AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035218

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035218.t1 MTR_4g090890 99.048 210 2 0 1 210 1 210 2.37e-158 436
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035218.t1 AT4G05000 82.775 209 36 0 1 209 1 209 3.48e-134 375
MS.gene035218.t1 AT4G05000 82.775 209 36 0 1 209 1 209 3.48e-134 375
MS.gene035218.t1 AT4G05000 82.775 209 36 0 1 209 1 209 3.48e-134 375
MS.gene035218.t1 AT4G21560 82.692 208 36 0 3 210 2 209 1.19e-125 353
MS.gene035218.t1 AT4G21560 82.692 208 36 0 3 210 2 209 1.19e-125 353
MS.gene035218.t1 AT4G21560 82.692 208 36 0 3 210 2 209 1.19e-125 353

Find 50 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTTGCTCTCAGATCTTTA+TGG 0.115170 4.2:-21518135 MS.gene035218:CDS
GTCTTCTTACAATTCCTTTA+TGG 0.166564 4.2:-21517971 MS.gene035218:CDS
CACTCTATCTCATATTCCTT+TGG 0.322658 4.2:+21518429 None:intergenic
TGCTAGGTACAGTGTCCTTA+AGG 0.356333 4.2:+21518367 None:intergenic
TGAAATGAGCAATTAGCTTC+TGG 0.384000 4.2:+21518406 None:intergenic
AACCCTAGCTTCCACCCTTA+AGG 0.408396 4.2:-21518382 MS.gene035218:CDS
AGCCACCATGTTAAGTTTCA+AGG 0.416540 4.2:+21518173 None:intergenic
TGCCTGCTACAGTGGAGCAC+CGG 0.419657 4.2:-21518275 MS.gene035218:CDS
ATTGGGCAGAGCTGCCATAA+AGG 0.420324 4.2:+21517957 None:intergenic
TACCTATAGGATGGAGTGCC+CGG 0.420784 4.2:-21518328 MS.gene035218:CDS
ATTAACCGTCTTGTGGTATC+TGG 0.424735 4.2:-21518300 MS.gene035218:CDS
TGATGAATTGACAGAACAAC+AGG 0.433481 4.2:-21518019 MS.gene035218:CDS
GATTGGAAGGTTATCAAAGA+TGG 0.440404 4.2:-21518049 MS.gene035218:CDS
TAACATGGTGGCTGTGGATC+AGG 0.449737 4.2:-21518163 MS.gene035218:CDS
TGTCCTTAAGGGTGGAAGCT+AGG 0.450461 4.2:+21518379 None:intergenic
CACCGGCTGCTGCAGTAGCC+CGG 0.452909 4.2:+21518256 None:intergenic
ATGGCAGCTCTGCCCAATGC+TGG 0.461234 4.2:-21517952 MS.gene035218:CDS
CACCGGGCTACTGCAGCAGC+CGG 0.465917 4.2:-21518258 MS.gene035218:CDS
GAGATCAAAGTGAAGCTGTC+TGG 0.466167 4.2:+21517996 None:intergenic
ATCTGGTGTGCCTGCTACAG+TGG 0.466901 4.2:-21518283 MS.gene035218:CDS
GCCCGGTGCTCCACTGTAGC+AGG 0.469416 4.2:+21518273 None:intergenic
GTCCTTAAGGGTGGAAGCTA+GGG 0.470135 4.2:+21518380 None:intergenic
GCTAGGTACAGTGTCCTTAA+GGG 0.471651 4.2:+21518368 None:intergenic
ATCAGTCAAGTGCCAGCATT+GGG 0.475748 4.2:+21517940 None:intergenic
TGAGCTTTATGCAATTATCA+AGG 0.477470 4.2:-21518496 MS.gene035218:CDS
GCCTGCTACAGTGGAGCACC+GGG 0.503675 4.2:-21518274 MS.gene035218:CDS
GAAACTTAACATGGTGGCTG+TGG 0.505970 4.2:-21518169 MS.gene035218:CDS
AATCAGTCAAGTGCCAGCAT+TGG 0.532447 4.2:+21517939 None:intergenic
ACAAGACGGTTAATTGCAGC+CGG 0.538337 4.2:+21518309 None:intergenic
AAATGAAGGATTGGATTGGA+AGG 0.553711 4.2:-21518062 MS.gene035218:CDS
TCAGAAAATCTCTCAATGCT+AGG 0.555023 4.2:+21518351 None:intergenic
AGCCGGGCACTCCATCCTAT+AGG 0.556257 4.2:+21518326 None:intergenic
ACATGACGGAGGTTAAGCTC+TGG 0.557097 4.2:-21518557 MS.gene035218:CDS
ATTGGAAGGTTATCAAAGAT+GGG 0.567981 4.2:-21518048 MS.gene035218:CDS
CTCAGCCACAGTGGCAGCCG+AGG 0.584044 4.2:+21518227 None:intergenic
GGCAGCCGAGGTGGACACAC+CGG 0.587917 4.2:+21518239 None:intergenic
GTCCACCTCGGCTGCCACTG+TGG 0.597134 4.2:-21518232 MS.gene035218:CDS
AGCAGCCGGTGTGTCCACCT+CGG 0.599861 4.2:-21518244 MS.gene035218:CDS
CCATAAAGATCTGAGAGCAA+AGG 0.601434 4.2:+21518135 None:intergenic
TAGAGATATAATATCACCAA+AGG 0.609606 4.2:-21518445 MS.gene035218:CDS
AGCCACAGTGGCAGCCGAGG+TGG 0.627242 4.2:+21518230 None:intergenic
GGCTGCAATTAACCGTCTTG+TGG 0.627568 4.2:-21518307 MS.gene035218:CDS
AGGTACAGTGTCCTTAAGGG+TGG 0.630756 4.2:+21518371 None:intergenic
GGATTCCTTGAAACTTAACA+TGG 0.637083 4.2:-21518178 MS.gene035218:CDS
CAATTATCAAGGCTACTGAA+AGG 0.659301 4.2:-21518485 MS.gene035218:CDS
CAAGACGGTTAATTGCAGCC+GGG 0.665670 4.2:+21518310 None:intergenic
TAGAATAAATAACATGACGG+AGG 0.669493 4.2:-21518568 None:intergenic
CTGAACACACTCAGCCACAG+TGG 0.699627 4.2:+21518218 None:intergenic
TTCCTTGAAACTTAACATGG+TGG 0.700241 4.2:-21518175 MS.gene035218:CDS
GCACACCAGATACCACAAGA+CGG 0.739666 4.2:+21518295 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAAAAATGAAGGATTGGAT+TGG - chr4.2:21518434-21518453 MS.gene035218:CDS 25.0%
! GGAAAATAAAAATGAAGGAT+TGG - chr4.2:21518429-21518448 MS.gene035218:CDS 25.0%
! TAGAGATATAATATCACCAA+AGG - chr4.2:21518055-21518074 MS.gene035218:CDS 25.0%
!! TCAGAATTTTATTACATCGA+TGG - chr4.2:21518301-21518320 MS.gene035218:CDS 25.0%
ATTGGAAGGTTATCAAAGAT+GGG - chr4.2:21518452-21518471 MS.gene035218:CDS 30.0%
GTCTTCTTACAATTCCTTTA+TGG - chr4.2:21518529-21518548 MS.gene035218:CDS 30.0%
! AGAGATTTTCTGATACCTAT+AGG - chr4.2:21518159-21518178 MS.gene035218:CDS 30.0%
! ATTTTCTGATACCTATAGGA+TGG - chr4.2:21518163-21518182 MS.gene035218:CDS 30.0%
! TGAGCTTTATGCAATTATCA+AGG - chr4.2:21518004-21518023 MS.gene035218:CDS 30.0%
CAATTATCAAGGCTACTGAA+AGG - chr4.2:21518015-21518034 MS.gene035218:CDS 35.0%
CACTCTATCTCATATTCCTT+TGG + chr4.2:21518074-21518093 None:intergenic 35.0%
CGAGGGGAAAATAAAAATGA+AGG - chr4.2:21518424-21518443 MS.gene035218:CDS 35.0%
GATTGGAAGGTTATCAAAGA+TGG - chr4.2:21518451-21518470 MS.gene035218:CDS 35.0%
GGATTCCTTGAAACTTAACA+TGG - chr4.2:21518322-21518341 MS.gene035218:CDS 35.0%
TCAGAAAATCTCTCAATGCT+AGG + chr4.2:21518152-21518171 None:intergenic 35.0%
TGATGAATTGACAGAACAAC+AGG - chr4.2:21518481-21518500 MS.gene035218:CDS 35.0%
TTCCTTGAAACTTAACATGG+TGG - chr4.2:21518325-21518344 MS.gene035218:CDS 35.0%
! AAATGAAGGATTGGATTGGA+AGG - chr4.2:21518438-21518457 MS.gene035218:CDS 35.0%
! TGAAATGAGCAATTAGCTTC+TGG + chr4.2:21518097-21518116 None:intergenic 35.0%
!! TTTATTTTCCCCTCGAAATC+AGG + chr4.2:21518419-21518438 None:intergenic 35.0%
AGCCACCATGTTAAGTTTCA+AGG + chr4.2:21518330-21518349 None:intergenic 40.0%
ATTAACCGTCTTGTGGTATC+TGG - chr4.2:21518200-21518219 MS.gene035218:CDS 40.0%
CCATAAAGATCTGAGAGCAA+AGG + chr4.2:21518368-21518387 None:intergenic 40.0%
CCTTTGCTCTCAGATCTTTA+TGG - chr4.2:21518365-21518384 MS.gene035218:CDS 40.0%
ACAAGACGGTTAATTGCAGC+CGG + chr4.2:21518194-21518213 None:intergenic 45.0%
GAAACTTAACATGGTGGCTG+TGG - chr4.2:21518331-21518350 MS.gene035218:CDS 45.0%
GAGATCAAAGTGAAGCTGTC+TGG + chr4.2:21518507-21518526 None:intergenic 45.0%
GCTAGGTACAGTGTCCTTAA+GGG + chr4.2:21518135-21518154 None:intergenic 45.0%
TGCTAGGTACAGTGTCCTTA+AGG + chr4.2:21518136-21518155 None:intergenic 45.0%
! ATTTTCCCCTCGAAATCAGG+CGG + chr4.2:21518416-21518435 None:intergenic 45.0%
! ATTTTGCCGCCTGATTTCGA+GGG - chr4.2:21518407-21518426 MS.gene035218:CDS 45.0%
AACCCTAGCTTCCACCCTTA+AGG - chr4.2:21518118-21518137 MS.gene035218:CDS 50.0%
AGGTACAGTGTCCTTAAGGG+TGG + chr4.2:21518132-21518151 None:intergenic 50.0%
ATTGGGCAGAGCTGCCATAA+AGG + chr4.2:21518546-21518565 None:intergenic 50.0%
CAAGACGGTTAATTGCAGCC+GGG + chr4.2:21518193-21518212 None:intergenic 50.0%
GCACACCAGATACCACAAGA+CGG + chr4.2:21518208-21518227 None:intergenic 50.0%
GGCTGCAATTAACCGTCTTG+TGG - chr4.2:21518193-21518212 MS.gene035218:CDS 50.0%
GTCCTTAAGGGTGGAAGCTA+GGG + chr4.2:21518123-21518142 None:intergenic 50.0%
TAACATGGTGGCTGTGGATC+AGG - chr4.2:21518337-21518356 MS.gene035218:CDS 50.0%
TGTCCTTAAGGGTGGAAGCT+AGG + chr4.2:21518124-21518143 None:intergenic 50.0%
! GATTTTGCCGCCTGATTTCG+AGG - chr4.2:21518406-21518425 MS.gene035218:CDS 50.0%
! TACCTATAGGATGGAGTGCC+CGG - chr4.2:21518172-21518191 MS.gene035218:CDS 50.0%
! TTTTGCCGCCTGATTTCGAG+GGG - chr4.2:21518408-21518427 MS.gene035218:CDS 50.0%
ATCTGGTGTGCCTGCTACAG+TGG - chr4.2:21518217-21518236 MS.gene035218:CDS 55.0%
CTGAACACACTCAGCCACAG+TGG + chr4.2:21518285-21518304 None:intergenic 55.0%
AGCCGGGCACTCCATCCTAT+AGG + chr4.2:21518177-21518196 None:intergenic 60.0%
ATGGCAGCTCTGCCCAATGC+TGG - chr4.2:21518548-21518567 MS.gene035218:CDS 60.0%
TGCCTGCTACAGTGGAGCAC+CGG - chr4.2:21518225-21518244 MS.gene035218:CDS 60.0%
AGCAGCCGGTGTGTCCACCT+CGG - chr4.2:21518256-21518275 MS.gene035218:CDS 65.0%
! GCCTGCTACAGTGGAGCACC+GGG - chr4.2:21518226-21518245 MS.gene035218:CDS 65.0%
AGCCACAGTGGCAGCCGAGG+TGG + chr4.2:21518273-21518292 None:intergenic 70.0%
CACCGGGCTACTGCAGCAGC+CGG - chr4.2:21518242-21518261 MS.gene035218:CDS 70.0%
CTCAGCCACAGTGGCAGCCG+AGG + chr4.2:21518276-21518295 None:intergenic 70.0%
GCCCGGTGCTCCACTGTAGC+AGG + chr4.2:21518230-21518249 None:intergenic 70.0%
GGCAGCCGAGGTGGACACAC+CGG + chr4.2:21518264-21518283 None:intergenic 70.0%
GTCCACCTCGGCTGCCACTG+TGG - chr4.2:21518268-21518287 MS.gene035218:CDS 70.0%
! CACCGGCTGCTGCAGTAGCC+CGG + chr4.2:21518247-21518266 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 21517945 21518577 21517945 ID=MS.gene035218
chr4.2 mRNA 21517945 21518577 21517945 ID=MS.gene035218.t1;Parent=MS.gene035218
chr4.2 exon 21517945 21518577 21517945 ID=MS.gene035218.t1.exon1;Parent=MS.gene035218.t1
chr4.2 CDS 21517945 21518577 21517945 ID=cds.MS.gene035218.t1;Parent=MS.gene035218.t1
Gene Sequence

>MS.gene035218

ATGACGGAGGTTAAGCTCTGGAATGACAAGCGCGAGAGAGAAATGTATGACAACTTTGCTGAGCTTTATGCAATTATCAAGGCTACTGAAAGGCTTGAGAAAGCTTATGTTAGAGATATAATATCACCAAAGGAATATGAGATAGAGTGCCAGAAGCTAATTGCTCATTTCAAAACCCTAGCTTCCACCCTTAAGGACACTGTACCTAGCATTGAGAGATTTTCTGATACCTATAGGATGGAGTGCCCGGCTGCAATTAACCGTCTTGTGGTATCTGGTGTGCCTGCTACAGTGGAGCACCGGGCTACTGCAGCAGCCGGTGTGTCCACCTCGGCTGCCACTGTGGCTGAGTGTGTTCAGAATTTTATTACATCGATGGATTCCTTGAAACTTAACATGGTGGCTGTGGATCAGGTGCATCCTTTGCTCTCAGATCTTTATGGTTCACTCAATAAATTGACGATTTTGCCGCCTGATTTCGAGGGGAAAATAAAAATGAAGGATTGGATTGGAAGGTTATCAAAGATGGGTGCAGCTGATGAATTGACAGAACAACAGGCCAGACAGCTTCACTTTGATCTCGAGTCTTCTTACAATTCCTTTATGGCAGCTCTGCCCAATGCTGGCACTTGA
Protein sequence

>MS.gene035218.t1

MTEVKLWNDKREREMYDNFAELYAIIKATERLEKAYVRDIISPKEYEIECQKLIAHFKTLASTLKDTVPSIERFSDTYRMECPAAINRLVVSGVPATVEHRATAAAGVSTSAATVAECVQNFITSMDSLKLNMVAVDQVHPLLSDLYGSLNKLTILPPDFEGKIKMKDWIGRLSKMGAADELTEQQARQLHFDLESSYNSFMAALPNAGT