AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015969


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015969 MtrunA17_Chr1g0203051 57.143 231 92 1 1 224 1 231 1.08e-93 288
MsaG015969 MtrunA17_Chr8g0389811 44.898 147 81 0 37 183 49 195 4.49e-45 150
MsaG015969 MtrunA17_Chr2g0331371 46.875 128 68 0 53 180 36 163 2.08e-38 133
MsaG015969 MtrunA17_Chr6g0473421 42.735 117 65 2 53 167 36 152 6.06e-32 115
MsaG015969 MtrunA17_Chr1g0171741 36.979 192 113 3 17 202 73 262 2.79e-30 114
MsaG015969 MtrunA17_Chr1g0172931 41.284 109 64 0 46 154 50 158 3.39e-27 103
MsaG015969 MtrunA17_Chr2g0287651 29.218 243 158 5 3 243 18 248 4.68e-26 107
MsaG015969 MtrunA17_Chr7g0228051 58.140 86 26 1 7 82 1 86 7.22e-24 92.0
MsaG015969 MtrunA17_Chr2g0276841 30.719 153 101 4 78 226 76 227 2.25e-17 81.6
MsaG015969 MtrunA17_Chr2g0290391 31.081 148 98 3 78 223 57 202 2.46e-16 78.6
MsaG015969 MtrunA17_Chr2g0294841 28.358 201 130 7 33 223 5 201 1.16e-14 73.6
MsaG015969 MtrunA17_Chr1g0198761 34.058 138 79 5 84 211 59 194 2.48e-14 72.4
MsaG015969 MtrunA17_Chr5g0448761 28.662 157 110 2 78 232 66 222 1.87e-12 67.0
MsaG015969 MtrunA17_Chr5g0431001 35.172 145 80 6 78 211 67 208 2.03e-12 66.6
MsaG015969 MtrunA17_Chr8g0366311 43.103 58 33 0 46 103 53 110 6.27e-12 61.2
MsaG015969 MtrunA17_Chr1g0202341 25.806 186 125 4 49 225 20 201 3.11e-11 63.2
MsaG015969 MtrunA17_Chr6g0458391 30.573 157 99 5 35 190 59 206 3.59e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015969 AT5G28530.5 30.597 134 90 2 84 215 67 199 6.50e-19 86.3
MsaG015969 AT5G28530.1 30.000 140 95 2 78 215 61 199 6.52e-19 86.3
MsaG015969 AT5G28530.4 30.597 134 90 2 84 215 67 199 6.64e-19 86.3
MsaG015969 AT5G28530.3 30.597 134 90 2 84 215 67 199 7.02e-19 86.3
MsaG015969 AT5G28530.2 30.597 134 90 2 84 215 67 199 7.02e-19 86.3
MsaG015969 AT1G10240.2 27.907 172 118 5 45 211 20 190 1.28e-15 76.6
MsaG015969 AT1G10240.1 27.907 172 118 5 45 211 20 190 1.28e-15 76.6
MsaG015969 AT3G59470.2 28.351 194 117 7 21 197 16 204 2.65e-12 65.5
MsaG015969 AT3G59470.3 28.351 194 117 7 21 197 4 192 2.73e-12 65.5
MsaG015969 AT3G59470.1 28.351 194 117 7 21 197 4 192 2.73e-12 65.5
MsaG015969 AT4G38180.1 27.551 196 131 6 63 254 69 257 9.36e-12 65.5

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTCCACGTCACGCATATA+TGG 0.219751 3:+92844732 MsaT015969.1:CDS
GTCACGCATATATGGGTTTA+TGG 0.237721 3:+92844740 MsaT015969.1:CDS
GTCAATGTGGACCTGGAATT+TGG 0.245051 3:-92844562 None:intergenic
AATGGATACTGATGAAATTA+TGG 0.311861 3:+92843997 None:intergenic
TATGGTCGAGATAGAGAAAA+TGG 0.320310 3:+92844284 MsaT015969.1:CDS
CATCCAAGAACGAATGATTA+TGG 0.320951 3:-92844626 None:intergenic
GCCTGTTTACATGGATTTGC+TGG 0.327503 3:+92844390 MsaT015969.1:CDS
ATGGATAGCAGTTGTGGTTC+CGG 0.352619 3:+92844192 MsaT015969.1:CDS
TACATGGATTTGCTGGTAGA+AGG 0.356189 3:+92844397 MsaT015969.1:CDS
TGTCCATAATCATTCGTTCT+TGG 0.360196 3:+92844623 MsaT015969.1:CDS
ATGAAAAGTATGAGAAAATC+TGG 0.361489 3:+92844708 MsaT015969.1:CDS
GGTATAGCAAATCAAACATT+AGG 0.366824 3:+92844499 MsaT015969.1:CDS
AATTGGTATGCCTGTTTACA+TGG 0.372265 3:+92844381 MsaT015969.1:CDS
TGATACTAGGTGTGGTTGTC+AGG 0.380601 3:+92844539 MsaT015969.1:CDS
GATGCGCTTGAATTTCTTAG+AGG 0.400967 3:+92844860 MsaT015969.1:CDS
GATAGAGAAAATGGATTTGA+AGG 0.411100 3:+92844293 MsaT015969.1:CDS
CATGATCGGTCATCTTCCTA+TGG 0.414592 3:-92844674 None:intergenic
TGGTTGTCAGGCCAAATTCC+AGG 0.414694 3:+92844551 MsaT015969.1:CDS
TGCAACAGCCGTTGATAGTA+TGG 0.416450 3:+92844266 MsaT015969.1:CDS
ATGGATTTGAAGGAAATAAC+TGG 0.423442 3:+92844303 MsaT015969.1:CDS
AAAACATAAATGCTACTTCC+CGG 0.427247 3:-92844356 None:intergenic
TTTCCACGTCACGCATATAT+GGG 0.434030 3:+92844733 MsaT015969.1:CDS
ACCAGCAAATCCATGTAAAC+AGG 0.438466 3:-92844391 None:intergenic
TGACAACCACACCTAGTATC+AGG 0.442482 3:-92844537 None:intergenic
TTCTTAGAGGGATGTGCACC+CGG 0.447988 3:+92844873 MsaT015969.1:CDS
GTGGTTCCGGTTCAGATGTA+GGG 0.453423 3:+92844205 MsaT015969.1:CDS
CGAAGTTGCATGAAAATCCT+TGG 0.461851 3:-92844239 None:intergenic
TGTGGTTCCGGTTCAGATGT+AGG 0.465002 3:+92844204 MsaT015969.1:CDS
GGATTCCCCTACATCTGAAC+CGG 0.474320 3:-92844211 None:intergenic
CATAATCATTCGTTCTTGGA+TGG 0.492961 3:+92844627 MsaT015969.1:CDS
AGCCACATTCAGAATTTGAT+GGG 0.494094 3:+92844035 MsaT015969.1:CDS
GAGCCACATTCAGAATTTGA+TGG 0.496109 3:+92844034 MsaT015969.1:CDS
ATAAATGCTACTTCCCGGTC+AGG 0.500022 3:-92844351 None:intergenic
TAGGAATGTTAGAAATGCTA+AGG 0.502321 3:+92844422 MsaT015969.1:CDS
GAGAGCATAAACCTGATACT+AGG 0.510008 3:+92844526 MsaT015969.1:CDS
CATTTGATATTTGTCATGAT+CGG 0.512481 3:-92844688 None:intergenic
TGGGTTTATGGCTACACTGC+GGG 0.526393 3:+92844752 MsaT015969.1:CDS
TAGGAAATGGATAGCAGTTG+TGG 0.534341 3:+92844186 MsaT015969.1:intron
TCGGTCATCTTCCTATGGGC+TGG 0.534343 3:-92844669 None:intergenic
ATGATCGGTCATCTTCCTAT+GGG 0.536316 3:-92844673 None:intergenic
GCATGAAAATCCTTGGTTGT+TGG 0.548320 3:-92844232 None:intergenic
AACAAACATTTATCTGCCAT+AGG 0.552034 3:+92844457 MsaT015969.1:CDS
TCTTAGAGGGATGTGCACCC+GGG 0.552215 3:+92844874 MsaT015969.1:CDS
CATCCCTAAAACCTTCCCTA+TGG 0.552854 3:-92844473 None:intergenic
TCCAAAACATCATATCATCC+CGG 0.555169 3:-92844892 None:intergenic
CAATGAACAATTTAAAGAGA+GGG 0.563691 3:+92844814 MsaT015969.1:CDS
ACATTTATCTGCCATAGGGA+AGG 0.566963 3:+92844462 MsaT015969.1:CDS
ATGCGCTTGAATTTCTTAGA+GGG 0.567453 3:+92844861 MsaT015969.1:CDS
ACAAACATTTATCTGCCATA+GGG 0.567673 3:+92844458 MsaT015969.1:CDS
CCAAAACATCATATCATCCC+GGG 0.573475 3:-92844891 None:intergenic
TATTAAAGTCAATGTGGACC+TGG 0.592857 3:-92844569 None:intergenic
GTTTATGGCTACACTGCGGG+TGG 0.597506 3:+92844755 MsaT015969.1:CDS
ACAATGAACAATTTAAAGAG+AGG 0.600670 3:+92844813 MsaT015969.1:CDS
TAACTGGTGAAGAAATAATG+AGG 0.602310 3:+92844319 MsaT015969.1:CDS
TGGTTCCGGTTCAGATGTAG+GGG 0.614160 3:+92844206 MsaT015969.1:CDS
TTGACTTTAATAGTGAGCGT+TGG 0.616844 3:+92844580 MsaT015969.1:CDS
GCCACATTCAGAATTTGATG+GGG 0.626749 3:+92844036 MsaT015969.1:CDS
AATGAACAATTTAAAGAGAG+GGG 0.635100 3:+92844815 MsaT015969.1:CDS
TTTATGGCTACACTGCGGGT+GGG 0.635517 3:+92844756 MsaT015969.1:CDS
TATCTCGACCATACTATCAA+CGG 0.641801 3:-92844274 None:intergenic
AGGAATGTTAGAAATGCTAA+GGG 0.644822 3:+92844423 MsaT015969.1:CDS
AGCGAATGTTACCAGCCCAT+AGG 0.647822 3:+92844658 MsaT015969.1:CDS
GATTTGCTGGTAGAAGGAGT+AGG 0.650049 3:+92844403 MsaT015969.1:CDS
CATAAACCTGATACTAGGTG+TGG 0.663484 3:+92844531 MsaT015969.1:CDS
CCACATTCAGAATTTGATGG+GGG 0.674044 3:+92844037 MsaT015969.1:CDS
GCTCACTATTAAAGTCAATG+TGG 0.676886 3:-92844575 None:intergenic
AAACCCATATATGCGTGACG+TGG 0.684946 3:-92844736 None:intergenic
GTAGGGGAATCCAACAACCA+AGG 0.709897 3:+92844222 MsaT015969.1:CDS
ATGGGTTTATGGCTACACTG+CGG 0.736490 3:+92844751 MsaT015969.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 92843998 92844905 92843998 ID=MsaG015969
Chr3 mRNA 92843998 92844905 92843998 ID=MsaT015969.1;Parent=MsaG015969
Chr3 exon 92843998 92844069 92843998 ID=MsaT015969.1.exon1;Parent=MsaT015969.1
Chr3 CDS 92843998 92844069 92843998 ID=cds.MsaT015969.1;Parent=MsaT015969.1
Chr3 exon 92844189 92844905 92844189 ID=MsaT015969.1.exon2;Parent=MsaT015969.1
Chr3 CDS 92844189 92844905 92844189 ID=cds.MsaT015969.1;Parent=MsaT015969.1
Gene Sequence

>MsaT015969.1

ATGGATACTGATGAAATTATGGAGAATTTTCAAGCAGAGCCACATTCAGAATTTGATGGGGGCGATCCGGAGGAAATGGATAGCAGTTGTGGTTCCGGTTCAGATGTAGGGGAATCCAACAACCAAGGATTTTCATGCAACTTCGATGATGCAACAGCCGTTGATAGTATGGTCGAGATAGAGAAAATGGATTTGAAGGAAATAACTGGTGAAGAAATAATGAGGTATCATTTTCCTGACCGGGAAGTAGCATTTATGTTTTATAATTGGTATGCCTGTTTACATGGATTTGCTGGTAGAAGGAGTAGGAATGTTAGAAATGCTAAGGGTCAAATTGTTCAACAAACATTTATCTGCCATAGGGAAGGTTTTAGGGATGATAGGTATAGCAAATCAAACATTAGGAAAAGAGAGCATAAACCTGATACTAGGTGTGGTTGTCAGGCCAAATTCCAGGTCCACATTGACTTTAATAGTGAGCGTTGGTATATTAAAAATTTTGATAATGTCCATAATCATTCGTTCTTGGATGGTAAGTATGAGCGAATGTTACCAGCCCATAGGAAGATGACCGATCATGACAAATATCAAATGAAAAGTATGAGAAAATCTGGCATTTCCACGTCACGCATATATGGGTTTATGGCTACACTGCGGGTGGGTATGAAAAATTACCTTTTTCAAAAAGAGACATGTACAATGAACAATTTAAAGAGAGGGGTAGTAAGATGTCTGATGCAGATGATGCGCTTGAATTTCTTAGAGGGATGTGCACCCGGGATGATATGA

Protein sequence

>MsaT015969.1

MDTDEIMENFQAEPHSEFDGGDPEEMDSSCGSGSDVGESNNQGFSCNFDDATAVDSMVEIEKMDLKEITGEEIMRYHFPDREVAFMFYNWYACLHGFAGRRSRNVRNAKGQIVQQTFICHREGFRDDRYSKSNIRKREHKPDTRCGCQAKFQVHIDFNSERWYIKNFDNVHNHSFLDGKYERMLPAHRKMTDHDKYQMKSMRKSGISTSRIYGFMATLRVGMKNYLFQKETCTMNNLKRGVVRCLMQMMRLNFLEGCAPGMI*