AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051022


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051022.t1 MTR_7g109250 88.991 327 31 2 1 322 1 327 0.0 583
MS.gene051022.t1 MTR_7g109250 88.991 327 31 2 1 322 61 387 0.0 582
MS.gene051022.t1 MTR_7g108868 49.438 178 28 3 60 236 11 127 2.38e-47 158
MS.gene051022.t1 MTR_8g058593 49.438 178 28 3 60 236 11 127 2.38e-47 158
MS.gene051022.t1 MTR_8g058607 50.000 180 27 4 60 238 24 141 4.68e-47 155
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051022.t1 AT1G01350 68.790 314 92 4 13 322 25 336 4.27e-158 446
MS.gene051022.t1 AT5G06420 67.722 316 93 4 11 322 61 371 8.58e-157 444
MS.gene051022.t1 AT5G06420 67.722 316 93 4 11 322 61 371 8.58e-157 444
MS.gene051022.t1 AT4G01023 66.667 57 19 0 255 311 78 134 1.21e-26 105
MS.gene051022.t1 AT4G01023 66.667 57 19 0 255 311 97 153 3.42e-26 104
MS.gene051022.t1 AT4G01023 66.667 57 19 0 255 311 97 153 4.40e-26 104

Find 69 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGAAAGCTAGGTTTCT+TGG 0.236965 8.3:-68841642 None:intergenic
GTGGGTCACACGGTCCTCTT+CGG 0.314266 8.3:+68841906 MS.gene051022:CDS
TTGGTGATTTGCAGGAGATT+TGG 0.316183 8.3:-68841295 None:intergenic
CTCATATTCTTCTTATTAAG+AGG 0.321707 8.3:-68841470 None:intergenic
TGTTCAGTTTGGTGATTTGC+AGG 0.323435 8.3:-68841303 None:intergenic
GATCGAGGTGATTACAAATC+TGG 0.331028 8.3:+68842040 MS.gene051022:CDS
TATACATACCTTGTTCAGTT+TGG 0.352276 8.3:-68841314 None:intergenic
TGGGTCACACGGTCCTCTTC+GGG 0.377787 8.3:+68841907 MS.gene051022:CDS
GGATATATGCAAGGATTATA+AGG 0.382708 8.3:+68841973 MS.gene051022:CDS
TGCAAGGATTATAAGGAAAC+TGG 0.390916 8.3:+68841980 MS.gene051022:CDS
TTATAATCCTTGCATATATC+CGG 0.408034 8.3:-68841971 None:intergenic
GGTTTCTTGGATTCTTCGTT+CGG 0.408554 8.3:-68841629 None:intergenic
TAGCAAAGCAACCGCAACTT+TGG 0.426930 8.3:+68841697 MS.gene051022:CDS
CTTGCTTAAGAGCTCTTTCA+CGG 0.431115 8.3:-68841757 None:intergenic
CTGTGAGCATTGTGCATTGA+AGG 0.436410 8.3:+68842246 MS.gene051022:CDS
GTCTGCAACCAGCCTACGCT+TGG 0.437064 8.3:+68842390 MS.gene051022:CDS
TGCTTGCACTTGGTTGAGAC+AGG 0.443250 8.3:-68842217 None:intergenic
GAAGACTCAAAATGAAAGCT+AGG 0.455285 8.3:-68841650 None:intergenic
GAAACTGGTTACTGTGGGTA+TGG 0.457746 8.3:+68841995 MS.gene051022:CDS
CATTTGTAGAAATCCATTTG+TGG 0.461066 8.3:+68842192 MS.gene051022:CDS
GAAAGCAAGGAGGATGAGAT+TGG 0.475774 8.3:+68842096 MS.gene051022:CDS
CAATAATTACACAGATCATA+AGG 0.476447 8.3:+68841841 MS.gene051022:CDS
GTGGCAGATGGAGAAGGAAT+GGG 0.495492 8.3:+68842063 MS.gene051022:CDS
GCAAACAATTGCCAGTGAAA+AGG 0.499122 8.3:+68841880 MS.gene051022:CDS
AAACTGGTTACTGTGGGTAT+GGG 0.503271 8.3:+68841996 MS.gene051022:CDS
GTTGAGACAGGATCCACAAA+TGG 0.505798 8.3:-68842205 None:intergenic
CTACAAATGAAACACGCAAA+TGG 0.511076 8.3:-68842178 None:intergenic
ATCGAGGTGATTACAAATCT+GGG 0.520829 8.3:+68842041 MS.gene051022:CDS
AGCAAGATTTGATTATCAGC+CGG 0.527438 8.3:+68841952 MS.gene051022:CDS
TTCTTCGTTCGGTTTAGCAT+AGG 0.529758 8.3:-68841618 None:intergenic
TGCAGGTGAGGATGCAGAAG+AGG 0.532110 8.3:+68842120 MS.gene051022:CDS
GGTGGCAGATGGAGAAGGAA+TGG 0.534084 8.3:+68842062 MS.gene051022:CDS
CTCTTAATAAGAAGAATATG+AGG 0.536262 8.3:+68841471 MS.gene051022:CDS
CTTAAGAGCTCTTTCACGGA+TGG 0.538525 8.3:-68841753 None:intergenic
AATTACACAGATCATAAGGC+TGG 0.540860 8.3:+68841845 MS.gene051022:CDS
GCGAAGCACTATTGAGAATG+AGG 0.543921 8.3:+68841496 MS.gene051022:CDS
TTACAAATCTGGGTGGCAGA+TGG 0.553483 8.3:+68842051 MS.gene051022:CDS
TATTAGTATGGAAGATTCTG+AGG 0.556688 8.3:+68841272 None:intergenic
ACAGAAGTAGTGCTTGCACT+TGG 0.557721 8.3:-68842227 None:intergenic
TCATGAGATTCGAAAGAAGA+TGG 0.559186 8.3:+68842428 MS.gene051022:CDS
CAAGCGACAGAGAGTCTCAA+AGG 0.560300 8.3:+68841776 MS.gene051022:CDS
AACTGGTTACTGTGGGTATG+GGG 0.562522 8.3:+68841997 MS.gene051022:CDS
AGGTGAGGATGCAGAAGAGG+AGG 0.575195 8.3:+68842123 MS.gene051022:CDS
ATCTGGGTGGCAGATGGAGA+AGG 0.575589 8.3:+68842057 MS.gene051022:CDS
GGGATGAAGCTGAGAAAGCA+AGG 0.584805 8.3:+68842083 MS.gene051022:CDS
TATAAGGAAACTGGTTACTG+TGG 0.586008 8.3:+68841989 MS.gene051022:CDS
ACAATTGCCAGTGAAAAGGC+TGG 0.588175 8.3:+68841884 MS.gene051022:CDS
GATGAGATTGGCTGCAGGTG+AGG 0.590274 8.3:+68842108 MS.gene051022:CDS
GGCAGAGCTCTTTGAAGAGG+CGG 0.591989 8.3:-68841597 None:intergenic
GCAAATCACCAAACTGAACA+AGG 0.596043 8.3:+68841306 MS.gene051022:CDS
AGAGCTCTTTGAAGAGGCGG+TGG 0.597520 8.3:-68841594 None:intergenic
ATAGGCAGAGCTCTTTGAAG+AGG 0.600392 8.3:-68841600 None:intergenic
GAAAAGGCTGGTGGGTCACA+CGG 0.600903 8.3:+68841896 MS.gene051022:CDS
AGGAGGATGAGATTGGCTGC+AGG 0.603143 8.3:+68842103 MS.gene051022:CDS
ATTGCCAGTGAAAAGGCTGG+TGG 0.607353 8.3:+68841887 MS.gene051022:CDS
AGCACTATTGAGAATGAGGA+TGG 0.610986 8.3:+68841500 MS.gene051022:CDS
GGTGAGGATGCAGAAGAGGA+GGG 0.615274 8.3:+68842124 MS.gene051022:CDS
GATTCGAAAGAAGATGGCTG+AGG 0.618322 8.3:+68842434 MS.gene051022:CDS
ATAAGGAAACTGGTTACTGT+GGG 0.628079 8.3:+68841990 MS.gene051022:CDS
TTATCAGCCGGATATATGCA+AGG 0.629970 8.3:+68841964 MS.gene051022:CDS
TTGCCAGTGAAAAGGCTGGT+GGG 0.630138 8.3:+68841888 MS.gene051022:CDS
AGTCTCAGTCTCCAAAGTTG+CGG 0.639796 8.3:-68841708 None:intergenic
ATGTGAGCTGAAGCCCGAAG+AGG 0.647511 8.3:-68841920 None:intergenic
TGTAAGTTTATGCATGATCG+AGG 0.650874 8.3:+68842025 MS.gene051022:CDS
GAGGATGTAAAATTATACAA+AGG 0.658301 8.3:+68841815 MS.gene051022:CDS
TGAGGATGGCTCGAACAATG+AGG 0.664875 8.3:+68841514 MS.gene051022:CDS
AGGAAAGAGTAATCGTTCCG+AGG 0.677145 8.3:+68841796 MS.gene051022:CDS
ATGAAGCTGAGAAAGCAAGG+AGG 0.730792 8.3:+68842086 MS.gene051022:CDS
GAGGTGATTACAAATCTGGG+TGG 0.758440 8.3:+68842044 MS.gene051022:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTGTATAATTTTACATCCT+CGG - chr8.3:68841816-68841835 None:intergenic 20.0%
! CAATAATTACACAGATCATA+AGG + chr8.3:68841841-68841860 MS.gene051022:CDS 25.0%
! CTCATATTCTTCTTATTAAG+AGG - chr8.3:68841473-68841492 None:intergenic 25.0%
! CTCTTAATAAGAAGAATATG+AGG + chr8.3:68841471-68841490 MS.gene051022:CDS 25.0%
! GAGGATGTAAAATTATACAA+AGG + chr8.3:68841815-68841834 MS.gene051022:CDS 25.0%
! TTATAATCCTTGCATATATC+CGG - chr8.3:68841974-68841993 None:intergenic 25.0%
!!! TGAATTTGCTTTGAAGTTAA+GGG - chr8.3:68842276-68842295 None:intergenic 25.0%
!!! TTGAATTTGCTTTGAAGTTA+AGG - chr8.3:68842277-68842296 None:intergenic 25.0%
AAAATGAAAGCTAGGTTTCT+TGG - chr8.3:68841645-68841664 None:intergenic 30.0%
AGGAGTTACGCATAATTAAA+AGG - chr8.3:68842329-68842348 None:intergenic 30.0%
AGTTACGCATAATTAAAAGG+GGG - chr8.3:68842326-68842345 None:intergenic 30.0%
CATTTGTAGAAATCCATTTG+TGG + chr8.3:68842192-68842211 MS.gene051022:CDS 30.0%
GAGTTACGCATAATTAAAAG+GGG - chr8.3:68842327-68842346 None:intergenic 30.0%
GGAGTTACGCATAATTAAAA+GGG - chr8.3:68842328-68842347 None:intergenic 30.0%
GGATATATGCAAGGATTATA+AGG + chr8.3:68841973-68841992 MS.gene051022:CDS 30.0%
GTACAAAGAAATAAATGCAG+AGG - chr8.3:68841388-68841407 None:intergenic 30.0%
TATACATACCTTGTTCAGTT+TGG - chr8.3:68841317-68841336 None:intergenic 30.0%
AATTACACAGATCATAAGGC+TGG + chr8.3:68841845-68841864 MS.gene051022:CDS 35.0%
ACATTAAAAATGCCAAGCGT+AGG - chr8.3:68842405-68842424 None:intergenic 35.0%
AGCAAGATTTGATTATCAGC+CGG + chr8.3:68841952-68841971 MS.gene051022:CDS 35.0%
ATAAGGAAACTGGTTACTGT+GGG + chr8.3:68841990-68842009 MS.gene051022:CDS 35.0%
ATCGAGGTGATTACAAATCT+GGG + chr8.3:68842041-68842060 MS.gene051022:CDS 35.0%
ATGATGCTGCAAGTAAAATG+AGG - chr8.3:68842349-68842368 None:intergenic 35.0%
CTACAAATGAAACACGCAAA+TGG - chr8.3:68842181-68842200 None:intergenic 35.0%
GAAGACTCAAAATGAAAGCT+AGG - chr8.3:68841653-68841672 None:intergenic 35.0%
TATAAGGAAACTGGTTACTG+TGG + chr8.3:68841989-68842008 MS.gene051022:CDS 35.0%
TCATGAGATTCGAAAGAAGA+TGG + chr8.3:68842428-68842447 MS.gene051022:CDS 35.0%
TGCAAGGATTATAAGGAAAC+TGG + chr8.3:68841980-68841999 MS.gene051022:CDS 35.0%
TGTAAGTTTATGCATGATCG+AGG + chr8.3:68842025-68842044 MS.gene051022:CDS 35.0%
! TACGCTTGGCATTTTTAATG+TGG + chr8.3:68842404-68842423 MS.gene051022:CDS 35.0%
AAACTGGTTACTGTGGGTAT+GGG + chr8.3:68841996-68842015 MS.gene051022:CDS 40.0%
AGCACTATTGAGAATGAGGA+TGG + chr8.3:68841500-68841519 MS.gene051022:CDS 40.0%
CTTGCTTAAGAGCTCTTTCA+CGG - chr8.3:68841760-68841779 None:intergenic 40.0%
GATCGAGGTGATTACAAATC+TGG + chr8.3:68842040-68842059 MS.gene051022:CDS 40.0%
GCAAACAATTGCCAGTGAAA+AGG + chr8.3:68841880-68841899 MS.gene051022:CDS 40.0%
GCAAATCACCAAACTGAACA+AGG + chr8.3:68841306-68841325 MS.gene051022:CDS 40.0%
GGTTTCTTGGATTCTTCGTT+CGG - chr8.3:68841632-68841651 None:intergenic 40.0%
TTATCAGCCGGATATATGCA+AGG + chr8.3:68841964-68841983 MS.gene051022:CDS 40.0%
TTCTTCGTTCGGTTTAGCAT+AGG - chr8.3:68841621-68841640 None:intergenic 40.0%
! TGTTCAGTTTGGTGATTTGC+AGG - chr8.3:68841306-68841325 None:intergenic 40.0%
! TTGGTGATTTGCAGGAGATT+TGG - chr8.3:68841298-68841317 None:intergenic 40.0%
AACTGGTTACTGTGGGTATG+GGG + chr8.3:68841997-68842016 MS.gene051022:CDS 45.0%
ACAATTGCCAGTGAAAAGGC+TGG + chr8.3:68841884-68841903 MS.gene051022:CDS 45.0%
ACAGAAGTAGTGCTTGCACT+TGG - chr8.3:68842230-68842249 None:intergenic 45.0%
AGGAAAGAGTAATCGTTCCG+AGG + chr8.3:68841796-68841815 MS.gene051022:CDS 45.0%
AGTCTCAGTCTCCAAAGTTG+CGG - chr8.3:68841711-68841730 None:intergenic 45.0%
ATGAAGCTGAGAAAGCAAGG+AGG + chr8.3:68842086-68842105 MS.gene051022:CDS 45.0%
CTTAAGAGCTCTTTCACGGA+TGG - chr8.3:68841756-68841775 None:intergenic 45.0%
GAAACTGGTTACTGTGGGTA+TGG + chr8.3:68841995-68842014 MS.gene051022:CDS 45.0%
GAAAGCAAGGAGGATGAGAT+TGG + chr8.3:68842096-68842115 MS.gene051022:CDS 45.0%
GAGGTGATTACAAATCTGGG+TGG + chr8.3:68842044-68842063 MS.gene051022:CDS 45.0%
GATTCGAAAGAAGATGGCTG+AGG + chr8.3:68842434-68842453 MS.gene051022:CDS 45.0%
GTTGAGACAGGATCCACAAA+TGG - chr8.3:68842208-68842227 None:intergenic 45.0%
TAAAAATGCCAAGCGTAGGC+TGG - chr8.3:68842401-68842420 None:intergenic 45.0%
TAGCAAAGCAACCGCAACTT+TGG + chr8.3:68841697-68841716 MS.gene051022:CDS 45.0%
TTACAAATCTGGGTGGCAGA+TGG + chr8.3:68842051-68842070 MS.gene051022:CDS 45.0%
! ATAGGCAGAGCTCTTTGAAG+AGG - chr8.3:68841603-68841622 None:intergenic 45.0%
! CTGTGAGCATTGTGCATTGA+AGG + chr8.3:68842246-68842265 MS.gene051022:CDS 45.0%
! GCGAAGCACTATTGAGAATG+AGG + chr8.3:68841496-68841515 MS.gene051022:CDS 45.0%
ATTGCCAGTGAAAAGGCTGG+TGG + chr8.3:68841887-68841906 MS.gene051022:CDS 50.0%
CAAGCGACAGAGAGTCTCAA+AGG + chr8.3:68841776-68841795 MS.gene051022:CDS 50.0%
GGGATGAAGCTGAGAAAGCA+AGG + chr8.3:68842083-68842102 MS.gene051022:CDS 50.0%
GTGGCAGATGGAGAAGGAAT+GGG + chr8.3:68842063-68842082 MS.gene051022:CDS 50.0%
TGAGGATGGCTCGAACAATG+AGG + chr8.3:68841514-68841533 MS.gene051022:CDS 50.0%
TGCTTGCACTTGGTTGAGAC+AGG - chr8.3:68842220-68842239 None:intergenic 50.0%
TTGCCAGTGAAAAGGCTGGT+GGG + chr8.3:68841888-68841907 MS.gene051022:CDS 50.0%
AGGTGAGGATGCAGAAGAGG+AGG + chr8.3:68842123-68842142 MS.gene051022:CDS 55.0%
ATCTGGGTGGCAGATGGAGA+AGG + chr8.3:68842057-68842076 MS.gene051022:CDS 55.0%
ATGTGAGCTGAAGCCCGAAG+AGG - chr8.3:68841923-68841942 None:intergenic 55.0%
GGTGAGGATGCAGAAGAGGA+GGG + chr8.3:68842124-68842143 MS.gene051022:CDS 55.0%
GGTGGCAGATGGAGAAGGAA+TGG + chr8.3:68842062-68842081 MS.gene051022:CDS 55.0%
TGCAGGTGAGGATGCAGAAG+AGG + chr8.3:68842120-68842139 MS.gene051022:CDS 55.0%
! AGAGCTCTTTGAAGAGGCGG+TGG - chr8.3:68841597-68841616 None:intergenic 55.0%
! AGGAGGATGAGATTGGCTGC+AGG + chr8.3:68842103-68842122 MS.gene051022:CDS 55.0%
! GAAAAGGCTGGTGGGTCACA+CGG + chr8.3:68841896-68841915 MS.gene051022:CDS 55.0%
! GATGAGATTGGCTGCAGGTG+AGG + chr8.3:68842108-68842127 MS.gene051022:CDS 55.0%
! GGCAGAGCTCTTTGAAGAGG+CGG - chr8.3:68841600-68841619 None:intergenic 55.0%
! TGACCCACCAGCCTTTTCAC+TGG - chr8.3:68841894-68841913 None:intergenic 55.0%
GTCTGCAACCAGCCTACGCT+TGG + chr8.3:68842390-68842409 MS.gene051022:CDS 60.0%
GTGGGTCACACGGTCCTCTT+CGG + chr8.3:68841906-68841925 MS.gene051022:CDS 60.0%
TGGGTCACACGGTCCTCTTC+GGG + chr8.3:68841907-68841926 MS.gene051022:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 68841279 68842464 68841279 ID=MS.gene051022
chr8.3 mRNA 68841279 68842464 68841279 ID=MS.gene051022.t1;Parent=MS.gene051022
chr8.3 exon 68841279 68841327 68841279 ID=MS.gene051022.t1.exon1;Parent=MS.gene051022.t1
chr8.3 CDS 68841279 68841327 68841279 ID=cds.MS.gene051022.t1;Parent=MS.gene051022.t1
chr8.3 exon 68841450 68842267 68841450 ID=MS.gene051022.t1.exon2;Parent=MS.gene051022.t1
chr8.3 CDS 68841450 68842267 68841450 ID=cds.MS.gene051022.t1;Parent=MS.gene051022.t1
chr8.3 exon 68842363 68842464 68842363 ID=MS.gene051022.t1.exon3;Parent=MS.gene051022.t1
chr8.3 CDS 68842363 68842464 68842363 ID=cds.MS.gene051022.t1;Parent=MS.gene051022.t1
Gene Sequence

>MS.gene051022

ATGGAAGATTCTGAGGCCAAATCTCCTGCAAATCACCAAACTGAACAAGGTATGTATAATTAATTTCTTGCATTACTAGACTCACAATTGTTATCTTATATATGCACCTCTGCATTTATTTCTTTGTACTGTCATTAACTTTTCTTTTTACGTGTTTGTTGATCTTCACAGTGTGTAGTTTCTTTAGAAAACCTCTTAATAAGAAGAATATGAGGAAGCGAAGCACTATTGAGAATGAGGATGGCTCGAACAATGAGGAGTCTTTGATGCATGTTCAGAAAAAGATCATGAAAGCTGACAATAACTTATTCTTTTCCACCGCCTCTTCAAAGAGCTCTGCCTATGCTAAACCGAACGAAGAATCCAAGAAACCTAGCTTTCATTTTGAGTCTTCTAAAGAGATTCAAGTTCAACATGATAGCAAAGCAACCGCAACTTTGGAGACTGAGACTGACTTTTCAAGAGATGCTCGTGCCATCCGTGAAAGAGCTCTTAAGCAAGCGACAGAGAGTCTCAAAGGAAAGAGTAATCGTTCCGAGGATGTAAAATTATACAAAGGAATCAATAATTACACAGATCATAAGGCTGGATTTCGTAGAGAGCAAACAATTGCCAGTGAAAAGGCTGGTGGGTCACACGGTCCTCTTCGGGCTTCAGCTCACATAAGAGTTTCAGCAAGATTTGATTATCAGCCGGATATATGCAAGGATTATAAGGAAACTGGTTACTGTGGGTATGGGGATTCGTGTAAGTTTATGCATGATCGAGGTGATTACAAATCTGGGTGGCAGATGGAGAAGGAATGGGATGAAGCTGAGAAAGCAAGGAGGATGAGATTGGCTGCAGGTGAGGATGCAGAAGAGGAGGGTGCTAGTTTGAATAATGATGAAGACTCGTTACCATTTGCGTGTTTCATTTGTAGAAATCCATTTGTGGATCCTGTCTCAACCAAGTGCAAGCACTACTTCTGTGAGCATTGTGCATTGAAGGTACACCCTTAACTTCAAAGCAAATTCAAGTTATCTAGTAATGCTTAATTTTTTTCCCCCTTTTAATTATGCGTAACTCCTCATTTTACTTGCAGCATCATGCAAAGAATAAGAAGTGTTTTGTCTGCAACCAGCCTACGCTTGGCATTTTTAATGTGGCTCATGAGATTCGAAAGAAGATGGCTGAGGATAAATAA

Protein sequence

>MS.gene051022.t1

MEDSEAKSPANHQTEQVCSFFRKPLNKKNMRKRSTIENEDGSNNEESLMHVQKKIMKADNNLFFSTASSKSSAYAKPNEESKKPSFHFESSKEIQVQHDSKATATLETETDFSRDARAIRERALKQATESLKGKSNRSEDVKLYKGINNYTDHKAGFRREQTIASEKAGGSHGPLRASAHIRVSARFDYQPDICKDYKETGYCGYGDSCKFMHDRGDYKSGWQMEKEWDEAEKARRMRLAAGEDAEEEGASLNNDEDSLPFACFICRNPFVDPVSTKCKHYFCEHCALKHHAKNKKCFVCNQPTLGIFNVAHEIRKKMAEDK