AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003605


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003605 MtrunA17_Chr1g0187541 89.116 147 15 1 1 147 1 146 6.95e-94 268
MsaG003605 MtrunA17_Chr1g0187511 42.177 147 66 7 11 147 8 145 1.41e-23 89.7
MsaG003605 MtrunA17_Chr4g0031161 36.047 172 73 6 11 147 13 182 6.21e-23 89.0
MsaG003605 MtrunA17_Chr1g0187701 36.810 163 69 10 11 147 15 169 6.96e-19 78.2
MsaG003605 MtrunA17_Chr1g0166461 34.375 160 78 7 9 147 14 167 6.21e-13 62.8
MsaG003605 MtrunA17_Chr5g0423491 32.576 132 74 3 5 128 10 134 5.09e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATCTAGTTTATTGATATA+TGG 0.244365 1:-59423607 None:intergenic
TGCATTTCACTAAACATTCT+TGG 0.273305 1:-59423442 None:intergenic
ACCAACCCATGAAGATTATA+TGG 0.323053 1:+59423558 MsaT003605.1:CDS
GCACATTGAATCTAGAATTA+AGG 0.324100 1:+59423677 MsaT003605.1:CDS
TGATGTTGGTTAGCCTGCTT+AGG 0.329533 1:-59423381 None:intergenic
AAACTTCCATATAATCTTCA+TGG 0.356028 1:-59423564 None:intergenic
TCGATTTCTCATAACTCATA+TGG 0.358118 1:+59423330 MsaT003605.1:CDS
ATGGAAGTTTCTCACATTGA+TGG 0.390703 1:+59423577 MsaT003605.1:CDS
TCTGCTGAGGAAAATGTTGC+TGG 0.421474 1:+59423514 MsaT003605.1:CDS
AAAGGTGGTGCTTCAATATG+AGG 0.426497 1:-59423406 None:intergenic
AAGAAAATTTAGCCCTAAGC+AGG 0.461361 1:+59423368 MsaT003605.1:CDS
AACTCATATGGAGTCTCATA+TGG 0.462152 1:+59423342 MsaT003605.1:CDS
TCCATATAATCTTCATGGGT+TGG 0.462544 1:-59423559 None:intergenic
GATGTTGGTTAGCCTGCTTA+GGG 0.479077 1:-59423380 None:intergenic
CCATCATTGATCACAATAGC+TGG 0.489184 1:-59423655 None:intergenic
TCTTCATGGGTTGGTGGAGT+TGG 0.495187 1:-59423550 None:intergenic
CCAGCTATTGTGATCAATGA+TGG 0.501173 1:+59423655 MsaT003605.1:CDS
GCTATCATTATTGTTAGCCA+TGG 0.507658 1:-59423260 None:intergenic
ATTATCAATAATCTTATCGA+TGG 0.515635 1:-59423632 None:intergenic
TGAGGAAAATGTTGCTGGAA+TGG 0.518703 1:+59423519 MsaT003605.1:CDS
TCACTAAACATTCTTGGTCG+AGG 0.522107 1:-59423436 None:intergenic
AACTTCCATATAATCTTCAT+GGG 0.524548 1:-59423563 None:intergenic
CTTGGTCGAGGTATTGTCAA+AGG 0.560141 1:-59423424 None:intergenic
TTATCAATAATCTTATCGAT+GGG 0.560338 1:-59423631 None:intergenic
ATACCATGTTGTAAAATATG+AGG 0.569652 1:-59423487 None:intergenic
ATATAATCTTCATGGGTTGG+TGG 0.585977 1:-59423556 None:intergenic
TTCAATATGAGGGTTGATGT+TGG 0.594760 1:-59423395 None:intergenic
ACATGGTATGCCATCTGCTG+AGG 0.623247 1:+59423501 MsaT003605.1:CDS
GGTCGAGGTATTGTCAAAGG+TGG 0.641328 1:-59423421 None:intergenic
AAGGTGGTGCTTCAATATGA+GGG 0.646397 1:-59423405 None:intergenic
CCATGTTGTAAAATATGAGG+TGG 0.673172 1:-59423484 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 59423262 59423705 59423262 ID=MsaG003605
Chr1 mRNA 59423262 59423705 59423262 ID=MsaT003605.1;Parent=MsaG003605
Chr1 exon 59423262 59423705 59423262 ID=MsaT003605.1.exon1;Parent=MsaT003605.1
Chr1 CDS 59423262 59423705 59423262 ID=cds.MsaT003605.1;Parent=MsaT003605.1
Gene Sequence

>MsaT003605.1

ATGGCTAACAATAATGATAGCAATAATACTATTGCATGCAAATTGTGCTACAAAGTTTTCACAAACGTTCGATTTCTCATAACTCATATGGAGTCTCATATGGTTGAAGAAAATTTAGCCCTAAGCAGGCTAACCAACATCAACCCTCATATTGAAGCACCACCTTTGACAATACCTCGACCAAGAATGTTTAGTGAAATGCATGCTGCTGTTGTTTCACATCCACCTCATATTTTACAACATGGTATGCCATCTGCTGAGGAAAATGTTGCTGGAATGGCTTTGTCACCAACTCCACCAACCCATGAAGATTATATGGAAGTTTCTCACATTGATGGAACTAAGCCATATATCAATAAACTAGATAAACCCATCGATAAGATTATTGATAATCCAGCTATTGTGATCAATGATGGCACATTGAATCTAGAATTAAGGCTCTAA

Protein sequence

>MsaT003605.1

MANNNDSNNTIACKLCYKVFTNVRFLITHMESHMVEENLALSRLTNINPHIEAPPLTIPRPRMFSEMHAAVVSHPPHILQHGMPSAEENVAGMALSPTPPTHEDYMEVSHIDGTKPYINKLDKPIDKIIDNPAIVINDGTLNLELRL*