AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042302


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042302 MtrunA17_Chr1g0172971 76.515 132 16 1 1 132 1 117 1.82e-61 204
MsaG042302 MtrunA17_Chr6g0475591 95.890 73 3 0 204 276 1 73 2.15e-45 149
MsaG042302 MtrunA17_Chr7g0258861 31.599 269 162 5 46 311 2 251 3.84e-39 140
MsaG042302 MtrunA17_Chr2g0324011 29.889 271 151 6 52 311 8 250 2.24e-32 126
MsaG042302 MtrunA17_Chr3g0082121 30.588 255 150 6 57 311 49 276 2.81e-29 117
MsaG042302 MtrunA17_Chr1g0202341 30.268 261 157 6 50 308 50 287 7.15e-29 116
MsaG042302 MtrunA17_Chr1g0203721 25.155 322 203 8 3 310 8 305 3.33e-24 103
MsaG042302 MtrunA17_Chr5g0448761 27.170 265 174 6 50 311 59 307 4.92e-24 102
MsaG042302 MtrunA17_Chr1g0164591 32.121 165 103 2 147 311 1 156 1.42e-23 98.6
MsaG042302 MtrunA17_Chr8g0363841 27.092 251 160 6 56 304 22 251 6.78e-23 99.0
MsaG042302 MtrunA17_Chr2g0296781 26.848 257 164 7 55 311 1 233 1.46e-21 95.1
MsaG042302 MtrunA17_Chr6g0458391 26.562 256 149 6 57 311 231 448 6.15e-18 84.3
MsaG042302 MtrunA17_Chr2g0287651 25.170 294 195 6 21 310 45 317 9.35e-18 84.0
MsaG042302 MtrunA17_Chr5g0441581 24.908 273 169 8 39 311 25 261 6.89e-17 81.3
MsaG042302 MtrunA17_Chr6g0477261 32.759 116 78 0 196 311 7 122 4.92e-16 78.6
MsaG042302 MtrunA17_Chr1g0196541 24.806 258 166 6 55 310 1 232 5.38e-16 78.6
MsaG042302 MtrunA17_Chr2g0291591 25.559 313 175 13 14 310 29 299 1.16e-14 74.3
MsaG042302 MtrunA17_Chr1g0203051 22.672 247 168 4 66 310 94 319 1.34e-14 74.3
MsaG042302 MtrunA17_Chr1g0198761 25.379 264 172 7 56 311 52 298 2.36e-14 73.6
MsaG042302 MtrunA17_Chr2g0276841 23.810 252 168 7 65 311 84 316 5.13e-14 72.4
MsaG042302 MtrunA17_Chr5g0431001 25.564 266 169 8 56 311 66 312 1.14e-13 71.2
MsaG042302 MtrunA17_Chr2g0329031 24.419 258 158 7 57 310 20 244 1.15e-11 65.5
MsaG042302 MtrunA17_Chr1g0207551 22.712 295 192 9 22 311 9 272 1.24e-11 65.5
MsaG042302 MtrunA17_Chr2g0294841 24.806 258 161 10 57 303 51 286 5.84e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042302 AT4G38180.1 28.195 266 166 6 50 311 72 316 2.64e-25 106
MsaG042302 AT5G28530.1 25.000 260 165 6 56 303 60 301 2.49e-15 77.0
MsaG042302 AT5G28530.3 25.000 260 165 6 56 303 60 301 3.04e-15 76.6
MsaG042302 AT5G28530.2 25.000 260 165 6 56 303 60 301 3.04e-15 76.6
MsaG042302 AT1G10240.2 22.619 252 171 7 65 311 62 294 1.33e-12 68.6
MsaG042302 AT1G10240.1 22.619 252 171 7 65 311 62 294 1.33e-12 68.6

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACTTCTCGAAATGATCTA+AGG 0.311482 8:+19989464 None:intergenic
TCTGTTGTTGGCCTGTTGTT+AGG 0.320106 8:+19989655 None:intergenic
CAACTAGATTATTCTCTATT+CGG 0.323831 8:-19989148 MsaT042302.1:CDS
GCCGATATTTATTGTTTGTT+CGG 0.341758 8:+19989098 None:intergenic
AACAATAAATATCGGCCATT+AGG 0.388497 8:-19989091 MsaT042302.1:CDS
ACCGAACAAACAATAAATAT+CGG 0.389395 8:-19989099 MsaT042302.1:CDS
TCCAGCTTCAAATATATTCC+AGG 0.389425 8:+19989568 None:intergenic
GAGAACGTCTTATGAAGTTA+TGG 0.394356 8:-19989389 MsaT042302.1:CDS
ACCTGTGGATTGTCTGTTGT+TGG 0.402496 8:+19989643 None:intergenic
GTCTTATGAAGTTATGGGTC+AGG 0.415385 8:-19989383 MsaT042302.1:CDS
GAAGTTATGGGTCAGGGAGT+TGG 0.426260 8:-19989376 MsaT042302.1:CDS
CGTTATGTTTGTAACAAAGA+AGG 0.427485 8:-19989703 MsaT042302.1:CDS
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 8:-19989451 MsaT042302.1:CDS
TCCATGATTCTTTATTGCTA+GGG 0.444266 8:+19989866 None:intergenic
TTCCATGATTCTTTATTGCT+AGG 0.445442 8:+19989865 None:intergenic
ATGTGTATAAGATATATAGA+TGG 0.452819 8:-19989534 MsaT042302.1:CDS
GCTCTTATAAATTCTAAAGC+TGG 0.462891 8:-19989421 MsaT042302.1:CDS
AGAACGTCTTATGAAGTTAT+GGG 0.466325 8:-19989388 MsaT042302.1:CDS
GTTTACTTAATCCTAACAAC+AGG 0.470860 8:-19989666 MsaT042302.1:CDS
TTTAAGTCTGAAAACCGAAA+AGG 0.483010 8:+19989337 None:intergenic
CCCCTAGCAATAAAGAATCA+TGG 0.497001 8:-19989867 MsaT042302.1:CDS
ACCTGGAATATATTTGAAGC+TGG 0.503759 8:-19989569 MsaT042302.1:CDS
ACAAAACAAGAAATCTGATA+AGG 0.511435 8:-19989737 MsaT042302.1:CDS
CTAAGGTAACACGAATGCTC+TGG 0.517941 8:+19989481 None:intergenic
GTCAGCATGAATCATTGCTA+GGG 0.522802 8:+19989906 None:intergenic
GGTAATTATGCATATAACAC+TGG 0.523547 8:-19989799 MsaT042302.1:CDS
TAACAAAGAAGGTTTCAAGA+AGG 0.525236 8:-19989692 MsaT042302.1:CDS
TAAGATATATAGATGGGATG+TGG 0.528498 8:-19989527 MsaT042302.1:CDS
GAAAGGGTTGGTTGTAAACC+TGG 0.531048 8:-19989586 MsaT042302.1:CDS
GAATGCTCTGGTTTATGTAA+TGG 0.534744 8:+19989493 None:intergenic
CCATGATTCTTTATTGCTAG+GGG 0.537011 8:+19989867 None:intergenic
TGTCAGCATGAATCATTGCT+AGG 0.540740 8:+19989905 None:intergenic
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 8:-19989691 MsaT042302.1:CDS
GTTATGGGTCAGGGAGTTGG+AGG 0.547221 8:-19989373 MsaT042302.1:CDS
TTCACAAACTCAATAACCTG+TGG 0.590631 8:+19989628 None:intergenic
TGTGTATAAGATATATAGAT+GGG 0.601002 8:-19989533 MsaT042302.1:CDS
TCACTGATTCATGCTGAGAG+TGG 0.606950 8:-19989946 MsaT042302.1:CDS
TCTTATGAAGTTATGGGTCA+GGG 0.609153 8:-19989382 MsaT042302.1:CDS
ACATCAACTTCATCTGAGAG+TGG 0.622661 8:-19989991 MsaT042302.1:CDS
GCCAACAACAGACAATCCAC+AGG 0.650907 8:-19989644 MsaT042302.1:CDS
TCAGCATGAATCATTGCTAG+GGG 0.681156 8:+19989907 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 19989087 19990022 19989087 ID=MsaG042302
Chr8 mRNA 19989087 19990022 19989087 ID=MsaT042302.1;Parent=MsaG042302
Chr8 exon 19989087 19990022 19989087 ID=MsaT042302.1.exon1;Parent=MsaT042302.1
Chr8 CDS 19989087 19990022 19989087 ID=cds.MsaT042302.1;Parent=MsaT042302.1
Gene Sequence

>MsaT042302.1

ATGGATTTGACATCAACTTCATCTGAGAGTGGACAACTGAGTGTTGAAACTTCATCACTGATTCATGCTGAGAGTGGACAATTGAGTGTTACTCCCCTAGCAATGATTCATGCTGACAGTTCTCAATGTTACTCCCCTAGCAATAAAGAATCATGGAAGTCTTTAGTCTTTCAATCTATTAAAGAGATTGAAGATTTTTATGGTAATTATGCATATAACACTGGATTTTCTATTAGGACTATGTTGAAGTCGAAGAATAATTCACAAAACAAGAAATCTGATAAGGTACATTATTTGCGTTATGTTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTTTACTTAATCCTAACAACAGGCCAACAACAGACAATCCACAGGTTATTGAGTTTGTGAAAGTGAAAGAAAAACTTGAGGAAAGGGTTGGTTGTAAACCTGGAATATATTTGAAGCTGGATGAAGTTTTGAATGTGTATAAGATATATAGATGGGATGTGGATCACTGTCATCCATTACATAAACCAGAGCATTCGTGTTACCTTAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTAGCTCTTATAAATTCTAAAGCTGGAATGTCGATGAGAACGTCTTATGAAGTTATGGGTCAGGGAGTTGGAGGCACAGAGAATCTTCCTTTTCGGTTTTCAGACTTAAAGAACTATCTAATGACAATTCGTCAAAAAGAGATGGTGGTTGGTGAAGCAACTGTAATTCAAGAATTCTTTAGAAATGAAGCCCTCTCGAAACCATCTTTTTACTATGATATTCAAGTTGATGCTGCAGAAGACATAGCTAGTATTTTTTGGTCAGATGGAATTATGCAACTAGATTATTCTCTATTCGGCGATGTCATCAGTTTTGATACAACTTACCGAACAAACAATAAATATCGGCCATTAGGTTAG

Protein sequence

>MsaT042302.1

MDLTSTSSESGQLSVETSSLIHAESGQLSVTPLAMIHADSSQCYSPSNKESWKSLVFQSIKEIEDFYGNYAYNTGFSIRTMLKSKNNSQNKKSDKVHYLRYVCNKEGFKKGSLLNPNNRPTTDNPQVIEFVKVKEKLEERVGCKPGIYLKLDEVLNVYKIYRWDVDHCHPLHKPEHSCYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMGQGVGGTENLPFRFSDLKNYLMTIRQKEMVVGEATVIQEFFRNEALSKPSFYYDIQVDAAEDIASIFWSDGIMQLDYSLFGDVISFDTTYRTNNKYRPLG*