTAATTTGTCCTTGAATATTGGTATGGGGAATCCAGCTGACTTGCCATTACAGGCTCAAAGTGAAGGAAGTGATGGTGACAGCATATCCGCTGTGGGATCAAGTGACGGAGTTGTGCTTGGAAGTTCAGCTGGAGAGGAAATTCTACATGACCCAGACAATGATGGAGGGGCCGGGCTTGGAAGTTCGGATGGAGACGAAATTATACATGACCCAGACAATGATGGAGGTGTTGGGCTTGGAAGTTCAGATGACTATGCTGGTGGAGTTGGACGTGGAAGTTCAGACGGAGAGGAAATTTTACATGACCTGGACAACGATGGTGTGCACGTTAGTGACGATGATTCTCAAACTGAAGTGATTGTTATAAAAGATATGGTTGACATAATGAAGATAGACATGCGCAACTTTTCTGCACCTGATATAGCAAGGTATGAGTTTGCTGAGTTGGATGTAGCTTACATGTTTTACACTTGGTTTGCCCGAAATTATGGATTCTCTGTTCGCAAAGGGCAAGTGATAAGGAATCGGTTTGGAGACGTGGTTCAACAAACTTTTCTATGTTCATGCGAAGGTTTTAGAAATAACAGTGGATTAACAGTTGAGGAAAGAAAGCGCGAGTCAAAAAATGCGACAAGGTGTGGGTGTATGGCAAAATTAAGAGTGCATGTGAACATTTTGTCTAAGCGCTGGTATGTCATCAGATTTGTGGTTGACCACAATCATGAGTTGAATGGTACTTTGGTCAAGTTACTTCCACTTATAGAAAGATTAGTTAATGTGATATACAAGAAATTGGACGCAACATGA
Protein sequence

>MsaT036050.1

MEARSDTELNLSLNIGMGNPADLPLQAQSEGSDGDSISAVGSSDGVVLGSSAGEEILHDPDNDGGAGLGSSDGDEIIHDPDNDGGVGLGSSDDYAGGVGRGSSDGEEILHDLDNDGVHVSDDDSQTEVIVIKDMVDIMKIDMRNFSAPDIARYEFAELDVAYMFYTWFARNYGFSVRKGQVIRNRFGDVVQQTFLCSCEGFRNNSGLTVEERKRESKNATRCGCMAKLRVHVNILSKRWYVIRFVVDHNHELNGTLVKLLPLIERLVNVIYKKLDAT*