AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034972

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034972 MtrunA17_Chr1g0172971 78.030 132 14 1 1 132 1 117 1.93e-65 214
MsaG034972 MtrunA17_Chr6g0475591 94.521 73 4 0 204 276 1 73 2.68e-44 145
MsaG034972 MtrunA17_Chr7g0258861 31.343 268 162 5 46 310 2 250 4.56e-37 134
MsaG034972 MtrunA17_Chr2g0324011 29.658 263 160 5 52 310 8 249 4.01e-30 119
MsaG034972 MtrunA17_Chr1g0202341 30.651 261 156 7 50 308 50 287 2.98e-28 114
MsaG034972 MtrunA17_Chr3g0082121 28.346 254 155 4 57 310 49 275 1.27e-26 110
MsaG034972 MtrunA17_Chr5g0448761 27.007 274 178 7 40 308 47 303 1.47e-22 98.2
MsaG034972 MtrunA17_Chr2g0296781 26.538 260 159 6 55 310 1 232 8.63e-22 95.9
MsaG034972 MtrunA17_Chr1g0203721 24.684 316 200 8 9 310 14 305 1.38e-21 95.5
MsaG034972 MtrunA17_Chr1g0164591 30.864 162 103 2 149 310 3 155 1.63e-21 92.8
MsaG034972 MtrunA17_Chr8g0363841 27.381 252 158 8 56 304 22 251 1.43e-20 92.0
MsaG034972 MtrunA17_Chr5g0441581 25.000 272 168 8 39 310 25 260 1.03e-17 83.6
MsaG034972 MtrunA17_Chr2g0287651 24.490 294 197 6 21 310 45 317 8.95e-16 78.2
MsaG034972 MtrunA17_Chr6g0458391 25.098 255 152 6 57 310 231 447 4.66e-15 75.9
MsaG034972 MtrunA17_Chr6g0477261 31.304 115 79 0 196 310 7 121 2.06e-14 73.9
MsaG034972 MtrunA17_Chr1g0203051 23.077 247 167 4 66 310 94 319 2.18e-14 73.6
MsaG034972 MtrunA17_Chr2g0291591 25.818 275 146 11 53 310 66 299 2.20e-14 73.6
MsaG034972 MtrunA17_Chr1g0196541 25.097 259 164 8 55 310 1 232 5.32e-14 72.4
MsaG034972 MtrunA17_Chr2g0329031 24.468 282 169 10 33 310 3 244 1.17e-11 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034972 AT4G38180.1 28.185 259 168 6 50 308 72 312 8.84e-24 102
MsaG034972 AT1G10240.2 21.538 260 180 5 56 310 53 293 5.96e-12 66.6
MsaG034972 AT1G10240.1 21.538 260 180 5 56 310 53 293 5.96e-12 66.6

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTAGATTATTCTCTATT+AGG 0.260074 7:-5294242 MsaT034972.1:CDS
GCCGATATTTATTGTTTGTT+TGG 0.294260 7:+5294192 None:intergenic
TCTGCTGTTGGCCTGTTGTT+AGG 0.299104 7:+5294749 None:intergenic
TTACTTCTCGAAATGATCTA+AGG 0.311482 7:+5294558 None:intergenic
ACCAAACAAACAATAAATAT+CGG 0.389395 7:-5294193 MsaT034972.1:CDS
GAGAACGTCTTATGAAGTTA+TGG 0.394356 7:-5294483 MsaT034972.1:CDS
GAAGTTATGGGTCAAGGAGT+TGG 0.428685 7:-5294470 MsaT034972.1:CDS
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 7:-5294545 MsaT034972.1:CDS
TGAATATCATAGTGAAAAGA+TGG 0.443471 7:+5294317 None:intergenic
TCCATGATTCTTTATTGCTA+GGG 0.444266 7:+5294960 None:intergenic
TTCCATGATTCTTTATTGCT+AGG 0.445442 7:+5294959 None:intergenic
ATGTGTATAAGATATATAGA+TGG 0.452819 7:-5294628 MsaT034972.1:CDS
GCTCTTATAAATTCTAAAGC+TGG 0.462891 7:-5294515 MsaT034972.1:CDS
AGAACGTCTTATGAAGTTAT+GGG 0.466325 7:-5294482 MsaT034972.1:CDS
GTTTACTTAATCCTAACAAC+AGG 0.470860 7:-5294760 MsaT034972.1:CDS
CTAAGGTAACGCGAATGCTC+TGG 0.476897 7:+5294575 None:intergenic
TTTAAGTCTGAAAACCGAAA+AGG 0.483010 7:+5294431 None:intergenic
TTACAACCAACGCTTTCCTC+AGG 0.493754 7:+5294686 None:intergenic
CCCCTAGCAATAAAGAATCA+TGG 0.497001 7:-5294961 MsaT034972.1:CDS
GAAAGCGTTGGTTGTAAAGC+TGG 0.498754 7:-5294680 MsaT034972.1:CDS
AGCTGGAATATATTTGAAGC+TGG 0.507410 7:-5294663 MsaT034972.1:CDS
GGTAATTATGCATATAACAC+TGG 0.523547 7:-5294893 MsaT034972.1:CDS
TAACAAAGAAGGTTTCAAGA+AGG 0.525236 7:-5294786 MsaT034972.1:CDS
TAAGATATATAGATGGGATG+TGG 0.528498 7:-5294621 MsaT034972.1:CDS
TGTTATGTTTGTAACAAAGA+AGG 0.531733 7:-5294797 MsaT034972.1:CDS
CCATGATTCTTTATTGCTAG+GGG 0.537011 7:+5294961 None:intergenic
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 7:-5294785 MsaT034972.1:CDS
GAATGCTCTGGTTTATGTAA+TGG 0.573489 7:+5294587 None:intergenic
GTTATGGGTCAAGGAGTTGG+AGG 0.578191 7:-5294467 MsaT034972.1:CDS
TCTTATGAAGTTATGGGTCA+AGG 0.580120 7:-5294476 MsaT034972.1:CDS
TGTGTATAAGATATATAGAT+GGG 0.601002 7:-5294627 MsaT034972.1:CDS
ACCAGTGGACTGTCTGCTGT+TGG 0.602965 7:+5294737 None:intergenic
TCACTGATTCATGCTGAGAG+TGG 0.606950 7:-5295040 MsaT034972.1:CDS
GCCAACAGCAGACAGTCCAC+TGG 0.611268 7:-5294738 MsaT034972.1:CDS
ATATCAACTTCATCTGAGAG+TGG 0.614980 7:-5295085 MsaT034972.1:CDS
TTCTCAAACTCAATAACCAG+TGG 0.616706 7:+5294722 None:intergenic
GTGAAAAGATGGTTTCGAGA+GGG 0.624677 7:+5294328 None:intergenic
GGGTCAAGGAGTTGGAGGCA+CGG 0.637387 7:-5294462 MsaT034972.1:CDS
AGTGAAAAGATGGTTTCGAG+AGG 0.695197 7:+5294327 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 5294181 5295116 5294181 ID=MsaG034972
Chr7 mRNA 5294181 5295116 5294181 ID=MsaT034972.1;Parent=MsaG034972
Chr7 exon 5294181 5295116 5294181 ID=MsaT034972.1.exon1;Parent=MsaT034972.1
Chr7 CDS 5294181 5295116 5294181 ID=cds.MsaT034972.1;Parent=MsaT034972.1
Gene Sequence

>MsaT034972.1

ATGGATTTGATATCAACTTCATCTGAGAGTGGACAACTGAGTGTTGAAACTTCATCACTGATTCATGCTGAGAGTGGACAATTGAGTGTTGAAAGTTCTTCAATGATTCATGCTGACAGTTCTCAATGTTACTCCCCTAGCAATAAAGAATCATGGAAGTCTTTAGTCTTTCAATCTATTAAAGAGATTGAAGATTTTTATGGTAATTATGCATATAACACTGGATTTTCTATTAGGACTATGTTGAAGTCAAAGAATAATTCACAAAACAAAAAATCTGATAAGGTACATTATGTGTGTTATGTTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTTTACTTAATCCTAACAACAGGCCAACAGCAGACAGTCCACTGGTTATTGAGTTTGAGAAAGTGAAAGAAAAACCTGAGGAAAGCGTTGGTTGTAAAGCTGGAATATATTTGAAGCTGGATGAAGTTTTGAATGTGTATAAGATATATAGATGGGATGTGGATCACTGTCATCCATTACATAAACCAGAGCATTCGCGTTACCTTAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTAGCTCTTATAAATTCTAAAGCTGGAATGTCGATGAGAACGTCTTATGAAGTTATGGGTCAAGGAGTTGGAGGCACGGAGAATCTTCCTTTTCGGTTTTCAGACTTAAAGAACTATCTAATGACAATTCGTCAAAAAGAGATGGTGGTTGGTGAAGCAACTGTAATTCAAGAATTCTTTAGAAATGAAGCCCTCTCGAAACCATCTTTTCACTATGATATTCAAGTTGATGCTGCAGAAGACATAGCTAGTATTTTTTGGTCAGATGAAATTATGCAACTAGATTATTCTCTATTAGGCGATGTCATCAGTTTTGATACAACTTACCAAACAAACAATAAATATCGGCCATTAGATTAG
Protein sequence

>MsaT034972.1

MDLISTSSESGQLSVETSSLIHAESGQLSVESSSMIHADSSQCYSPSNKESWKSLVFQSIKEIEDFYGNYAYNTGFSIRTMLKSKNNSQNKKSDKVHYVCYVCNKEGFKKGSLLNPNNRPTADSPLVIEFEKVKEKPEESVGCKAGIYLKLDEVLNVYKIYRWDVDHCHPLHKPEHSRYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMGQGVGGTENLPFRFSDLKNYLMTIRQKEMVVGEATVIQEFFRNEALSKPSFHYDIQVDAAEDIASIFWSDEIMQLDYSLLGDVISFDTTYQTNNKYRPLD*