AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031351

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031351 MtrunA17_Chr8g0389811 60.513 195 70 2 1 188 1 195 7.54e-77 229
MsaG031351 MtrunA17_Chr1g0203051 56.774 155 67 0 42 196 44 198 5.89e-58 192
MsaG031351 MtrunA17_Chr2g0331371 51.562 128 62 0 58 185 36 163 1.20e-39 134
MsaG031351 MtrunA17_Chr6g0473421 48.958 96 49 0 58 153 36 131 1.53e-30 109
MsaG031351 MtrunA17_Chr1g0172931 46.847 111 59 0 49 159 48 158 1.44e-29 107
MsaG031351 MtrunA17_Chr8g0366311 50.000 110 53 1 1 108 1 110 8.16e-26 96.3
MsaG031351 MtrunA17_Chr1g0171741 33.728 169 107 3 28 196 88 251 2.81e-24 96.3
MsaG031351 MtrunA17_Chr2g0287651 29.798 198 123 3 3 196 9 194 4.31e-18 81.6
MsaG031351 MtrunA17_Chr2g0290391 37.615 109 65 2 89 195 63 170 5.67e-14 69.7
MsaG031351 MtrunA17_Chr1g0198761 35.897 117 63 5 89 195 59 173 9.66e-13 66.2
MsaG031351 MtrunA17_Chr4g0033611 31.613 155 94 5 27 180 33 176 3.92e-12 63.2
MsaG031351 MtrunA17_Chr5g0431001 29.487 156 88 4 63 197 35 189 4.01e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031351 AT5G28530.3 34.862 109 68 2 89 195 67 174 1.56e-14 71.6
MsaG031351 AT5G28530.2 34.862 109 68 2 89 195 67 174 1.56e-14 71.6
MsaG031351 AT5G28530.1 34.862 109 68 2 89 195 67 174 1.59e-14 71.6
MsaG031351 AT5G28530.5 34.862 109 68 2 89 195 67 174 1.76e-14 71.6
MsaG031351 AT5G28530.4 34.862 109 68 2 89 195 67 174 1.84e-14 71.6
MsaG031351 AT3G59470.2 30.909 165 93 6 20 181 37 183 9.50e-11 59.7

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTGAGCATAGATGATTTA+TGG 0.129323 6:-24483402 MsaT031351.1:CDS
GCAACCTCTTCTGTTGTTCC+AGG 0.291028 6:+24483505 None:intergenic
AGCAGACCTTTGTATGTTAT+AGG 0.299097 6:-24483261 MsaT031351.1:CDS
TTGCTTATTATGTAGGATTT+GGG 0.330556 6:-24483580 MsaT031351.1:intron
GAGCTCTTGGCACACGCTTT+CGG 0.359232 6:+24483200 None:intergenic
ACACGCTTTCGGCTTGTGGA+TGG 0.373622 6:+24483211 None:intergenic
CCGGAAGCATTCCCTTGAAT+TGG 0.376341 6:+24483068 None:intergenic
CCGCACCTCACACGAGCTCT+TGG 0.404430 6:+24483187 None:intergenic
TGGCACACGCTTTCGGCTTG+TGG 0.416025 6:+24483207 None:intergenic
CACGCTTTCGGCTTGTGGAT+GGG 0.420804 6:+24483212 None:intergenic
CCAATTCAAGGGAATGCTTC+CGG 0.427188 6:-24483068 MsaT031351.1:CDS
TGAACATAATCATTCATTGT+TGG 0.469838 6:-24483095 MsaT031351.1:CDS
GCCGCAAAAGCAAAGTTGTA+AGG 0.485013 6:-24483306 MsaT031351.1:CDS
ATTGTTGGATGACCAATTCA+AGG 0.485672 6:-24483080 MsaT031351.1:CDS
AATGTCTTCCAAGCAATTCA+CGG 0.494836 6:+24483444 None:intergenic
CCTTTGTATGTTATAGGCAA+GGG 0.503564 6:-24483255 MsaT031351.1:CDS
CAGTAATGGTAACAAATTTG+TGG 0.504960 6:-24483476 MsaT031351.1:CDS
GGCAACTGCCGTGAATTGCT+TGG 0.518209 6:-24483452 MsaT031351.1:CDS
ACCTTTGTATGTTATAGGCA+AGG 0.523646 6:-24483256 MsaT031351.1:CDS
CAAACCTGTGGGGAATCGAC+TGG 0.534262 6:+24483673 None:intergenic
GGGAAATTTGTTATTGTCTG+AGG 0.539782 6:-24483560 MsaT031351.1:CDS
ACTGTCATCTTCCTATGTGC+CGG 0.541798 6:+24483049 None:intergenic
TTGTTGGATGACCAATTCAA+GGG 0.559195 6:-24483079 MsaT031351.1:CDS
AAACCTGTGGGGAATCGACT+GGG 0.566413 6:+24483674 None:intergenic
GTGCATATTGATGTAAATAG+TGG 0.570026 6:-24483145 MsaT031351.1:CDS
AATGAAGAGAGTTATGATCC+TGG 0.571729 6:-24483523 MsaT031351.1:CDS
TCACCCAGTCGATTCCCCAC+AGG 0.582115 6:-24483677 MsaT031351.1:intron
AGGGAATGCTTCCGGCACAT+AGG 0.589796 6:-24483060 MsaT031351.1:CDS
CCCTTGCCTATAACATACAA+AGG 0.598990 6:+24483255 None:intergenic
GGGATTAGTAAAGAGAAAAG+TGG 0.608343 6:-24483235 MsaT031351.1:CDS
GAGGTTGCAGATGACAGTAA+TGG 0.627117 6:-24483490 MsaT031351.1:CDS
CCAAGAGCTCGTGTGAGGTG+CGG 0.650655 6:-24483187 MsaT031351.1:CDS
TGATCCTGGAACAACAGAAG+AGG 0.655464 6:-24483509 MsaT031351.1:CDS
TAATGGTAACAAATTTGTGG+AGG 0.669345 6:-24483473 MsaT031351.1:CDS
AAAGTTGTAAGGAACAACAA+AGG 0.671963 6:-24483295 MsaT031351.1:CDS
TTGATGTAAATAGTGGTCGG+TGG 0.686103 6:-24483138 MsaT031351.1:CDS
GTGTGCCAAGAGCTCGTGTG+AGG 0.705143 6:-24483192 MsaT031351.1:CDS
ATATTGATGTAAATAGTGGT+CGG 0.715441 6:-24483141 MsaT031351.1:CDS
GGAGACAATACAAACCTGTG+GGG 0.777436 6:+24483663 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 24483045 24483728 24483045 ID=MsaG031351
Chr6 mRNA 24483045 24483728 24483045 ID=MsaT031351.1;Parent=MsaG031351
Chr6 exon 24483045 24483587 24483045 ID=MsaT031351.1.exon2;Parent=MsaT031351.1
Chr6 CDS 24483045 24483587 24483045 ID=cds.MsaT031351.1;Parent=MsaT031351.1
Chr6 exon 24483678 24483728 24483678 ID=MsaT031351.1.exon1;Parent=MsaT031351.1
Chr6 CDS 24483678 24483728 24483678 ID=cds.MsaT031351.1;Parent=MsaT031351.1
Gene Sequence

>MsaT031351.1

ATGGAGGATGTTGATTCTGAATCTGTTACTCACCCAGTCGATTCCCCACAGGATTTGGGAAATTTGTTATTGTCTGAGGATGAGAATGAGCATAATGAAGAGAGTTATGATCCTGGAACAACAGAAGAGGTTGCAGATGACAGTAATGGTAACAAATTTGTGGAGGCAACTGCCGTGAATTGCTTGGAAGACATTTCAAGTATCAATTTCGAAGAGTTGAGCATAGATGATTTATGGAGATATCATTTTGTAGATGTTGGTGTGGCGTTTCTGTTTTACAATTGGTATGCGAGTTTTCATGGGTTTGCCGGCCGCAAAAGCAAAGTTGTAAGGAACAACAAAGGAGAGCTAATTCAGCAGACCTTTGTATGTTATAGGCAAGGGATTAGTAAAGAGAAAAGTGGCCCATCCACAAGCCGAAAGCGTGTGCCAAGAGCTCGTGTGAGGTGCGGTTGCGAAGCAAAGTGTCGCGTGCATATTGATGTAAATAGTGGTCGGTGGTACATGAAGTTTTTTAACGATGAACATAATCATTCATTGTTGGATGACCAATTCAAGGGAATGCTTCCGGCACATAGGAAGATGACAGTATGA
Protein sequence

>MsaT031351.1

MEDVDSESVTHPVDSPQDLGNLLLSEDENEHNEESYDPGTTEEVADDSNGNKFVEATAVNCLEDISSINFEELSIDDLWRYHFVDVGVAFLFYNWYASFHGFAGRKSKVVRNNKGELIQQTFVCYRQGISKEKSGPSTSRKRVPRARVRCGCEAKCRVHIDVNSGRWYMKFFNDEHNHSLLDDQFKGMLPAHRKMTV*