AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038994

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038994 MtrunA17_Chr7g0253101 95.167 269 5 2 1 269 1 261 0.0 513
MsaG038994 MtrunA17_Chr6g0461591 61.372 277 77 10 1 264 1 260 1.50e-103 301
MsaG038994 MtrunA17_Chr3g0140331 39.200 250 95 9 15 260 121 317 7.75e-35 128
MsaG038994 MtrunA17_Chr1g0199671 76.471 68 16 0 193 260 239 306 5.90e-34 125
MsaG038994 MtrunA17_Chr8g0340401 37.555 229 77 7 45 260 115 290 1.81e-33 124
MsaG038994 MtrunA17_Chr4g0035891 80.000 65 13 0 196 260 211 275 3.28e-33 122
MsaG038994 MtrunA17_Chr2g0326771 61.702 94 35 1 172 264 191 284 3.49e-33 123
MsaG038994 MtrunA17_Chr1g0146231 36.364 264 113 9 11 260 76 298 6.83e-33 123
MsaG038994 MtrunA17_Chr8g0372291 81.538 65 12 0 196 260 218 282 1.84e-32 120
MsaG038994 MtrunA17_Chr1g0169431 74.648 71 18 0 190 260 166 236 6.81e-32 118
MsaG038994 MtrunA17_Chr1g0213161 75.758 66 16 0 196 261 152 217 6.82e-32 117
MsaG038994 MtrunA17_Chr5g0404981 41.048 229 95 8 45 260 163 364 1.08e-31 120
MsaG038994 MtrunA17_Chr3g0145121 76.923 65 15 0 196 260 215 279 3.20e-31 117
MsaG038994 MtrunA17_Chr4g0028961 71.831 71 20 0 193 263 229 299 6.60e-31 117
MsaG038994 MtrunA17_Chr5g0395391 73.846 65 17 0 196 260 270 334 3.07e-29 113
MsaG038994 MtrunA17_Chr5g0395391 71.875 64 18 0 196 259 168 231 1.36e-27 108
MsaG038994 MtrunA17_Chr7g0232671 58.065 62 26 0 196 257 187 248 5.49e-20 86.7
MsaG038994 MtrunA17_Chr7g0232701 56.923 65 28 0 193 257 70 134 7.28e-20 83.2
MsaG038994 MtrunA17_Chr7g0232681 40.000 105 63 0 153 257 89 193 3.12e-19 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038994 AT4G32890.1 42.793 222 81 6 45 260 80 261 2.11e-43 150
MsaG038994 AT2G45050.1 39.167 240 93 8 21 260 57 243 4.46e-39 137
MsaG038994 AT5G25830.1 38.655 238 88 8 45 260 82 283 2.83e-36 132
MsaG038994 AT3G60530.1 39.631 217 59 8 45 260 77 222 1.20e-35 128
MsaG038994 AT5G66320.2 40.891 247 109 9 28 260 90 313 2.34e-35 129
MsaG038994 AT5G66320.1 40.891 247 109 9 28 260 90 313 2.34e-35 129
MsaG038994 AT3G24050.1 75.000 68 17 0 193 260 191 258 4.99e-33 122
MsaG038994 AT4G36240.1 37.838 222 75 6 45 265 74 233 1.36e-32 120
MsaG038994 AT3G51080.1 81.538 65 12 0 196 260 221 285 5.23e-32 120
MsaG038994 AT1G08010.2 72.308 65 18 0 196 260 220 284 4.69e-31 117
MsaG038994 AT1G08010.1 72.308 65 18 0 196 260 220 284 4.69e-31 117
MsaG038994 AT1G08010.3 72.308 65 18 0 196 260 220 284 4.69e-31 117
MsaG038994 AT1G08000.2 73.846 65 17 0 196 260 218 282 9.11e-30 114
MsaG038994 AT1G08000.1 73.846 65 17 0 196 260 218 282 9.11e-30 114
MsaG038994 AT4G34680.1 72.308 65 18 0 196 260 180 244 1.03e-29 113
MsaG038994 AT4G34680.2 72.308 65 18 0 196 260 180 244 1.03e-29 113
MsaG038994 AT2G28340.1 67.188 64 21 0 198 261 193 256 2.78e-26 104
MsaG038994 AT3G45170.1 54.878 82 37 0 185 266 104 185 3.23e-26 102

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTCTTAAAACAAGCTTAT+TGG 0.124697 7:-83509121 MsaT038994.1:CDS
CACTAGAAACTTGTACATTT+TGG 0.144962 7:+83509844 None:intergenic
CATGCATTGCATAGTGTCTT+TGG 0.243410 7:+83508888 None:intergenic
TGAAAAGGAAATTGTGAAAA+AGG 0.260278 7:-83509033 MsaT038994.1:CDS
CATAGTGTCTTTGGGCCTAA+TGG 0.278012 7:+83508897 None:intergenic
ACACTACTCACTAGGATTAA+TGG 0.294145 7:+83508737 None:intergenic
ATGGGCCTGCCCTCCATTGT+GGG 0.318681 7:+83508916 None:intergenic
CAATGGAGGGCAGGCCCATT+AGG 0.322478 7:-83508912 MsaT038994.1:CDS
GTGTTGGATAAGATGCTTAA+AGG 0.325601 7:+83509182 None:intergenic
AAGATGCTTAAAGGGTCTTT+TGG 0.328925 7:+83509191 None:intergenic
GGTTTCTTCACTGTGTTTGA+AGG 0.329936 7:+83509296 None:intergenic
ATAGTGTCTTTGGGCCTAAT+GGG 0.339035 7:+83508898 None:intergenic
GTACACCTCCTTGTTGGAAT+TGG 0.356244 7:+83508960 None:intergenic
ATGCATTGCATAGTGTCTTT+GGG 0.368727 7:+83508889 None:intergenic
AATGGGCCTGCCCTCCATTG+TGG 0.406749 7:+83508915 None:intergenic
CAATGTGTACACCTCCTTGT+TGG 0.437336 7:+83508954 None:intergenic
TGTTGGATAAGATGCTTAAA+GGG 0.444585 7:+83509183 None:intergenic
AAATTCACACAAGAAAGTTA+TGG 0.446713 7:-83508784 MsaT038994.1:CDS
GCTTTGCCTGGAACTGCAAA+AGG 0.456279 7:+83509251 None:intergenic
GTAAAACTACACAACTTTGT+GGG 0.468662 7:+83509360 None:intergenic
AGATTATGAAGTGGTTGAAA+AGG 0.475929 7:-83509048 MsaT038994.1:CDS
TAGTGAACTCATGGTACCTA+AGG 0.486078 7:-83509090 MsaT038994.1:CDS
CAGGCAAAGCAAGAAGCAAA+AGG 0.500793 7:-83509238 MsaT038994.1:CDS
GGTAAAACTACACAACTTTG+TGG 0.510522 7:+83509359 None:intergenic
AGGACCCCACAATGGAGGGC+AGG 0.512119 7:-83508921 MsaT038994.1:CDS
ATTATGTAGGAAGTGGATGT+TGG 0.517271 7:-83509425 MsaT038994.1:intron
TTGAAAGGTTAGAGCAAGAA+GGG 0.531774 7:+83509796 None:intergenic
CTTGAAAGGTTAGAGCAAGA+AGG 0.532182 7:+83509795 None:intergenic
ACAAAAGTTGGACTCTTAGC+AGG 0.532481 7:+83508822 None:intergenic
TAGTGAGTGCAAACAAGAGA+AGG 0.541293 7:-83509826 MsaT038994.1:CDS
GTTAGCTGATAGTGAACTCA+TGG 0.566356 7:-83509099 MsaT038994.1:CDS
TGGGCCTGCCCTCCATTGTG+GGG 0.567754 7:+83508917 None:intergenic
GGTCATCAAGGCTACTTGAA+AGG 0.569542 7:+83509781 None:intergenic
GAGCAGAAAAGAGGTCATCA+AGG 0.570986 7:+83509769 None:intergenic
TGTGGTGTGAGGTACAAATC+TGG 0.576464 7:-83508867 MsaT038994.1:CDS
GTAGGAAGTGGATGTTGGAA+TGG 0.583317 7:-83509420 MsaT038994.1:intron
TTTGAGGTTGATGTTAACAA+TGG 0.593552 7:-83508990 MsaT038994.1:CDS
ACAAAGGACCCCACAATGGA+GGG 0.595325 7:-83508925 MsaT038994.1:CDS
CTCTTAGCAGGTCTATACTC+AGG 0.605156 7:+83508834 None:intergenic
CACAAAGGACCCCACAATGG+AGG 0.605327 7:-83508926 MsaT038994.1:CDS
ACAAGAAAGTTATGGAGATG+AGG 0.611218 7:-83508776 MsaT038994.1:CDS
GGTAACAAAAGATTATGAAG+TGG 0.619135 7:-83509057 MsaT038994.1:CDS
AGTGAACTCATGGTACCTAA+GGG 0.625585 7:-83509089 MsaT038994.1:CDS
AACCACTAACACTACTCACT+AGG 0.631055 7:+83508729 None:intergenic
AAGTGGATGTTGGAATGGAA+TGG 0.634243 7:-83509415 MsaT038994.1:CDS
GTCAAAATCCAATTCCAACA+AGG 0.638845 7:-83508968 MsaT038994.1:CDS
GTACACATTGTTTGTCACAA+AGG 0.655851 7:-83508941 MsaT038994.1:CDS
AAACACAGTGAAGAAACCAA+AGG 0.660234 7:-83509291 MsaT038994.1:CDS
GTGTGAGGTACAAATCTGGT+AGG 0.664094 7:-83508863 MsaT038994.1:CDS
TGTCACAAAGGACCCCACAA+TGG 0.681006 7:-83508929 MsaT038994.1:CDS
AAAATCCAATTCCAACAAGG+AGG 0.704851 7:-83508965 MsaT038994.1:CDS
TATGCAATGCATGTGGTGTG+AGG 0.734829 7:-83508878 MsaT038994.1:CDS
AAGACACTATGCAATGCATG+TGG 0.751831 7:-83508885 MsaT038994.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 83508740 83509877 83508740 ID=MsaG038994
Chr7 mRNA 83508740 83509877 83508740 ID=MsaT038994.1;Parent=MsaG038994
Chr7 exon 83508740 83509438 83508740 ID=MsaT038994.1.exon2;Parent=MsaT038994.1
Chr7 CDS 83508740 83509438 83508740 ID=cds.MsaT038994.1;Parent=MsaT038994.1
Chr7 exon 83509761 83509877 83509761 ID=MsaT038994.1.exon1;Parent=MsaT038994.1
Chr7 CDS 83509761 83509877 83509761 ID=cds.MsaT038994.1;Parent=MsaT038994.1
Gene Sequence

>MsaT038994.1

ATGGATGTGTGCCAAAATGTACAAGTTTCTAGTGAGTGCAAACAAGAGAAGGTTCTTAACCCTTCTTGCTCTAACCTTTCAAGTAGCCTTGATGACCTCTTTTCTGCTCAAAACACGGAAGTGGATGTTGGAATGGAATGGCTTTCAGTGTTTGTTGAAGACTGTTTCTCAAGCCCACAAAGTTGTGTAGTTTTACCCTCTAATGTTCAAAACACAACAAGTACTGTCTCATCAAAACCTTCAAACACAGTGAAGAAACCAAAGGAAGAACAAAATGAGTCACCTTTTGCAGTTCCAGGCAAAGCAAGAAGCAAAAGGAAGAGACTTTCAGCTCCAAGAAGACCAAAAGACCCTTTAAGCATCTTATCCAACACCTTAAACCCTCAAAATGAGTCACTATGTTCTGACCCACCTCTCTTAAAACAAGCTTATTGGTTAGCTGATAGTGAACTCATGGTACCTAAGGGTGAAAAAGAGGTAACAAAAGATTATGAAGTGGTTGAAAAGGAAATTGTGAAAAAGGAAAGGTTTGATTTTGAGGGGTTTGAGGTTGATGTTAACAATGGTCAAAATCCAATTCCAACAAGGAGGTGTACACATTGTTTGTCACAAAGGACCCCACAATGGAGGGCAGGCCCATTAGGCCCAAAGACACTATGCAATGCATGTGGTGTGAGGTACAAATCTGGTAGGTTGTTGCCTGAGTATAGACCTGCTAAGAGTCCAACTTTTGTGAGTTTTTTGCATTCAAATTCACACAAGAAAGTTATGGAGATGAGGATGAATGTTGTATCTTCCATTAATCCTAGTGAGTAG
Protein sequence

>MsaT038994.1

MDVCQNVQVSSECKQEKVLNPSCSNLSSSLDDLFSAQNTEVDVGMEWLSVFVEDCFSSPQSCVVLPSNVQNTTSTVSSKPSNTVKKPKEEQNESPFAVPGKARSKRKRLSAPRRPKDPLSILSNTLNPQNESLCSDPPLLKQAYWLADSELMVPKGEKEVTKDYEVVEKEIVKKERFDFEGFEVDVNNGQNPIPTRRCTHCLSQRTPQWRAGPLGPKTLCNACGVRYKSGRLLPEYRPAKSPTFVSFLHSNSHKKVMEMRMNVVSSINPSE*