AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046096


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046096 MtrunA17_Chr4g0071301 91.463 328 19 4 1 320 7 333 0.0 516
MsaG046096 MtrunA17_Chr2g0299081 46.201 329 130 14 1 320 6 296 5.64e-48 163
MsaG046096 MtrunA17_Chr1g0151461 44.667 150 58 6 122 249 108 254 7.21e-26 104
MsaG046096 MtrunA17_Chr4g0068031 33.784 148 72 4 172 319 22 143 2.99e-17 77.4
MsaG046096 MtrunA17_Chr7g0271861 75.000 36 9 0 180 215 22 57 1.80e-14 69.3
MsaG046096 MtrunA17_Chr5g0404131 53.448 58 27 0 159 216 171 228 3.27e-14 72.0
MsaG046096 MtrunA17_Chr8g0373231 70.270 37 11 0 180 216 125 161 1.46e-12 66.2
MsaG046096 MtrunA17_Chr1g0213161 39.506 81 42 2 174 249 146 224 8.44e-12 63.9
MsaG046096 MtrunA17_Chr2g0326771 46.377 69 36 1 148 215 183 251 3.27e-11 63.2
MsaG046096 MtrunA17_Chr5g0404981 40.244 82 44 2 180 258 300 379 4.13e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046096 AT4G26150.1 42.105 247 117 6 91 320 115 352 1.56e-38 140
MsaG046096 AT5G56860.1 44.444 153 54 5 91 213 112 263 4.63e-24 101
MsaG046096 AT5G49300.1 36.424 151 57 4 169 319 27 138 7.33e-18 79.3
MsaG046096 AT5G26930.1 75.610 41 10 0 177 217 23 63 4.04e-17 76.6
MsaG046096 AT3G06740.1 37.778 135 51 5 182 316 43 144 1.77e-15 72.8
MsaG046096 AT4G36620.1 50.769 65 25 1 180 237 75 139 8.06e-15 72.8
MsaG046096 AT3G50870.1 63.265 49 17 1 180 227 152 200 3.71e-14 72.0
MsaG046096 AT3G16870.1 70.000 40 12 0 178 217 40 79 9.66e-14 69.3
MsaG046096 AT4G16141.1 67.500 40 13 0 178 217 35 74 1.84e-13 68.6
MsaG046096 AT2G18380.1 66.667 45 14 1 176 219 88 132 2.58e-13 68.2
MsaG046096 AT1G08010.2 39.773 88 50 2 172 259 212 296 5.64e-13 68.9
MsaG046096 AT1G08010.1 39.773 88 50 2 172 259 212 296 5.64e-13 68.9
MsaG046096 AT1G08010.3 39.773 88 50 2 172 259 212 296 5.64e-13 68.9
MsaG046096 AT1G08000.2 38.636 88 50 2 172 259 210 293 3.05e-12 66.6
MsaG046096 AT1G08000.1 38.636 88 50 2 172 259 210 293 3.05e-12 66.6

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAATAATTATTCAACTATT+AGG 0.137638 8:+80447433 MsaT046096.1:CDS
TGAACAATCAAACTCAATTT+TGG 0.139942 8:-80447974 None:intergenic
ATTAAGCTTGAGTGAGAATT+TGG 0.175716 8:+80448083 MsaT046096.1:CDS
CTTCTCATGGCGTTATCTTA+TGG 0.189112 8:+80448150 MsaT046096.1:CDS
GAAAATGAAGAAGAAGAATT+TGG 0.264622 8:-80446868 None:intergenic
GCTGCTGCAGCATCGGCAAT+TGG 0.307111 8:+80447883 MsaT046096.1:CDS
CAATAATTATTCAACTATTA+GGG 0.315780 8:+80447434 MsaT046096.1:CDS
TTGCAGCCTCTCTCTCATCC+TGG 0.357986 8:-80448125 None:intergenic
TGCAGCCTCTCTCTCATCCT+GGG 0.415909 8:-80448124 None:intergenic
ATGTATACCTTTGGGCCTCT+TGG 0.416802 8:-80447504 None:intergenic
CATGTGGTAAGTTGTTTGTT+TGG 0.417311 8:-80446960 None:intergenic
TTAAGCTTGAGTGAGAATTT+GGG 0.418107 8:+80448084 MsaT046096.1:CDS
AAGGAAGGCAAGACGTGCTT+TGG 0.419438 8:+80447858 MsaT046096.1:CDS
ACACCACTAAGACCCCTCTA+TGG 0.423028 8:+80447472 MsaT046096.1:CDS
CTTGATCTTGTGAGTCTAAG+AGG 0.434136 8:-80446915 None:intergenic
CCTCCATAGAGGGGTCTTAG+TGG 0.441426 8:-80447475 None:intergenic
GATGATGGTTTCTGATCAAA+CGG 0.456924 8:+80447320 MsaT046096.1:CDS
TTGGTCCACTCCTCCATAGA+GGG 0.468086 8:-80447485 None:intergenic
TTTGTTTGGCAGTAATAAGA+TGG 0.481929 8:-80446946 None:intergenic
TGATCTTGATTAAGATCAAA+GGG 0.497131 8:-80446826 None:intergenic
AAGAAGAATTTGGACTAGAA+AGG 0.497380 8:-80446858 None:intergenic
ATTAAGATCAAAGGGCTTGA+CGG 0.498526 8:-80446818 None:intergenic
TTATCTTATGGATTAGTCCA+TGG 0.502722 8:+80448162 MsaT046096.1:CDS
ATATTCACTCAAGTGGATCA+TGG 0.512325 8:+80447130 MsaT046096.1:CDS
GAGAATAATGAAGAAGATGA+TGG 0.517661 8:+80447305 MsaT046096.1:CDS
TTTGGCTGCTGCTGCAGCAT+CGG 0.517772 8:+80447876 MsaT046096.1:CDS
CTTGGTCCACTCCTCCATAG+AGG 0.517925 8:-80447486 None:intergenic
TTGATCTTGATTAAGATCAA+AGG 0.518492 8:-80446827 None:intergenic
TGATCTTAATTAGGTTGAGA+AGG 0.524769 8:+80447104 MsaT046096.1:intron
TACTTTACCTCTTGATCATG+TGG 0.541831 8:-80446976 None:intergenic
AACACAAGCTGACAATTCGT+TGG 0.542076 8:+80447193 MsaT046096.1:CDS
AAGGTTAATATTCACTCAAG+TGG 0.542101 8:+80447123 MsaT046096.1:CDS
CAGTCACTTTGCAACGCATG+TGG 0.556816 8:+80447826 MsaT046096.1:intron
AATTTGGACTAGAAAGGTCA+TGG 0.556899 8:-80446852 None:intergenic
CAACTTACCACATGATCAAG+AGG 0.559110 8:+80446969 MsaT046096.1:CDS
GCAGCCTCTCTCTCATCCTG+GGG 0.567150 8:-80448123 None:intergenic
AGAGGCTGCAATCCTTCTCA+TGG 0.574547 8:+80448137 MsaT046096.1:CDS
ATGATGGTTTCTGATCAAAC+GGG 0.587005 8:+80447321 MsaT046096.1:CDS
ATGTGGGATTAGACAAAGGA+AGG 0.591436 8:+80447843 MsaT046096.1:CDS
CTGCTATTATCTGTTCCTTG+TGG 0.602551 8:-80447408 None:intergenic
TGATCATGAGGATGGTACTT+CGG 0.612710 8:+80447260 MsaT046096.1:CDS
CAAGAAGCTGATCATGAGGA+TGG 0.614482 8:+80447252 MsaT046096.1:CDS
AGGATGGTACTTCGGTGAAG+TGG 0.614786 8:+80447268 MsaT046096.1:CDS
TTGATCTTGTGAGTCTAAGA+GGG 0.615407 8:-80446914 None:intergenic
CATAAGATAACGCCATGAGA+AGG 0.615895 8:-80448149 None:intergenic
TAATCAAGAAGCTGATCATG+AGG 0.617008 8:+80447248 MsaT046096.1:CDS
GAGTGGACCAAGAGGCCCAA+AGG 0.618470 8:+80447497 MsaT046096.1:CDS
CAATGAACTAAGCTCAACCA+TGG 0.619076 8:-80448179 None:intergenic
TCTGTTCCTTGTGGTGACAG+TGG 0.621928 8:-80447399 None:intergenic
TTGACGGACGAAGATAGATA+AGG 0.632473 8:-80446802 None:intergenic
TGGTCCACTCCTCCATAGAG+GGG 0.635988 8:-80447484 None:intergenic
AAGACCCCTCTATGGAGGAG+TGG 0.638844 8:+80447480 MsaT046096.1:CDS
GACGAAGATAGATAAGGTGG+TGG 0.639273 8:-80446796 None:intergenic
CCACTAAGACCCCTCTATGG+AGG 0.641407 8:+80447475 MsaT046096.1:CDS
AGTCACTTTGCAACGCATGT+GGG 0.651862 8:+80447827 MsaT046096.1:intron
AAGCAACCACTGTCACCACA+AGG 0.654177 8:+80447393 MsaT046096.1:CDS
ACGGACGAAGATAGATAAGG+TGG 0.673417 8:-80446799 None:intergenic
ACGCATGTGGGATTAGACAA+AGG 0.678808 8:+80447839 MsaT046096.1:CDS
CAGCCTCTCTCTCATCCTGG+GGG 0.685188 8:-80448122 None:intergenic
CTATGGAGGAGTGGACCAAG+AGG 0.688009 8:+80447489 MsaT046096.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 80446790 80448188 80446790 ID=MsaG046096
Chr8 mRNA 80446790 80448188 80446790 ID=MsaT046096.1;Parent=MsaG046096
Chr8 exon 80446790 80446990 80446790 ID=MsaT046096.1.exon1;Parent=MsaT046096.1
Chr8 CDS 80446790 80446990 80446790 ID=cds.MsaT046096.1;Parent=MsaT046096.1
Chr8 exon 80447117 80447518 80447117 ID=MsaT046096.1.exon2;Parent=MsaT046096.1
Chr8 CDS 80447117 80447518 80447117 ID=cds.MsaT046096.1;Parent=MsaT046096.1
Chr8 exon 80447829 80448188 80447829 ID=MsaT046096.1.exon3;Parent=MsaT046096.1
Chr8 CDS 80447829 80448188 80447829 ID=cds.MsaT046096.1;Parent=MsaT046096.1
Gene Sequence

>MsaT046096.1

ATGATACCACCACCTTATCTATCTTCGTCCGTCAAGCCCTTTGATCTTAATCAAGATCAAAACCATGACCTTTCTAGTCCAAATTCTTCTTCTTCATTTTCTTCTCTATCAGCATCATATTCTACCCTCTTAGACTCACAAGATCAAGTTCAACAACCATCTTATTACTGCCAAACAAACAACTTACCACATGATCAAGAGGTTGAGAAGGTTAATATTCACTCAAGTGGATCATGGAATTCTTCAACTGCAGAAAACCATGAAAACTACAAGACTAAACACAAGCTGACAATTCGTTGGAAGAAAGAACAAATCAGTGATGAAATGAATAATAATCAAGAAGCTGATCATGAGGATGGTACTTCGGTGAAGTGGATGTCTTCAAAGATGAGAATAATGAAGAAGATGATGGTTTCTGATCAAACGGGTAGTTCTAACTTAACAAGTAACTCTAAGCTGATTAAGTTTGAAGATCAAAAGCAACCACTGTCACCACAAGGAACAGATAATAGCAGCAGCAATAATTATTCAACTATTAGGGTTTGCTCTGATTGCAACACCACTAAGACCCCTCTATGGAGGAGTGGACCAAGAGGCCCAAAGTCACTTTGCAACGCATGTGGGATTAGACAAAGGAAGGCAAGACGTGCTTTGGCTGCTGCTGCAGCATCGGCAATTGGTACAACAATTGCTGATCAGACAGCTTCTGTGAAGAGAAAAAAGTTGCAGAAGAAAAAAGAGAATAAATCCAAAATTGAGTTTGATTGTTCAACAGTGCATATGAAAAAGAAGCAGAAACTTGAAGCAAAACCATCTCATCAAACTAGAAAAGAGTTTATCACTTTTGAGGATTTGAAATTAAGCTTGAGTGAGAATTTGGGTGTTCAACAAGTTTTCCCCCAGGATGAGAGAGAGGCTGCAATCCTTCTCATGGCGTTATCTTATGGATTAGTCCATGGTTGA

Protein sequence

>MsaT046096.1

MIPPPYLSSSVKPFDLNQDQNHDLSSPNSSSSFSSLSASYSTLLDSQDQVQQPSYYCQTNNLPHDQEVEKVNIHSSGSWNSSTAENHENYKTKHKLTIRWKKEQISDEMNNNQEADHEDGTSVKWMSSKMRIMKKMMVSDQTGSSNLTSNSKLIKFEDQKQPLSPQGTDNSSSNNYSTIRVCSDCNTTKTPLWRSGPRGPKSLCNACGIRQRKARRALAAAAASAIGTTIADQTASVKRKKLQKKKENKSKIEFDCSTVHMKKKQKLEAKPSHQTRKEFITFEDLKLSLSENLGVQQVFPQDEREAAILLMALSYGLVHG*