AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010260

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010260 MtrunA17_Chr2g0322221 96.923 195 3 1 1 192 1 195 6.95e-142 393
MsaG010260 MtrunA17_Chr4g0025361 68.947 190 46 6 3 192 1 177 1.24e-76 227
MsaG010260 MtrunA17_Chr4g0063931 59.064 171 65 2 9 179 11 176 8.44e-63 192
MsaG010260 MtrunA17_Chr4g0011841 52.850 193 71 7 14 192 25 211 3.60e-51 164
MsaG010260 MtrunA17_Chr4g0056521 47.805 205 69 6 12 192 18 208 9.14e-50 160
MsaG010260 MtrunA17_Chr5g0413381 52.201 159 59 3 12 161 12 162 7.73e-48 154
MsaG010260 MtrunA17_Chr5g0419871 45.062 162 74 5 1 160 7 155 8.36e-37 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010260 AT1G08465.1 61.735 196 59 6 1 192 1 184 3.19e-76 226
MsaG010260 AT2G26580.2 61.582 177 52 6 3 177 1 163 3.07e-62 191
MsaG010260 AT2G26580.1 61.582 177 52 6 3 177 1 163 3.07e-62 191
MsaG010260 AT2G45190.1 49.254 201 84 5 8 192 19 217 1.42e-53 171
MsaG010260 AT4G00180.1 47.418 213 82 5 8 192 19 229 5.73e-49 159
MsaG010260 AT4G00180.2 46.000 200 78 5 21 192 1 198 3.08e-40 136
MsaG010260 AT1G23420.1 44.379 169 69 3 13 164 20 180 2.76e-39 134
MsaG010260 AT1G23420.2 44.379 169 69 3 13 164 51 211 7.53e-39 134
MsaG010260 AT2G45190.2 69.565 92 24 3 105 192 62 153 5.95e-37 126
MsaG010260 AT1G69180.1 44.444 153 66 3 12 160 19 156 1.91e-34 120

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACGAATTGGAGGAGTTCT+AGG 0.259388 2:+70749258 None:intergenic
GCTTCCCTGTGACTGATATC+TGG 0.320339 2:+70746474 None:intergenic
CAAAGTTGGACCATGGGGTT+GGG 0.322720 2:-70745583 MsaT010260.1:CDS
GGAGGAAATACAAAGAATTA+AGG 0.364362 2:-70746505 MsaT010260.1:CDS
CATTCACTTTGGGTTAAAGT+TGG 0.389082 2:-70745621 MsaT010260.1:CDS
GTGTTCCTTCTGCTTATAAT+CGG 0.399754 2:-70747370 MsaT010260.1:CDS
GGAACACGTTGTCTCTTCTC+TGG 0.447042 2:+70747386 None:intergenic
GAGTGAGACTCACGACGAAT+TGG 0.463921 2:+70749246 None:intergenic
GCAAAGTTGGACCATGGGGT+TGG 0.469067 2:-70745584 MsaT010260.1:CDS
TAATTTGCTTTCTGTTAACA+TGG 0.488657 2:-70749649 MsaT010260.1:CDS
CTAGGTTGCTCATGGACTAA+AGG 0.498311 2:+70749276 None:intergenic
GAGGAGTTCTAGGTTGCTCA+TGG 0.501712 2:+70749268 None:intergenic
CACTTTGGGTTAAAGTTGGA+TGG 0.502249 2:-70745617 MsaT010260.1:CDS
AAAGTTGGACCATGGGGTTG+GGG 0.506917 2:-70745582 MsaT010260.1:CDS
GAAAGCAGGAAGGAAGTTGT+AGG 0.512942 2:-70749339 MsaT010260.1:CDS
AGCAAGCAAAGTTGGACCAT+GGG 0.525967 2:-70745589 MsaT010260.1:CDS
TGGTAGCAAGCAAGCAAAGT+TGG 0.534431 2:-70745597 MsaT010260.1:CDS
GAGTAGCTTCCCCAACCCCA+TGG 0.548405 2:+70745573 None:intergenic
ACTGTCATCAAGAAGAAAGC+AGG 0.549205 2:-70749353 MsaT010260.1:CDS
GTCAATGGATATGAATATGA+TGG 0.554037 2:-70751372 MsaT010260.1:CDS
TGAGACTCACGACGAATTGG+AGG 0.556210 2:+70749249 None:intergenic
GTAATCCAGATATCAGTCAC+AGG 0.560520 2:-70746479 MsaT010260.1:CDS
TCCTCAACAAGATCACCCTC+AGG 0.562715 2:-70749601 MsaT010260.1:intron
ACCTGAGGGTGATCTTGTTG+AGG 0.567055 2:+70749600 None:intergenic
AATTTGCTTTCTGTTAACAT+GGG 0.574518 2:-70749648 MsaT010260.1:CDS
ATGAACCGATTATAAGCAGA+AGG 0.594934 2:+70747365 None:intergenic
GAAGCTACTCAAAAGTCTAA+CGG 0.596651 2:-70745560 MsaT010260.1:CDS
TGAGGGTGATCTTGTTGAGG+AGG 0.608495 2:+70749603 None:intergenic
AAGCAAGCAAAGTTGGACCA+TGG 0.609079 2:-70745590 MsaT010260.1:CDS
ATAGTCAGCAAACTACTGCA+TGG 0.610734 2:+70749699 None:intergenic
TTTAACCCAAAGTGAATGTG+AGG 0.621756 2:+70745626 None:intergenic
GCAAGCAAAGTTGGACCATG+GGG 0.655051 2:-70745588 MsaT010260.1:CDS
TAATCCAGATATCAGTCACA+GGG 0.666315 2:-70746478 MsaT010260.1:CDS
TCATCAAGAAGAAAGCAGGA+AGG 0.669010 2:-70749349 MsaT010260.1:CDS
ACTATAGTGACAGTTAGATG+TGG 0.681695 2:-70749681 MsaT010260.1:CDS
CTTCTGCAACACTACTCTAG+CGG 0.702590 2:-70751315 MsaT010260.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 70745550 70751396 70745550 ID=MsaG010260
Chr2 mRNA 70745550 70751396 70745550 ID=MsaT010260.1;Parent=MsaG010260
Chr2 exon 70745550 70745660 70745550 ID=MsaT010260.1.exon6;Parent=MsaT010260.1
Chr2 CDS 70745550 70745660 70745550 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Chr2 exon 70746452 70746527 70746452 ID=MsaT010260.1.exon5;Parent=MsaT010260.1
Chr2 CDS 70746452 70746527 70746452 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Chr2 exon 70747362 70747410 70747362 ID=MsaT010260.1.exon4;Parent=MsaT010260.1
Chr2 CDS 70747362 70747410 70747362 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Chr2 exon 70749259 70749391 70749259 ID=MsaT010260.1.exon3;Parent=MsaT010260.1
Chr2 CDS 70749259 70749391 70749259 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Chr2 exon 70749602 70749730 70749602 ID=MsaT010260.1.exon2;Parent=MsaT010260.1
Chr2 CDS 70749602 70749730 70749602 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Chr2 exon 70751316 70751396 70751316 ID=MsaT010260.1.exon1;Parent=MsaT010260.1
Chr2 CDS 70751316 70751396 70751316 ID=cds.MsaT010260.1;Parent=MsaT010260.1
Gene Sequence

>MsaT010260.1

ATGTCAATGGATATGAATATGATGGCAACAAATGAACGTGTTTGTTATGTTCACTGCAACTTCTGCAACACTACTCTAGCGGTTAGTGTTCCATGCAGTAGTTTGCTGACTATAGTGACAGTTAGATGTGGTCATTGTGCTAATTTGCTTTCTGTTAACATGGGAGCAGCATCACTTCAATCTTTTCCTCCTCAACAAGATCACCCTCAGAAACAGCAGCTTATAAACTGTCATCAAGAAGAAAGCAGGAAGGAAGTTGTAGGATCATCATCATCTTCTTCTTCAAAATGCAAAGCATTTCAGCCTTTAGTCCATGAGCAACCTAGAACTCCTCCAATTCGTCCTCCAGAGAAGAGACAACGTGTTCCTTCTGCTTATAATCGGTTCATTAAGGAGGAAATACAAAGAATTAAGGCTAGTAATCCAGATATCAGTCACAGGGAAGCATTTAGCACAGCAGCTAAAAACTGGGCACATTTTCCTCACATTCACTTTGGGTTAAAGTTGGATGGTAGCAAGCAAGCAAAGTTGGACCATGGGGTTGGGGAAGCTACTCAAAAGTCTAACGGATTCTATTGA
Protein sequence

>MsaT010260.1

MSMDMNMMATNERVCYVHCNFCNTTLAVSVPCSSLLTIVTVRCGHCANLLSVNMGAASLQSFPPQQDHPQKQQLINCHQEESRKEVVGSSSSSSSKCKAFQPLVHEQPRTPPIRPPEKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGSKQAKLDHGVGEATQKSNGFY*