AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009045

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009045 MtrunA17_Chr5g0394621 81.053 190 7 1 1 161 1 190 3.17e-104 297
MsaG009045 MtrunA17_Chr5g0394631 67.222 180 30 1 1 151 1 180 6.51e-74 228
MsaG009045 MtrunA17_Chr5g0394631 63.402 194 32 5 1 161 214 401 2.10e-68 214
MsaG009045 MtrunA17_Chr1g0204951 57.895 190 51 2 1 161 1 190 3.08e-70 211
MsaG009045 MtrunA17_Chr1g0204971 54.211 190 58 2 1 161 1 190 2.86e-64 196
MsaG009045 MtrunA17_Chr7g0273661 37.013 154 71 2 16 143 3 156 2.66e-31 111
MsaG009045 MtrunA17_Chr7g0223351 36.810 163 79 1 20 158 7 169 2.30e-30 109
MsaG009045 MtrunA17_Chr7g0223361 36.047 172 75 2 17 158 4 170 2.16e-29 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009045 AT2G32030.1 43.889 180 69 3 3 158 14 185 1.67e-47 154
MsaG009045 AT2G32020.1 48.148 162 60 1 21 158 19 180 1.09e-46 152
MsaG009045 AT3G22560.1 35.294 170 82 2 17 158 3 172 5.71e-29 106

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCAAGGTCAGAAAGATTA+AGG 0.227074 2:-52292222 None:intergenic
CTCTTCTTTGTCACGTGGTT+TGG 0.270188 2:-52292167 None:intergenic
CTCCAACTAATTCAATTGTT+TGG 0.272334 2:+52292706 MsaT009045.1:CDS
TGTTGGGTCTCAAAGAGTTT+TGG 0.282550 2:+52292585 MsaT009045.1:CDS
ATGTTCTAGGCTCTAAATAT+TGG 0.292142 2:+52292461 MsaT009045.1:CDS
GCAGAACTTGGCTATGTTCT+AGG 0.302641 2:+52292448 MsaT009045.1:CDS
TAAGGGGTCGGAGTGTGATT+TGG 0.307480 2:-52292204 None:intergenic
TGTTCTAGGCTCTAAATATT+GGG 0.316974 2:+52292462 MsaT009045.1:CDS
AAGGGGTCGGAGTGTGATTT+GGG 0.320072 2:-52292203 None:intergenic
GCATATACAACTTAAATAAT+AGG 0.325883 2:-52292805 None:intergenic
CATCATCTATCTTATTTGTA+TGG 0.348271 2:-52292762 None:intergenic
GCTCTAAATATTGGGGTAAA+GGG 0.356917 2:+52292470 MsaT009045.1:CDS
TTCCAAACAATTGAATTAGT+TGG 0.367321 2:-52292708 None:intergenic
GGCTCTAAATATTGGGGTAA+AGG 0.422886 2:+52292469 MsaT009045.1:CDS
ATTCTGTGAGTTGTCTTACT+TGG 0.446468 2:+52292531 MsaT009045.1:CDS
GTTGATGCCATCATCCTTGC+TGG 0.459050 2:-52292305 None:intergenic
AGTGGCCAAGTTCTGCTCTT+GGG 0.462852 2:+52292273 MsaT009045.1:CDS
AAGTGGCCAAGTTCTGCTCT+TGG 0.474319 2:+52292272 MsaT009045.1:CDS
AGGAAATATTTGTTCATGAA+AGG 0.480337 2:+52292640 MsaT009045.1:CDS
AGGAACAAATGTGCAGAACT+TGG 0.481431 2:+52292436 MsaT009045.1:intron
GTGAGTTGTCTTACTTGGAA+AGG 0.487957 2:+52292536 MsaT009045.1:CDS
GCTTGAAGCTTTAGTTGATG+TGG 0.488968 2:+52292558 MsaT009045.1:CDS
TTCTGACCTTGATGATCTCA+TGG 0.490514 2:+52292231 MsaT009045.1:CDS
ATCAAGGTCAGAAAGATTAA+GGG 0.492658 2:-52292221 None:intergenic
TAGTTGATGTGGAAAATGTT+GGG 0.494202 2:+52292569 MsaT009045.1:CDS
TTAGTTGATGTGGAAAATGT+TGG 0.523001 2:+52292568 MsaT009045.1:CDS
ACCTTGATGATCTCATGGTA+TGG 0.538119 2:+52292236 MsaT009045.1:CDS
TGTTGTGAAACAAGTGGTTA+AGG 0.545474 2:+52292504 MsaT009045.1:CDS
AATAATAGGTGTCATAGAGA+TGG 0.552262 2:-52292791 None:intergenic
CTCTACGCCAGCAAGGATGA+TGG 0.563263 2:+52292298 MsaT009045.1:CDS
CTCTAAATATTGGGGTAAAG+GGG 0.564900 2:+52292471 MsaT009045.1:CDS
GAGTTCCCAAGAGCAGAACT+TGG 0.571214 2:-52292278 None:intergenic
ATTCTCTCTTCTTTGTCACG+TGG 0.580393 2:-52292172 None:intergenic
GGTCAGAAAGATTAAGGGGT+CGG 0.585362 2:-52292216 None:intergenic
CACTTGTTTCACAACACACG+TGG 0.596860 2:-52292497 None:intergenic
GTTCTAGGCTCTAAATATTG+GGG 0.619040 2:+52292463 MsaT009045.1:CDS
TCCATACCATGAGATCATCA+AGG 0.632686 2:-52292237 None:intergenic
TCAAGGTCAGAAAGATTAAG+GGG 0.633672 2:-52292220 None:intergenic
TTGGGAACTCTACGCCAGCA+AGG 0.634354 2:+52292291 MsaT009045.1:CDS
CACGTGTGTTGTGAAACAAG+TGG 0.736637 2:+52292498 MsaT009045.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52292145 52292816 52292145 ID=MsaG009045
Chr2 mRNA 52292145 52292816 52292145 ID=MsaT009045.1;Parent=MsaG009045
Chr2 exon 52292145 52292350 52292145 ID=MsaT009045.1.exon1;Parent=MsaT009045.1
Chr2 CDS 52292145 52292350 52292145 ID=cds.MsaT009045.1;Parent=MsaT009045.1
Chr2 exon 52292438 52292816 52292438 ID=MsaT009045.1.exon2;Parent=MsaT009045.1
Chr2 CDS 52292438 52292816 52292438 ID=cds.MsaT009045.1;Parent=MsaT009045.1
Gene Sequence

>MsaT009045.1

ATGGAGATAACTTCTATTTCTTCCAAACCACGTGACAAAGAAGAGAGAATTGATCTAACCCAAATCACACTCCGACCCCTTAATCTTTCTGACCTTGATGATCTCATGGTATGGACAACTGATGAAAAAGTGGCCAAGTTCTGCTCTTGGGAACTCTACGCCAGCAAGGATGATGGCATCAACTTCATTGAAAATATAGCTACTAAGAACAAATGTGCAGAACTTGGCTATGTTCTAGGCTCTAAATATTGGGGTAAAGGGGTTGCCACGTGTGTTGTGAAACAAGTGGTTAAGGTTGCATTCTGTGAGTTGTCTTACTTGGAAAGGCTTGAAGCTTTAGTTGATGTGGAAAATGTTGGGTCTCAAAGAGTTTTGGAGAAAGCTGGTTTCCAAAAAGAGGGAGTTCTAAGGAAATATTTGTTCATGAAAGGAAAAAGTAGAGATATGATCATCTCTAGTGTTCTCTTTACTGATCTCCAACTAATTCAATTGTTTGGAAAATATAGAAGAATTTTCACCATAGGACAAAACCATACAAATAAGATAGATGATGTGTTCTCCATCTCTATGACACCTATTATTTAA
Protein sequence

>MsaT009045.1

MEITSISSKPRDKEERIDLTQITLRPLNLSDLDDLMVWTTDEKVAKFCSWELYASKDDGINFIENIATKNKCAELGYVLGSKYWGKGVATCVVKQVVKVAFCELSYLERLEALVDVENVGSQRVLEKAGFQKEGVLRKYLFMKGKSRDMIISSVLFTDLQLIQLFGKYRRIFTIGQNHTNKIDDVFSISMTPII*