AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009243

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009243 MtrunA17_Chr2g0311101 85.852 311 26 5 1 306 13 310 2.14e-176 489
MsaG009243 MtrunA17_Chr1g0179061 87.805 246 13 8 1 235 1 240 1.95e-145 409
MsaG009243 MtrunA17_Chr8g0384141 58.491 53 22 0 176 228 125 177 6.68e-13 67.4
MsaG009243 MtrunA17_Chr3g0134001 58.491 53 22 0 176 228 182 234 2.79e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009243 AT1G30670.1 37.445 227 123 6 87 299 41 262 1.83e-31 118
MsaG009243 AT2G34820.1 39.827 231 108 6 87 296 66 286 4.10e-26 105
MsaG009243 AT3G21330.1 60.377 53 21 0 176 228 280 332 4.57e-13 69.3
MsaG009243 AT5G01305.1 50.000 58 29 0 176 233 48 105 5.04e-12 63.9

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCATTATGATTGCTCAATT+TGG 0.191234 2:-55687662 None:intergenic
AGTTGGAATGCTTCAACTTA+TGG 0.195386 2:+55686764 MsaT009243.1:CDS
ATCTCTGCTGTGTTCATCTT+TGG 0.238213 2:-55686699 None:intergenic
AAAATGAAATCTTCCTCATT+TGG 0.263570 2:-55686384 None:intergenic
AATTTGGTGACAAACTCTTT+TGG 0.289383 2:-55687646 None:intergenic
CCTCATAGTATAACAGCTTT+TGG 0.301868 2:-55686437 None:intergenic
AAATGAAATCTTCCTCATTT+GGG 0.325640 2:-55686383 None:intergenic
TACAATTTCTCTTGAACAAA+TGG 0.348402 2:-55687601 None:intergenic
GAGAAGCTTCATTGAAATAG+TGG 0.359894 2:-55686221 None:intergenic
ATCAAAACCTACCATCCTTA+AGG 0.361760 2:+55687690 MsaT009243.1:CDS
AAATAACACTATTCTTGCTT+TGG 0.365183 2:-55687751 None:intergenic
TCAAAGGAAGCAAAAGGGTT+AGG 0.369513 2:-55686531 None:intergenic
GCAGTTTGAATAGGTTGATA+AGG 0.385279 2:-55686135 None:intergenic
GAGCTTGGGAAGTTGGTTCC+TGG 0.392352 2:+55686672 MsaT009243.1:CDS
GACACAAGAGCTTGGGAAGT+TGG 0.397999 2:+55686665 MsaT009243.1:CDS
TTGATTATTTCAGGAAGAAA+AGG 0.418378 2:+55687537 MsaT009243.1:intron
CAAGCTGTTTCAGACCCTTA+AGG 0.427556 2:-55687705 None:intergenic
TCAAAACCTACCATCCTTAA+GGG 0.456430 2:+55687691 MsaT009243.1:CDS
AAGGGTCTGAAACAGCTTGT+TGG 0.460418 2:+55687709 MsaT009243.1:CDS
CAAAGGAAGCAAAAGGGTTA+GGG 0.461232 2:-55686530 None:intergenic
TTGTGTAGATCTTCACTTGG+AGG 0.465635 2:-55687565 None:intergenic
TCTGCCTCAAAGGAAGCAAA+AGG 0.471457 2:-55686537 None:intergenic
AGTGGTGATTTCTGAGTTGT+TGG 0.472171 2:-55686160 None:intergenic
CAGTTTGAATAGGTTGATAA+GGG 0.475268 2:-55686134 None:intergenic
TTGTTGGTAGCAGTTTGAAT+AGG 0.476845 2:-55686144 None:intergenic
GTTCAATGTGAGAAGAAAGT+TGG 0.488552 2:+55686579 MsaT009243.1:CDS
CCAAAAGCTGTTATACTATG+AGG 0.493920 2:+55686437 MsaT009243.1:CDS
TGTAGATCTTCACTTGGAGG+AGG 0.494574 2:-55687562 None:intergenic
GTGTTCATCTTTGGTCCACC+AGG 0.499817 2:-55686690 None:intergenic
ACTGAGAAGACACAAGAGCT+TGG 0.499993 2:+55686657 MsaT009243.1:CDS
CTGAGAAGACACAAGAGCTT+GGG 0.500383 2:+55686658 MsaT009243.1:CDS
AGAGTATCGCGGCTCGAGAA+AGG 0.514420 2:+55686622 MsaT009243.1:CDS
CTTGGGAAGTTGGTTCCTGG+TGG 0.551828 2:+55686675 MsaT009243.1:CDS
AGTTTGTGTAGATCTTCACT+TGG 0.558027 2:-55687568 None:intergenic
TTGTTCATGATGTTGAAAAG+TGG 0.560071 2:-55686178 None:intergenic
TCGCGGCTCGAGAAAGGAGA+AGG 0.564993 2:+55686628 MsaT009243.1:CDS
GTGAGAAGAAAGTTGGTGAA+AGG 0.566992 2:+55686586 MsaT009243.1:CDS
AAGTTTCTTCAAGCTCAAGT+TGG 0.567049 2:+55686747 MsaT009243.1:CDS
ACTTATGGAAACATTTAGCA+AGG 0.569731 2:+55686779 MsaT009243.1:CDS
TTCAGACCCTTAAGGATGGT+AGG 0.578594 2:-55687697 None:intergenic
GAGTTGAAAAGCTCTTGTTG+TGG 0.596772 2:-55686474 None:intergenic
CTGCCTCAAAGGAAGCAAAA+GGG 0.606158 2:-55686536 None:intergenic
CTGTTTCAGACCCTTAAGGA+TGG 0.616344 2:-55687701 None:intergenic
AGTAGTTGATCATCTTGACA+AGG 0.655107 2:-55686303 None:intergenic
TATCTCGTCGCAGAGTATCG+CGG 0.698927 2:+55686611 MsaT009243.1:CDS
GTAGTTGATCATCTTGACAA+GGG 0.704443 2:-55686302 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 55686096 55687765 55686096 ID=MsaG009243
Chr2 mRNA 55686096 55687765 55686096 ID=MsaT009243.1;Parent=MsaG009243
Chr2 exon 55686096 55686800 55686096 ID=MsaT009243.1.exon1;Parent=MsaT009243.1
Chr2 CDS 55686096 55686800 55686096 ID=cds.MsaT009243.1;Parent=MsaT009243.1
Chr2 exon 55687550 55687765 55687550 ID=MsaT009243.1.exon2;Parent=MsaT009243.1
Chr2 CDS 55687550 55687765 55687550 ID=cds.MsaT009243.1;Parent=MsaT009243.1
Gene Sequence

>MsaT009243.1

ATGGGAGCACTTAGCACATACTTTAACTATAATTGTTACCCTTATCAACCTATTCAAACTGCTACCAACAACTCAGAAATCACCACTTTTCAACATCATGAACAAGAACAACTTGTGCAACAAAACCACTATTTCAATGAAGCTTCTCTTTTAGATGAAAGCTTCATTTTTCAAACTCCTAATTGTTTTTACTCAAATGAGACTTACCCTTGTCAAGATGATCAACTACTTGTTGACTCCACTTTTTCTTCTCAAAACGATGGCTTCGTTTCGATGAATGAAATTTTCCCAAATGAGGAAGATTTCATTTTCAACAACTACCAGCTTCATTGTCCAAAACGCCAAAAGCTGTTATACTATGAGGAGAAAAGAGAAGAGCCACAACAAGAGCTTTTCAACTCAACCAATTTTTTTGTGGATGAGTTTATGACTAACCCTAACCCTTTTGCTTCCTTTGAGGCAGAACCAAAAATTGTTGATGTTGTTCAATGTGAGAAGAAAGTTGGTGAAAGGACTATCTCGTCGCAGAGTATCGCGGCTCGAGAAAGGAGAAGGAAGATAACTGAGAAGACACAAGAGCTTGGGAAGTTGGTTCCTGGTGGACCAAAGATGAACACAGCAGAGATGCTTCATGCTGCTGCTAATTATGTCAAGTTTCTTCAAGCTCAAGTTGGAATGCTTCAACTTATGGAAACATTTAGCAAGGAAGAAAAGGAACCTCCTCCAAGTGAAGATCTACACAAACTAGTTGTTTCTCCATTTGTTCAAGAGAAATTGTATTCAGAAGAAAAGTGCTTTGTTCCAAAAGAGTTTGTCACCAAATTGAGCAATCATAATGATGTTCAATCAAAACCTACCATCCTTAAGGGTCTGAAACAGCTTGTTGGAACTGATATTGAGAAGAAACCAAAGCAAGAATAG
Protein sequence

>MsaT009243.1

MGALSTYFNYNCYPYQPIQTATNNSEITTFQHHEQEQLVQQNHYFNEASLLDESFIFQTPNCFYSNETYPCQDDQLLVDSTFSSQNDGFVSMNEIFPNEEDFIFNNYQLHCPKRQKLLYYEEKREEPQQELFNSTNFFVDEFMTNPNPFASFEAEPKIVDVVQCEKKVGERTISSQSIAARERRRKITEKTQELGKLVPGGPKMNTAEMLHAAANYVKFLQAQVGMLQLMETFSKEEKEPPPSEDLHKLVVSPFVQEKLYSEEKCFVPKEFVTKLSNHNDVQSKPTILKGLKQLVGTDIEKKPKQE*