AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011597

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011597 MtrunA17_Chr3g0077361 73.156 488 115 4 1 474 20 505 0.0 709
MsaG011597 MtrunA17_Chr4g0009491 72.624 442 53 3 37 430 11 432 0.0 620
MsaG011597 MtrunA17_Chr4g0009491 53.171 205 74 1 18 200 220 424 1.38e-65 218
MsaG011597 MtrunA17_Chr4g0009491 43.299 194 78 4 285 449 11 201 4.55e-32 127
MsaG011597 MtrunA17_Chr3g0077381 70.655 443 52 5 37 430 34 447 0.0 589
MsaG011597 MtrunA17_Chr3g0077381 51.707 205 70 2 18 200 242 439 1.65e-59 202
MsaG011597 MtrunA17_Chr3g0077381 39.648 227 77 7 285 478 34 233 1.25e-27 114
MsaG011597 MtrunA17_Chr3g0077411 55.827 532 166 7 1 474 1 521 0.0 531
MsaG011597 MtrunA17_Chr3g0077461 49.064 481 160 10 38 468 22 467 7.79e-138 405
MsaG011597 MtrunA17_Chr3g0077461 49.167 240 110 5 18 248 232 468 8.35e-62 208
MsaG011597 MtrunA17_Chr5g0429931 56.388 227 77 1 38 242 10 236 1.14e-77 243
MsaG011597 MtrunA17_Chr5g0429931 48.101 237 75 2 286 474 10 246 2.75e-61 200
MsaG011597 MtrunA17_Chr3g0077451 57.078 219 81 2 37 242 10 228 1.16e-74 234
MsaG011597 MtrunA17_Chr3g0077451 50.417 240 60 4 285 475 10 239 2.04e-66 213
MsaG011597 MtrunA17_Chr3g0077431 50.000 208 56 3 306 475 3 200 1.65e-57 189
MsaG011597 MtrunA17_Chr3g0077431 53.968 189 74 2 67 242 1 189 4.44e-57 187
MsaG011597 MtrunA17_Chr3g0077421 49.038 208 57 3 306 474 3 200 7.64e-55 182
MsaG011597 MtrunA17_Chr3g0077421 53.684 190 74 2 67 242 1 190 8.95e-55 182
MsaG011597 MtrunA17_Chr3g0077441 49.038 208 57 3 306 474 3 200 7.64e-55 182
MsaG011597 MtrunA17_Chr3g0077441 53.684 190 74 2 67 242 1 190 8.95e-55 182
MsaG011597 MtrunA17_Chr1g0162441 40.404 99 59 0 23 121 7 105 3.29e-21 95.9
MsaG011597 MtrunA17_Chr3g0103181 27.881 269 139 8 22 241 11 273 1.80e-20 91.3
MsaG011597 MtrunA17_Chr3g0131891 27.240 279 144 7 16 235 12 290 7.52e-20 90.5
MsaG011597 MtrunA17_Chr5g0421921 39.640 111 66 1 364 474 3 112 1.07e-19 84.7
MsaG011597 MtrunA17_Chr5g0421731 39.640 111 66 1 364 474 3 112 1.07e-19 84.7
MsaG011597 MtrunA17_Chr7g0233561 25.000 284 142 7 22 235 17 299 4.28e-19 88.2
MsaG011597 MtrunA17_Chr5g0421851 36.306 157 80 4 337 474 32 187 5.96e-19 84.7
MsaG011597 MtrunA17_Chr3g0103171 26.953 256 134 6 38 241 5 259 7.95e-19 86.3
MsaG011597 MtrunA17_Chr5g0419201 35.354 99 64 0 23 121 16 114 2.58e-17 80.1
MsaG011597 MtrunA17_Chr7g0233571 34.653 101 66 0 22 122 9 109 6.58e-17 79.7
MsaG011597 MtrunA17_Chr4g0033961 34.513 113 65 1 9 121 1 104 3.77e-16 80.5
MsaG011597 MtrunA17_Chr7g0233541 31.250 112 72 1 39 145 2 113 1.81e-15 77.0
MsaG011597 MtrunA17_Chr1g0162411 33.613 119 68 1 23 141 7 114 2.03e-15 78.2
MsaG011597 MtrunA17_Chr7g0233521 34.884 86 56 0 39 124 2 87 2.46e-15 76.3
MsaG011597 MtrunA17_Chr3g0103151 37.000 100 61 1 22 121 11 108 3.43e-15 73.2
MsaG011597 MtrunA17_Chr3g0103191 38.384 99 59 1 23 121 12 108 7.96e-15 74.3
MsaG011597 MtrunA17_Chr7g0233531 28.689 122 80 2 39 157 2 119 1.44e-14 73.9
MsaG011597 MtrunA17_Chr1g0163071 37.647 85 53 0 39 123 2 86 4.96e-14 72.8
MsaG011597 MtrunA17_Chr8g0390841 32.323 99 67 0 23 121 39 137 5.77e-14 73.9
MsaG011597 MtrunA17_Chr1g0208771 33.333 84 56 0 38 121 12 95 4.68e-12 67.8
MsaG011597 MtrunA17_Chr1g0163221 23.129 294 156 9 15 246 3 288 2.42e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011597 AT3G18990.1 38.384 99 61 0 23 121 6 104 1.34e-18 87.4
MsaG011597 AT3G18990.1 34.234 111 65 2 369 474 233 340 9.92e-11 63.5
MsaG011597 AT3G18990.2 38.384 99 61 0 23 121 6 104 2.02e-18 87.4
MsaG011597 AT4G01580.1 29.412 153 95 2 3 155 15 154 3.04e-17 80.5
MsaG011597 AT1G49475.1 33.813 139 81 2 4 132 5 142 1.29e-16 78.6
MsaG011597 AT3G18960.2 35.185 108 70 0 16 123 23 130 1.84e-16 78.2
MsaG011597 AT3G18960.1 35.185 108 70 0 16 123 23 130 4.07e-16 77.4
MsaG011597 AT3G18960.3 35.227 88 57 0 36 123 6 93 2.63e-12 65.5
MsaG011597 AT1G49480.3 36.937 111 61 3 142 247 113 219 2.36e-11 63.9
MsaG011597 AT1G49480.3 35.714 112 62 4 369 474 118 225 2.88e-11 63.9
MsaG011597 AT1G49480.1 36.937 111 61 3 142 247 113 219 2.36e-11 63.9
MsaG011597 AT1G49480.1 35.714 112 62 4 369 474 118 225 2.88e-11 63.9
MsaG011597 AT1G49480.2 36.937 111 61 3 142 247 113 219 2.36e-11 63.9
MsaG011597 AT1G49480.2 35.714 112 62 4 369 474 118 225 2.88e-11 63.9

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGCTTTCCTTGAGAATTT+TGG 0.134641 3:-7672026 None:intergenic
GGCAGCACAATTCACTCTTT+TGG 0.221967 3:-7670506 None:intergenic
ACTGCTTTCCTTGAGAGTTT+TGG 0.223060 3:-7670742 None:intergenic
GATGAGTTTATAACAAGATT+TGG 0.242784 3:+7671435 MsaT011597.1:CDS
TTGTTGTCCTTTACAAATTT+CGG 0.251174 3:-7672111 None:intergenic
GATGAGTTTATAAATAGATT+TGG 0.270080 3:+7670205 MsaT011597.1:CDS
TATGGCTTTCATAAAATGTT+TGG 0.299040 3:-7669485 None:intergenic
TACTATCTCTTTATCTTGAA+TGG 0.303015 3:-7671145 None:intergenic
TTCAAAACTCCAAGTACTAA+TGG 0.347246 3:+7670451 MsaT011597.1:CDS
CTTTGATCTCCATTAGTACT+TGG 0.349576 3:-7670460 None:intergenic
ATTTGCATTGAGAATGATTT+GGG 0.350230 3:-7672075 None:intergenic
ATGAGTTTATAAATAGATTT+GGG 0.360502 3:+7670206 MsaT011597.1:CDS
ATGAGTTTATAACAAGATTT+GGG 0.367534 3:+7671436 MsaT011597.1:CDS
TGGAGTGCGATTGGAACATT+TGG 0.367737 3:-7672006 None:intergenic
CTACTCCTATGAAAAGTTCC+AGG 0.375640 3:+7671720 MsaT011597.1:CDS
TTGAATGGGCGAGGGAAGTA+TGG 0.377396 3:-7671130 None:intergenic
AAAATGTTTGGAATCTTTCT+CGG 0.394997 3:-7669473 None:intergenic
TATTTGCATTGAGAATGATT+TGG 0.397480 3:-7672076 None:intergenic
AATCTATTTATAAACTCATC+TGG 0.412994 3:-7670202 None:intergenic
AATCTTGTTATAAACTCATC+TGG 0.413404 3:-7671432 None:intergenic
ATGATCTGGAGGAGGAAGTA+TGG 0.415345 3:-7669503 None:intergenic
ACTATCTCTTTATCTTGAAT+GGG 0.418603 3:-7671144 None:intergenic
GCGACGGAACACATCTTTGC+CGG 0.419956 3:-7669438 None:intergenic
ATTCTGTAGTACGTTCCTTC+TGG 0.420347 3:+7670677 MsaT011597.1:intron
CTCTTTATCTTGAATGGGCG+AGG 0.437063 3:-7671139 None:intergenic
CAATGACAGAAAACGAAGTA+AGG 0.437201 3:+7671085 MsaT011597.1:CDS
AAATGTTTGGAATCTTTCTC+GGG 0.445648 3:-7669472 None:intergenic
AAGGGAAAACAATCTATTAG+AGG 0.448831 3:+7670838 MsaT011597.1:CDS
TGATGGTCGTGAATGGGAAA+TGG 0.450553 3:+7670264 MsaT011597.1:CDS
AATGGAGATCAAAGCATAAA+GGG 0.451246 3:+7670469 MsaT011597.1:CDS
TTCTCAATGCAAATAACAAT+GGG 0.452154 3:+7672084 MsaT011597.1:CDS
TTGGAATCTTTCTCGGGTGC+CGG 0.452488 3:-7669466 None:intergenic
TAATGGAGATCAAAGCATAA+AGG 0.452714 3:+7670468 MsaT011597.1:CDS
TATTGTATTTCGAATACAAA+AGG 0.459107 3:+7670773 MsaT011597.1:CDS
TCTTTCTCGGGTGCCGGTGA+CGG 0.465420 3:-7669460 None:intergenic
ATGTTTCGTGCGGTTGACTA+CGG 0.465735 3:+7672201 MsaT011597.1:CDS
GGGATTTCCGAAATTTGTAA+AGG 0.476832 3:+7672104 MsaT011597.1:CDS
TTGTTCCTGATGGTCGTGAA+TGG 0.477275 3:+7670257 MsaT011597.1:CDS
ATTTCCCATTCACGACCATC+AGG 0.482051 3:-7670262 None:intergenic
CTGTGTGTTTGTTTCTCCAT+TGG 0.483276 3:-7671693 None:intergenic
AAAATTCTCAAGGAAAGCAT+TGG 0.485732 3:+7672028 MsaT011597.1:CDS
GCAACTTGTAGCACAACAAC+AGG 0.493988 3:-7670896 None:intergenic
ACTGTTGCCAATTGTTGCTA+AGG 0.496870 3:-7670315 None:intergenic
GAATACTATTCCATCAGTTA+CGG 0.500398 3:+7670343 MsaT011597.1:CDS
ATGTGTTCCGTCGCCGTCAC+CGG 0.509296 3:+7669447 MsaT011597.1:CDS
ATTCTCAATGCAAATAACAA+TGG 0.514820 3:+7672083 MsaT011597.1:CDS
TGTTCCTGATGGTCGTGAAT+GGG 0.518981 3:+7670258 MsaT011597.1:CDS
CTCAAAACTCTAAGTACCAA+TGG 0.522769 3:+7671677 MsaT011597.1:intron
ACTGCCACTTGTTTCAACCC+TGG 0.525622 3:-7671738 None:intergenic
TGAGTTGATCAAGGAGAAGC+CGG 0.526203 3:+7672161 MsaT011597.1:CDS
TTGTGTGTTTGAGTTGATCA+AGG 0.529271 3:+7672152 MsaT011597.1:CDS
TCGGGTGCCGGTGACGGCGA+CGG 0.538170 3:-7669454 None:intergenic
GATGGTCGTGAATGGGAAAT+GGG 0.538439 3:+7670265 MsaT011597.1:CDS
GTGGATTCAGTAAATTTGCA+AGG 0.539955 3:+7670819 MsaT011597.1:CDS
TCTTTATCTTGAATGGGCGA+GGG 0.553093 3:-7671138 None:intergenic
TTTCATTCAAAATCCGTCAA+GGG 0.556507 3:+7670556 MsaT011597.1:CDS
TTCATGCTCCAAAACTCTCA+AGG 0.581396 3:+7670734 MsaT011597.1:CDS
AGGGAAAACAATCTATTAGA+GGG 0.584707 3:+7670839 MsaT011597.1:CDS
TGGATTCAGTAAATTTGCAA+GGG 0.590777 3:+7670820 MsaT011597.1:CDS
AAAACTCTCAAGGAAAGCAG+TGG 0.591204 3:+7670744 MsaT011597.1:CDS
CAATGCAGCCTCCATGCGGA+AGG 0.592466 3:+7671052 MsaT011597.1:intron
AATTGCTAAGCGAAATCTTG+TGG 0.593067 3:+7671859 MsaT011597.1:CDS
GACTGGGCACACCTTCCGCA+TGG 0.593609 3:-7671063 None:intergenic
ATGTGTTTGAGCTGATCAAG+AGG 0.597303 3:+7670870 MsaT011597.1:CDS
AATGACAGAAAACGAAGTAA+GGG 0.598240 3:+7671086 MsaT011597.1:CDS
ATCGCACTCCAAAATTCTCA+AGG 0.598710 3:+7672018 MsaT011597.1:CDS
ACAAGTTGCAGCAATTTGCA+CGG 0.599452 3:+7670910 MsaT011597.1:CDS
TACTCCTATGAAAAGTTCCA+GGG 0.613948 3:+7671721 MsaT011597.1:CDS
AAGAAACAATGAAGACTCAC+CGG 0.615286 3:+7669419 None:intergenic
AGTTCCAGGGTTGAAACAAG+TGG 0.632824 3:+7671734 MsaT011597.1:CDS
TCATCAATGCGAATAACGAG+TGG 0.633101 3:+7670800 MsaT011597.1:CDS
AAACTCTCAAGGAAAGCAGT+GGG 0.637619 3:+7670745 MsaT011597.1:CDS
GAAATGGGACTGACGAAATG+TGG 0.643468 3:+7670280 MsaT011597.1:CDS
CATTCATCATCACAGTAGAG+AGG 0.649717 3:-7672229 None:intergenic
AAAAGTCACAATGTTTCGTG+CGG 0.653466 3:+7672191 MsaT011597.1:CDS
AAGGACAACAATCTGACACA+TGG 0.654644 3:+7672123 MsaT011597.1:CDS
TGGGCACACCTTCCGCATGG+AGG 0.664596 3:-7671060 None:intergenic
ATTGCAATGCAGCCTCCATG+CGG 0.701402 3:+7671048 MsaT011597.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 7669427 7672242 7669427 ID=MsaG011597
Chr3 mRNA 7669427 7672242 7669427 ID=MsaT011597.1;Parent=MsaG011597
Chr3 exon 7669427 7669537 7669427 ID=MsaT011597.1.exon1;Parent=MsaT011597.1
Chr3 CDS 7669427 7669537 7669427 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7670196 7670588 7670196 ID=MsaT011597.1.exon2;Parent=MsaT011597.1
Chr3 CDS 7670196 7670588 7670196 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7670686 7670931 7670686 ID=MsaT011597.1.exon3;Parent=MsaT011597.1
Chr3 CDS 7670686 7670931 7670686 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7671060 7671164 7671060 ID=MsaT011597.1.exon4;Parent=MsaT011597.1
Chr3 CDS 7671060 7671164 7671060 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7671426 7671484 7671426 ID=MsaT011597.1.exon5;Parent=MsaT011597.1
Chr3 CDS 7671426 7671484 7671426 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7671514 7671579 7671514 ID=MsaT011597.1.exon6;Parent=MsaT011597.1
Chr3 CDS 7671514 7671579 7671514 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7671691 7671880 7671691 ID=MsaT011597.1.exon7;Parent=MsaT011597.1
Chr3 CDS 7671691 7671880 7671691 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Chr3 exon 7671970 7672242 7671970 ID=MsaT011597.1.exon8;Parent=MsaT011597.1
Chr3 CDS 7671970 7672242 7671970 ID=cds.MsaT011597.1;Parent=MsaT011597.1
Gene Sequence

>MsaT011597.1

ATGAAGACTCACCGGCAAAGATGTGTTCCGTCGCCGTCACCGGCACCCGAGAAAGATTCCAAACATTTTATGAAAGCCATACTTCCTCCTCCAGATCATACAAAAGAAATACAAATTCCAGATGAGTTTATAAATAGATTTGGGAATGAACTCAAGAATGTTGCTATCATTTTTGTTCCTGATGGTCGTGAATGGGAAATGGGACTGACGAAATGTGGCGAGCACGTTTTCCTTAGCAACAATTGGCAACAGTTTGCAGAATACTATTCCATCAGTTACGGTTGTTTTTTAGATTTCAAGTATGAAGGGAATTCAAAGTTTGATGTTGTTATATATGATACAACTTCTGTTGAGATTTCTTATCCATTCAAAACTCCAAGTACTAATGGAGATCAAAGCATAAAGGGTCCTAACTCTGATCCCAAAAGAGTGAATTGTGCTGCCAGTGAATTCAACCCAAAAAACCCTTATTTTCATTCAAAATCCGTCAAGGGCATTTTTGCGTACGTTCCTTCTGGTTTTGCTAAAAAGTATTTGATGCTAATGGTTCCGTTCATGCTCCAAAACTCTCAAGGAAAGCAGTGGGAAGTTTATTGTATTTCGAATACAAAAGGAAACTCATCAATGCGAATAACGAGTGGATTCAGTAAATTTGCAAGGGAAAACAATCTATTAGAGGGAGTTACATATGTGTTTGAGCTGATCAAGAGGAAGCCTGTTGTTGTGCTACAAGTTGCAGCAATTTGCACGCCTCCATGCGGAAGGTGTGCCCAGTCAATGACAGAAAACGAAGTAAGGGAATCGAAACATTTTAAGAAGGCCATACTTCCCTCGCCCATTCAAGATAAAGAGATAAAAATTCCAGATGAGTTTATAACAAGATTTGGGAACGAACTCAAGAATGTTGCTACATCATTCAAGAAACGCGACAATGACATTTTCTTTTGCAACGAATGGCAAGAGTTTGCAAAATACTATTTTACCAATGGAGAAACAAACACACAGTGTCCTACTCCTATGAAAAGTTCCAGGGTTGAAACAAGTGGCAGTCAAGTGAAAAAGCTCAAAATCAAGTTTGGACATGCTTTTAAAAGTGCAGAGGTTGCTGCCAATGAATTCAATCCAAAAAACCCTTATTTTTGTTCAAAAATTGCTAAGCGAAATCTTGTGAATGTTACTGCTAAATTTGCTCAAAAGTATCTAATGCCAAATGTTCCAATCGCACTCCAAAATTCTCAAGGAAAGCATTGGAAAGTTCATTGTATATTGTATAATCCCAAATCATTCTCAATGCAAATAACAATGGGATTTCCGAAATTTGTAAAGGACAACAATCTGACACATGGAGATTATTGTGTGTTTGAGTTGATCAAGGAGAAGCCGGTTGTGCTAAAAGTCACAATGTTTCGTGCGGTTGACTACGGCAAATCCTCTCTACTGTGA
Protein sequence

>MsaT011597.1

MKTHRQRCVPSPSPAPEKDSKHFMKAILPPPDHTKEIQIPDEFINRFGNELKNVAIIFVPDGREWEMGLTKCGEHVFLSNNWQQFAEYYSISYGCFLDFKYEGNSKFDVVIYDTTSVEISYPFKTPSTNGDQSIKGPNSDPKRVNCAASEFNPKNPYFHSKSVKGIFAYVPSGFAKKYLMLMVPFMLQNSQGKQWEVYCISNTKGNSSMRITSGFSKFARENNLLEGVTYVFELIKRKPVVVLQVAAICTPPCGRCAQSMTENEVRESKHFKKAILPSPIQDKEIKIPDEFITRFGNELKNVATSFKKRDNDIFFCNEWQEFAKYYFTNGETNTQCPTPMKSSRVETSGSQVKKLKIKFGHAFKSAEVAANEFNPKNPYFCSKIAKRNLVNVTAKFAQKYLMPNVPIALQNSQGKHWKVHCILYNPKSFSMQITMGFPKFVKDNNLTHGDYCVFELIKEKPVVLKVTMFRAVDYGKSSLL*