AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004931

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004931 MtrunA17_Chr6g0475591 87.302 63 8 0 124 186 1 63 1.77e-35 119
MsaG004931 MtrunA17_Chr1g0172971 80.769 52 10 0 1 52 66 117 3.22e-22 93.2
MsaG004931 MtrunA17_Chr7g0258861 28.090 178 113 4 10 186 43 206 1.15e-16 76.3
MsaG004931 MtrunA17_Chr1g0202341 29.878 164 99 4 23 186 99 246 4.55e-16 75.5
MsaG004931 MtrunA17_Chr2g0324011 26.404 178 115 4 10 186 43 205 1.36e-13 68.2
MsaG004931 MtrunA17_Chr5g0448761 24.242 165 113 2 20 184 105 257 7.41e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004931 AT4G38180.1 26.667 165 108 3 20 184 118 269 8.12e-13 66.6

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCATACTCAACAAGAAC+TGG 0.395633 1:-75874783 None:intergenic
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 1:+75874960 MsaT004931.1:CDS
AGCTGGAATATATTTGAAGT+TGG 0.433136 1:+75874842 MsaT004931.1:CDS
TGAATGTCTATAAGATATAT+AGG 0.445219 1:+75874874 MsaT004931.1:CDS
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 1:+75874825 MsaT004931.1:CDS
CGTTATGCTTGTAACAAAGA+AGG 0.449439 1:+75874708 MsaT004931.1:CDS
GCTTTAATAAATTCTAAAGC+TGG 0.450264 1:+75874990 MsaT004931.1:CDS
CTCAAGTAGCGCAAATGCTC+TGG 0.460440 1:-75874930 None:intergenic
ACAAAATAAGAAATCGGATA+AGG 0.469178 1:+75874674 MsaT004931.1:CDS
GAAGTGATGGGTCAAGGAGT+TGG 0.484292 1:+75875035 MsaT004931.1:CDS
TTACAACCAACCCTTTCCTC+TGG 0.485330 1:-75874819 None:intergenic
TCTAATGACAACTCGTCAAA+AGG 0.488137 1:+75875103 MsaT004931.1:CDS
CAATTCACAAAATAAGAAAT+CGG 0.490263 1:+75874668 MsaT004931.1:CDS
CGTCAAAAGGAGATGGTGGC+TGG 0.492100 1:+75875116 MsaT004931.1:CDS
GAGAACATCTTATGAAGTGA+TGG 0.499875 1:+75875022 MsaT004931.1:CDS
AAGAATTCTTGAATAACAGT+TGG 0.500613 1:-75875143 None:intergenic
TGTCTATAAGATATATAGGT+GGG 0.523740 1:+75874878 MsaT004931.1:CDS
TAACAAAGAAGGTTTCAAGA+AGG 0.538422 1:+75874719 MsaT004931.1:CDS
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 1:+75874720 MsaT004931.1:CDS
AAATGCTCTGGTTTATGTAA+TGG 0.552634 1:-75874918 None:intergenic
AATGAAGCTCTCTCGAAACC+AGG 0.565261 1:+75875170 MsaT004931.1:CDS
GTGATGGGTCAAGGAGTTGG+AGG 0.568802 1:+75875038 MsaT004931.1:CDS
TCTTATGAAGTGATGGGTCA+AGG 0.589029 1:+75875029 MsaT004931.1:CDS
GACAACTCGTCAAAAGGAGA+TGG 0.599038 1:+75875109 MsaT004931.1:CDS
AGAACATCTTATGAAGTGAT+GGG 0.601988 1:+75875023 MsaT004931.1:CDS
AACTCGTCAAAAGGAGATGG+TGG 0.603142 1:+75875112 MsaT004931.1:CDS
AGAACTGGACTGTCACATGT+TGG 0.620791 1:-75874768 None:intergenic
GGGTCAAGGAGTTGGAGGCA+CGG 0.621882 1:+75875043 MsaT004931.1:CDS
CTGGTTTATGTAATGGATGA+CGG 0.632884 1:-75874911 None:intergenic
ATGTCTATAAGATATATAGG+TGG 0.643489 1:+75874877 MsaT004931.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 75874651 75875214 75874651 ID=MsaG004931
Chr1 mRNA 75874651 75875214 75874651 ID=MsaT004931.1;Parent=MsaG004931
Chr1 exon 75874651 75875214 75874651 ID=MsaT004931.1.exon1;Parent=MsaT004931.1
Chr1 CDS 75874651 75875214 75874651 ID=cds.MsaT004931.1;Parent=MsaT004931.1
Gene Sequence

>MsaT004931.1

ATGTTGAAGTCCAAGAACAATTCACAAAATAAGAAATCGGATAAGGTACATTATGTGCGTTATGCTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTCTGCTTAATCCTAAAAACAGGCCAACATGTGACAGTCCAGTTCTTGTTGAGTATGAGAAAGCTAAAGAAAAACCAGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGTTGGATGAAGCGTTGAATGTCTATAAGATATATAGGTGGGAAGTTGATCACCGTCATCCATTACATAAACCAGAGCATTTGCGCTACTTGAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTTGCTTTAATAAATTCTAAAGCTGGAATGTCGATGAGAACATCTTATGAAGTGATGGGTCAAGGAGTTGGAGGCACGGAGAATCTTCCTTTTCGATTTTTGGACTTAAAGAACTATCTAATGACAACTCGTCAAAAGGAGATGGTGGCTGGTGAACCAACTGTTATTCAAGAATTCTTTAGAAATGAAGCTCTCTCGAAACCAGGTTTTTACTACGAATTTTCTTAA
Protein sequence

>MsaT004931.1

MLKSKNNSQNKKSDKVHYVRYACNKEGFKKGSLLNPKNRPTCDSPVLVEYEKAKEKPEERVGCKAGIYLKLDEALNVYKIYRWEVDHRHPLHKPEHLRYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMGQGVGGTENLPFRFLDLKNYLMTTRQKEMVAGEPTVIQEFFRNEALSKPGFYYEFS*