AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019528

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019528 MtrunA17_Chr4g0018761 92.157 255 18 1 1 253 1 255 3.59e-177 487
MsaG019528 MtrunA17_Chr4g0018741 63.636 121 33 2 78 198 1 110 4.31e-45 147
MsaG019528 MtrunA17_Chr3g0079061 29.057 265 150 7 6 234 5 267 3.16e-19 84.3
MsaG019528 MtrunA17_Chr3g0079131 25.993 277 145 6 7 236 6 269 6.54e-19 83.6
MsaG019528 MtrunA17_Chr3g0079091 40.566 106 60 1 6 108 5 110 9.33e-17 75.9
MsaG019528 MtrunA17_Chr4g0056091 40.860 93 36 3 179 252 210 302 2.21e-14 71.6
MsaG019528 MtrunA17_Chr7g0231181 41.000 100 34 4 177 252 240 338 8.72e-13 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019528 AT1G02030.1 27.820 266 154 7 9 252 7 256 2.59e-20 87.8
MsaG019528 AT3G60580.1 28.378 296 136 9 9 252 6 277 5.68e-17 79.0
MsaG019528 AT2G45120.1 33.594 128 53 3 157 252 174 301 3.24e-13 68.6
MsaG019528 AT5G61470.1 43.836 73 29 3 174 234 225 297 7.50e-12 64.7

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGATCGTTTGCGGGTT+GGG 0.196951 4:+30234506 None:intergenic
TTCTGTGTTTGTTGTTCTTC+AGG 0.252763 4:+30234610 None:intergenic
GATTGTTAGTCTCAAGCTTT+GGG 0.255553 4:+30234701 None:intergenic
TTGAACTCTCTATTGCAATA+TGG 0.267485 4:+30234169 None:intergenic
AGTTGCTAGCCTCTTCATTT+AGG 0.305435 4:+30234055 None:intergenic
TGATTGTTAGTCTCAAGCTT+TGG 0.307297 4:+30234700 None:intergenic
ATCCAGATGTTATGATGTTA+TGG 0.316124 4:-30234435 MsaT019528.1:CDS
ATTAAGTTTGCGGTGGCATT+TGG 0.323114 4:+30234489 None:intergenic
ATCATAACATCTGGATCTAT+TGG 0.340367 4:+30234442 None:intergenic
AGTGAGGAAGCAGTTTGATT+TGG 0.345105 4:+30234643 None:intergenic
CATTTGGATCGTTTGCGGGT+TGG 0.363193 4:+30234505 None:intergenic
CGATCTTATCAAGCTCTTTG+TGG 0.375754 4:-30234250 MsaT019528.1:CDS
GCACCTCTGGCACTTGAAGC+TGG 0.376849 4:+30234285 None:intergenic
GTGGCATTTGGATCGTTTGC+GGG 0.380859 4:+30234501 None:intergenic
GATCAAGAAACAAAATATAA+AGG 0.388263 4:-30234380 MsaT019528.1:CDS
GCCTCCAATGGCTTTCCAAC+TGG 0.393981 4:+30234759 None:intergenic
TTTGGATCGTTTGCGGGTTG+GGG 0.405217 4:+30234507 None:intergenic
ATTTGGATGCAGGGTTAAAT+CGG 0.411837 4:+30234660 None:intergenic
TAGCCTCTTCATTTAGGATC+TGG 0.419554 4:+30234061 None:intergenic
AAGCAGTTTGATTTGGATGC+AGG 0.424266 4:+30234650 None:intergenic
CCTGTGGGATTTGTGGGAAA+TGG 0.429507 4:-30234786 MsaT019528.1:CDS
CCCCATAACATCATAACATC+TGG 0.429675 4:+30234433 None:intergenic
GATCTTATCAAGCTCTTTGT+GGG 0.431442 4:-30234249 MsaT019528.1:CDS
AGGCCACATGAGATCTCATT+TGG 0.432342 4:-30234740 MsaT019528.1:CDS
TGAACTCTCTATTGCAATAT+GGG 0.437074 4:+30234170 None:intergenic
TTGCAATATGGGCACTGAAA+AGG 0.451950 4:+30234181 None:intergenic
TCCAGATGTTATGATGTTAT+GGG 0.452652 4:-30234434 MsaT019528.1:CDS
GAAAACCCTGTGGGATTTGT+GGG 0.454964 4:-30234792 MsaT019528.1:CDS
GGAAAACCCTGTGGGATTTG+TGG 0.474170 4:-30234793 MsaT019528.1:CDS
GTGTTTGTTGTTCTTCAGGA+TGG 0.487305 4:+30234614 None:intergenic
CAGCCACCACATTAAGTTTG+CGG 0.491506 4:+30234479 None:intergenic
TTTGCCAGTTGGAAAGCCAT+TGG 0.493775 4:-30234763 MsaT019528.1:CDS
AGATCTCATGTGGCCTCCAA+TGG 0.507247 4:+30234747 None:intergenic
AGAAGTTGCGTTTCATAGAT+CGG 0.515081 4:+30234584 None:intergenic
GCCAGTTGGAAAGCCATTGG+AGG 0.533079 4:-30234760 MsaT019528.1:CDS
GGTGGCATTTGGATCGTTTG+CGG 0.534803 4:+30234500 None:intergenic
AAAGGAAACTAACAAAATGA+AGG 0.534850 4:-30234362 MsaT019528.1:CDS
TTCAAGACTGCTCAAGCACT+CGG 0.534991 4:-30234151 MsaT019528.1:CDS
AGCAGTTTGATTTGGATGCA+GGG 0.549703 4:+30234651 None:intergenic
CCAGATGTTATGATGTTATG+GGG 0.550013 4:-30234433 MsaT019528.1:CDS
CACAAAGAGCTTGATAAGAT+CGG 0.560648 4:+30234251 None:intergenic
GCAACAATGGAGAGGAGCAT+CGG 0.563031 4:-30234814 None:intergenic
GTGGGAAATGGTTTGCCAGT+TGG 0.572710 4:-30234774 MsaT019528.1:CDS
CCATTTCCCACAAATCCCAC+AGG 0.574541 4:+30234786 None:intergenic
AGCTTCAAGTGCCAGAGGTG+CGG 0.578877 4:-30234283 MsaT019528.1:CDS
TGAATTTCGAAGTGTGTCAG+TGG 0.600629 4:-30234095 MsaT019528.1:CDS
TTGTTAGTCTCAAGCTTTGG+GGG 0.604653 4:+30234703 None:intergenic
CATTTCCCACAAATCCCACA+GGG 0.605109 4:+30234787 None:intergenic
AAGCACTCGGTGGACACAAG+AGG 0.606213 4:-30234138 MsaT019528.1:CDS
CAGATGTTATGATGTTATGG+GGG 0.618129 4:-30234432 MsaT019528.1:CDS
ATGCCACCGCAAACTTAATG+TGG 0.625679 4:-30234485 MsaT019528.1:CDS
ATTGTTAGTCTCAAGCTTTG+GGG 0.629340 4:+30234702 None:intergenic
AGCACTCGGTGGACACAAGA+GGG 0.633704 4:-30234137 MsaT019528.1:CDS
CCACCACATTAAGTTTGCGG+TGG 0.634230 4:+30234482 None:intergenic
TGACCAAATGAGATCTCATG+TGG 0.650881 4:+30234737 None:intergenic
AAGCCAGCTTCAAGTGCCAG+AGG 0.652459 4:-30234288 MsaT019528.1:CDS
TACTGCAAAAGTGACAGCGA+TGG 0.663269 4:-30234217 MsaT019528.1:CDS
GGAGCATCGGAAAACCCTGT+GGG 0.672394 4:-30234801 MsaT019528.1:CDS
AAGACTGCTCAAGCACTCGG+TGG 0.680534 4:-30234148 MsaT019528.1:CDS
AGGAGCATCGGAAAACCCTG+TGG 0.684970 4:-30234802 MsaT019528.1:CDS
CCACCGCAAACTTAATGTGG+TGG 0.693036 4:-30234482 MsaT019528.1:CDS
TTCAGGATGGAAAGTCAGTG+AGG 0.717603 4:+30234627 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 30234069 30234830 30234069 ID=MsaG019528
Chr4 mRNA 30234069 30234830 30234069 ID=MsaT019528.1;Parent=MsaG019528
Chr4 exon 30234069 30234830 30234069 ID=MsaT019528.1.exon1;Parent=MsaT019528.1
Chr4 CDS 30234069 30234830 30234069 ID=cds.MsaT019528.1;Parent=MsaT019528.1
Gene Sequence

>MsaT019528.1

ATGGAGAGGAGCATCGGAAAACCCTGTGGGATTTGTGGGAAATGGTTTGCCAGTTGGAAAGCCATTGGAGGCCACATGAGATCTCATTTGGTCAAATTGCCGATTCCCCCAAAGCTTGAGACTAACAATCAAGCTCAAGATAATTCAGCCGATTTAACCCTGCATCCAAATCAAACTGCTTCCTCACTGACTTTCCATCCTGAAGAACAACAAACACAGAACTTCCGATCTATGAAACGCAACTTCTCTGCTTTCTCTGCAGACTCAAACAGAGAAAACAAACCTGTGTCTTACCTGAAAACCCCAACCCGCAAACGATCCAAATGCCACCGCAAACTTAATGTGGTGGCTGATACAAAAGATCTGCCAATAGATCCAGATGTTATGATGTTATGGGGGTTTTACAAAGATGCACAAAAAAGGGAAGAGATCAAGAAACAAAATATAAAGGAAACTAACAAAATGAAGGAAAAAGACATTGAAGACAGTAGAGATGACTCGATTATTCAAGCTCACACTCAAGCCAGCTTCAAGTGCCAGAGGTGCGGAAAAATGTTCCGATCTTATCAAGCTCTTTGTGGGCACAAAGCATACTGCAAAAGTGACAGCGATGGTGAAGATCAGAAACCTTTTCAGTGCCCATATTGCAATAGAGAGTTCAAGACTGCTCAAGCACTCGGTGGACACAAGAGGGTACACTTTTCAAGTGCTAATGAATTTCGAAGTGTGTCAGTGGATCTCAATTTTCCAGATCCTAAATGA
Protein sequence

>MsaT019528.1

MERSIGKPCGICGKWFASWKAIGGHMRSHLVKLPIPPKLETNNQAQDNSADLTLHPNQTASSLTFHPEEQQTQNFRSMKRNFSAFSADSNRENKPVSYLKTPTRKRSKCHRKLNVVADTKDLPIDPDVMMLWGFYKDAQKREEIKKQNIKETNKMKEKDIEDSRDDSIIQAHTQASFKCQRCGKMFRSYQALCGHKAYCKSDSDGEDQKPFQCPYCNREFKTAQALGGHKRVHFSSANEFRSVSVDLNFPDPK*