AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036315

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036315 MtrunA17_Chr7g0225091 88.636 220 25 0 1 220 1 220 1.08e-142 397
MsaG036315 MtrunA17_Chr7g0255511 80.342 234 32 1 1 220 1 234 3.99e-130 366
MsaG036315 MtrunA17_Chr7g0225121 70.940 234 32 2 1 220 1 212 5.61e-111 317
MsaG036315 MtrunA17_Chr7g0222361 74.257 202 37 1 34 220 1 202 4.25e-107 306
MsaG036315 MtrunA17_Chr7g0222371 66.116 121 26 1 19 124 1 121 3.31e-51 162
MsaG036315 MtrunA17_Chr4g0072571 30.714 140 78 4 83 220 47 169 1.05e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036315 AT5G57520.1 34.579 107 54 5 82 179 51 150 3.14e-11 59.7

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTGTGGATATCAATATTA+TGG 0.285744 7:-31924294 MsaT036315.1:CDS
AAGAAATGGAGAAATTTCTT+TGG 0.293893 7:+31924500 None:intergenic
CTTAAGGGTCAAATCAATAT+TGG 0.328703 7:+31924044 None:intergenic
CTCCTTCCTCTTGTTGCACA+TGG 0.338528 7:+31924680 None:intergenic
TATATATAAATCAAAGCTTA+AGG 0.356106 7:+31924028 None:intergenic
TGGTGCATTGCAACATATTC+CGG 0.362580 7:-31924214 MsaT036315.1:CDS
CACCATCACTCCATTTCATA+TGG 0.364608 7:-31924316 MsaT036315.1:CDS
AACAATATGATTCAACATGC+AGG 0.449556 7:-31924267 MsaT036315.1:CDS
TATCCACACCCCATATGAAA+TGG 0.452870 7:+31924306 None:intergenic
AGTAGACAATTTGAAGATGA+TGG 0.466141 7:-31924640 MsaT036315.1:CDS
TTCACTAGTCCACAGGCATT+AGG 0.474635 7:-31924405 MsaT036315.1:CDS
TTGGATTCATTGTTGATCAC+AGG 0.479894 7:-31924473 MsaT036315.1:CDS
TGAAGTTGGTAAAGTTTCAG+AGG 0.484639 7:-31924127 MsaT036315.1:CDS
ACTATGTCAAAGATTGAAGT+TGG 0.488225 7:-31924141 MsaT036315.1:CDS
ACCATCACTCCATTTCATAT+GGG 0.489513 7:-31924315 MsaT036315.1:CDS
TGGTGTTTAGACTTATCCCT+TGG 0.491881 7:+31924334 None:intergenic
TGTTAGTGATGAAGTTGATC+AGG 0.506770 7:-31924097 MsaT036315.1:CDS
GAAGTTGGTAAAGTTTCAGA+GGG 0.513957 7:-31924126 MsaT036315.1:CDS
ATATATAAATCAAAGCTTAA+GGG 0.520066 7:+31924029 None:intergenic
TAAGCGAAAGGCAATTGTGC+TGG 0.521748 7:-31924598 MsaT036315.1:CDS
ACTCCATTTCATATGGGGTG+TGG 0.533278 7:-31924309 MsaT036315.1:CDS
TCATTCGTTTCATCTATCTC+CGG 0.537068 7:+31924195 None:intergenic
CAGAAAGTTCACTAGTCCAC+AGG 0.575345 7:-31924412 MsaT036315.1:CDS
ACAATATGATTCAACATGCA+GGG 0.581032 7:-31924266 MsaT036315.1:CDS
CTGATGCCATGTGCAACAAG+AGG 0.598560 7:-31924686 None:intergenic
TAGAATTCTGAGTTTCAACA+TGG 0.602831 7:+31924568 None:intergenic
TGCCATGTGCAACAAGAGGA+AGG 0.602996 7:-31924682 None:intergenic
GGAGATAGATGAAACGAATG+AGG 0.622863 7:-31924193 MsaT036315.1:CDS
GTTGGTAAAGTTTCAGAGGG+AGG 0.624522 7:-31924123 MsaT036315.1:CDS
CCATCACTCCATTTCATATG+GGG 0.630153 7:-31924314 MsaT036315.1:CDS
GGAAGACAAAGAGACTCAAG+AGG 0.634668 7:-31924076 MsaT036315.1:CDS
GTGCAACAAGAGGAAGGAGA+AGG 0.635140 7:-31924676 MsaT036315.1:CDS
CCCCATATGAAATGGAGTGA+TGG 0.640487 7:+31924314 None:intergenic
GAACAAGGAGAATAAGCGAA+AGG 0.643342 7:-31924610 MsaT036315.1:CDS
GATGATGGAGAATCAGAACA+AGG 0.657548 7:-31924625 MsaT036315.1:CDS
ACTAGTCCACAGGCATTAGG+TGG 0.661075 7:-31924402 MsaT036315.1:CDS
TGATGACCACCTAATGCCTG+TGG 0.664402 7:+31924396 None:intergenic
AGAATTCTGAGTTTCAACAT+GGG 0.673130 7:+31924569 None:intergenic
AGACAAAGAGACTCAAGAGG+AGG 0.673262 7:-31924073 MsaT036315.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 31924038 31924700 31924038 ID=MsaG036315
Chr7 mRNA 31924038 31924700 31924038 ID=MsaT036315.1;Parent=MsaG036315
Chr7 exon 31924038 31924700 31924038 ID=MsaT036315.1.exon1;Parent=MsaT036315.1
Chr7 CDS 31924038 31924700 31924038 ID=cds.MsaT036315.1;Parent=MsaT036315.1
Gene Sequence

>MsaT036315.1

ATGTGCAACAAGAGGAAGGAGAAGGTGAATGAAGAATCAGTAGACAATTTGAAGATGATGGAGAATCAGAACAAGGAGAATAAGCGAAAGGCAATTGTGCTGGAAGAGTCCCATGTTGAAACTCAGAATTCTAAGACTCACCAAAAAGATGTTGCTGAAGAAGAATCAACTGATTCATCCAAAGAAATTTCTCCATTTCTTCTTTTTGGATTCATTGTTGATCACAGGAAAGCAATTAAAAATGCTTACTCATGCAAATTTTGTAGCAGAAAGTTCACTAGTCCACAGGCATTAGGTGGTCATCAAAGTTCTCACAAATTAGAGAGAAGTCTCAATAAAAAGATCCAAGGGATAAGTCTAAACACCATCACTCCATTTCATATGGGGTGTGGATATCAATATTATGGATTTAACAATATGATTCAACATGCAGGGTCATCAAACTTTTATGCAGGAAATTTGTATGGTGCATTGCAACATATTCCGGAGATAGATGAAACGAATGAGGCTGATCAAAGCATTATGAGTCAAAAAGTTACTATGTCAAAGATTGAAGTTGGTAAAGTTTCAGAGGGAGGTGCTGTTAGTGATGAAGTTGATCAGGAAGACAAAGAGACTCAAGAGGAGGAAGCATCCAATATTGATTTGACCCTTAAGCTTTGA
Protein sequence

>MsaT036315.1

MCNKRKEKVNEESVDNLKMMENQNKENKRKAIVLEESHVETQNSKTHQKDVAEEESTDSSKEISPFLLFGFIVDHRKAIKNAYSCKFCSRKFTSPQALGGHQSSHKLERSLNKKIQGISLNTITPFHMGCGYQYYGFNNMIQHAGSSNFYAGNLYGALQHIPEIDETNEADQSIMSQKVTMSKIEVGKVSEGGAVSDEVDQEDKETQEEEASNIDLTLKL*