AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009042

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009042 MtrunA17_Chr5g0394621 93.548 155 9 1 1 154 36 190 6.14e-103 292
MsaG009042 MtrunA17_Chr5g0394631 79.310 145 30 0 1 145 36 180 6.51e-77 234
MsaG009042 MtrunA17_Chr5g0394631 73.585 159 35 5 1 154 245 401 4.13e-70 216
MsaG009042 MtrunA17_Chr1g0204951 67.333 150 47 1 1 150 38 185 5.75e-69 206
MsaG009042 MtrunA17_Chr1g0204971 63.333 150 53 1 1 150 38 185 3.23e-64 194
MsaG009042 MtrunA17_Chr7g0273661 39.416 137 80 1 1 137 23 156 4.00e-31 109
MsaG009042 MtrunA17_Chr7g0223361 36.913 149 90 2 1 149 23 167 3.90e-28 102
MsaG009042 MtrunA17_Chr7g0223351 36.000 150 91 3 1 150 23 167 4.66e-27 99.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009042 AT2G32030.1 50.331 151 68 3 1 150 39 183 1.34e-48 155
MsaG009042 AT2G32020.1 49.007 151 70 2 1 150 34 178 1.88e-44 144
MsaG009042 AT3G22560.1 37.748 151 89 2 3 151 24 171 6.74e-29 104

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGGGTCTCAAAGAGTTT+TGG 0.282550 2:+52251983 MsaT009042.1:CDS
ATGTTCTAGGCTATAAATAT+TGG 0.289347 2:+52251859 MsaT009042.1:CDS
TGTTCTAGGCTATAAATATT+GGG 0.307390 2:+52251860 MsaT009042.1:CDS
GCAGAACTTGGCTATGTTCT+AGG 0.310077 2:+52251846 MsaT009042.1:CDS
GCTATAAATATTGGGGTAAA+GGG 0.313408 2:+52251868 MsaT009042.1:CDS
CCAAACAATTGAATTATAGT+TGG 0.393357 2:-52252103 None:intergenic
ATATAGCTACCAAGTTTCTA+TGG 0.402105 2:+52251736 MsaT009042.1:CDS
GGCTATAAATATTGGGGTAA+AGG 0.427948 2:+52251867 MsaT009042.1:CDS
GTTGATGCCATCATCCTTGC+TGG 0.429573 2:-52251703 None:intergenic
ATTCTGTGAGTTGTCTTACT+TGG 0.446468 2:+52251929 MsaT009042.1:CDS
AGTGGCCAAGTTCTGCTCTT+GGG 0.462852 2:+52251671 MsaT009042.1:CDS
AAGTGGCCAAGTTCTGCTCT+TGG 0.474319 2:+52251670 MsaT009042.1:CDS
AGGAAATATTTGTTCATGAA+AGG 0.480337 2:+52252038 MsaT009042.1:CDS
AGGAACAAATGTGCAGAACT+TGG 0.481600 2:+52251834 MsaT009042.1:CDS
GTGAGTTGTCTTACTTGGAA+AGG 0.487957 2:+52251934 MsaT009042.1:CDS
GCTTGAAGCTTTAGTTGATG+TGG 0.488968 2:+52251956 MsaT009042.1:CDS
TAGTTGATGTGGAAAATGTT+GGG 0.494202 2:+52251967 MsaT009042.1:CDS
TGCTTTGCACCATAGAAACT+TGG 0.496119 2:-52251745 None:intergenic
TTGTTCCTTGATTTATCACC+AGG 0.502130 2:-52251819 None:intergenic
GTTCACCTGGTGATAAATCA+AGG 0.507986 2:+52251814 MsaT009042.1:CDS
TTAGTTGATGTGGAAAATGT+TGG 0.523001 2:+52251966 MsaT009042.1:CDS
ACCTTGATGATCTCATGGTA+TGG 0.538119 2:+52251634 None:intergenic
TCTCTATCCTCAAGTTCACC+TGG 0.545696 2:+52251801 MsaT009042.1:CDS
TGTTGTGAAACAAGAGGTTA+AGG 0.553508 2:+52251902 MsaT009042.1:CDS
CTCTACACCAGCAAGGATGA+TGG 0.559987 2:+52251696 MsaT009042.1:CDS
GAGTTCCCAAGAGCAGAACT+TGG 0.571214 2:-52251676 None:intergenic
CTATAAATATTGGGGTAAAG+GGG 0.577289 2:+52251869 MsaT009042.1:CDS
TTTATCACCAGGTGAACTTG+AGG 0.579933 2:-52251808 None:intergenic
GTTCTAGGCTATAAATATTG+GGG 0.598552 2:+52251861 MsaT009042.1:CDS
CTCTTGTTTCACAACACACG+TGG 0.611497 2:-52251895 None:intergenic
TTGGAGATCAGTAAGAACAC+TGG 0.646655 2:-52252084 None:intergenic
TTGGGAACTCTACACCAGCA+AGG 0.679749 2:+52251689 MsaT009042.1:CDS
CACGTGTGTTGTGAAACAAG+AGG 0.741960 2:+52251896 MsaT009042.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52251648 52252112 52251648 ID=MsaG009042
Chr2 mRNA 52251648 52252112 52251648 ID=MsaT009042.1;Parent=MsaG009042
Chr2 exon 52251648 52252112 52251648 ID=MsaT009042.1.exon1;Parent=MsaT009042.1
Chr2 CDS 52251648 52252112 52251648 ID=cds.MsaT009042.1;Parent=MsaT009042.1
Gene Sequence

>MsaT009042.1

ATGGTATGGACAACTGATGAAAAAGTGGCCAAGTTCTGCTCTTGGGAACTCTACACCAGCAAGGATGATGGCATCAACTTCATTGAAAATATAGCTACCAAGTTTCTATGGTGCAAAGCAATATGCATCAATGATCGTGCAATTGAGTGTGTTTCTCTATCCTCAAGTTCACCTGGTGATAAATCAAGGAACAAATGTGCAGAACTTGGCTATGTTCTAGGCTATAAATATTGGGGTAAAGGGGTTGCCACGTGTGTTGTGAAACAAGAGGTTAAGGCTGCATTCTGTGAGTTGTCTTACTTGGAAAGGCTTGAAGCTTTAGTTGATGTGGAAAATGTTGGGTCTCAAAGAGTTTTGGAGAAAGCTGGTTTCCAAAAAGAGGGAGTTCTAAGGAAATATTTGTTCATGAAAGGAAAAAGTAGAGATATGATCATGTCCAGTGTTCTTACTGATCTCCAACTATAA
Protein sequence

>MsaT009042.1

MVWTTDEKVAKFCSWELYTSKDDGINFIENIATKFLWCKAICINDRAIECVSLSSSSPGDKSRNKCAELGYVLGYKYWGKGVATCVVKQEVKAAFCELSYLERLEALVDVENVGSQRVLEKAGFQKEGVLRKYLFMKGKSRDMIMSSVLTDLQL*