AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58249


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58249.t1 MTR_8g032300 97.973 148 3 0 1 148 1 148 1.53e-106 300
MS.gene58249.t1 MTR_8g032320 83.784 148 24 0 1 148 1 148 2.09e-93 267
MS.gene58249.t1 MTR_1g008950 64.800 125 44 0 1 125 1 125 2.63e-58 177
MS.gene58249.t1 MTR_5g079880 40.645 155 77 5 1 144 1 151 2.10e-35 120
MS.gene58249.t1 MTR_5g079890 39.241 158 80 5 1 145 1 155 1.95e-32 113
MS.gene58249.t1 MTR_5g079890 39.130 138 71 4 1 125 1 138 4.38e-29 103
MS.gene58249.t1 MTR_7g075960 60.377 53 21 0 25 77 1 53 1.27e-20 80.1
MS.gene58249.t1 MTR_8g030870 29.252 147 92 2 1 135 1 147 1.14e-16 73.2
MS.gene58249.t1 MTR_3g106660 32.283 127 82 2 3 128 439 562 6.28e-14 68.2
MS.gene58249.t1 MTR_3g106660 31.061 132 81 4 2 124 255 385 8.11e-12 62.0
MS.gene58249.t1 MTR_5g004800 27.119 118 84 2 6 122 15 131 1.48e-12 63.2
MS.gene58249.t1 MTR_4g115660 33.588 131 81 4 3 131 440 566 1.97e-12 63.9
MS.gene58249.t1 MTR_5g004870 29.412 119 82 2 6 123 11 128 2.69e-12 62.8
MS.gene58249.t1 MTR_2g027100 37.363 91 55 2 4 94 6 94 8.95e-12 59.7
MS.gene58249.t1 MTR_2g030230 37.363 91 55 2 4 94 173 261 1.82e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58249.t1 AT1G63220 57.432 148 62 1 1 148 1 147 5.97e-56 172
MS.gene58249.t1 AT1G63220 52.027 148 56 2 1 148 1 133 7.32e-46 146
MS.gene58249.t1 AT3G55470 34.177 158 90 5 1 147 1 155 2.44e-23 89.7
MS.gene58249.t1 AT3G55470 34.591 159 89 6 1 147 1 156 2.35e-22 87.0
MS.gene58249.t1 AT4G00467 30.282 142 88 3 1 131 1 142 3.27e-15 69.3
MS.gene58249.t1 AT4G00467 30.496 141 87 3 1 130 1 141 6.13e-15 68.9
MS.gene58249.t1 AT5G47710 39.785 93 54 2 2 94 4 94 1.58e-13 64.7
MS.gene58249.t1 AT5G47710 39.785 93 54 2 2 94 4 94 1.58e-13 64.7
MS.gene58249.t1 AT5G47710 39.785 93 54 2 2 94 4 94 1.58e-13 64.7
MS.gene58249.t1 AT5G47710 39.785 93 54 2 2 94 4 94 1.58e-13 64.7
MS.gene58249.t1 AT5G04220 32.278 158 92 5 2 147 37 191 3.70e-13 65.5
MS.gene58249.t1 AT5G04220 32.278 158 92 5 2 147 197 351 7.59e-13 65.1
MS.gene58249.t1 AT5G04220 32.278 158 92 5 2 147 259 413 1.21e-12 64.3
MS.gene58249.t1 AT4G34150 26.613 124 89 2 6 128 12 134 2.04e-12 62.8
MS.gene58249.t1 AT4G21160 36.264 91 56 2 4 94 181 269 1.82e-11 60.8
MS.gene58249.t1 AT4G21160 36.264 91 56 2 4 94 181 269 1.82e-11 60.8
MS.gene58249.t1 AT4G21160 36.264 91 56 2 4 94 181 269 1.82e-11 60.8
MS.gene58249.t1 AT4G21160 36.264 91 56 2 4 94 181 269 1.82e-11 60.8

Find 32 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTATGTGATCCTCACTTAT+AGG 0.237814 8.4:+64386272 MS.gene58249:CDS
TGAGCTCAATCTAAAGATAA+TGG 0.346296 8.4:+64386483 MS.gene58249:CDS
ACAAGTTTGTAAGAATTCTC+TGG 0.370783 8.4:-64386873 None:intergenic
AGAGAAAATCATTGTCTTCA+AGG 0.372599 8.4:-64385545 None:intergenic
TTATGTGATCCTCACTTATA+GGG 0.386347 8.4:+64386273 MS.gene58249:CDS
AAAATATTGTGGAGAGGTTA+AGG 0.388006 8.4:+64386905 MS.gene58249:CDS
TATAGTGCTGATGATAATCT+TGG 0.411031 8.4:+64386517 MS.gene58249:CDS
GAAATGTCTCATTCCATTGA+GGG 0.473516 8.4:-64386435 None:intergenic
CAATCTAAAGATAATGGAAA+AGG 0.492449 8.4:+64386489 MS.gene58249:CDS
TCTTGAATCACTGTCTCTAA+AGG 0.495815 8.4:-64386840 None:intergenic
GTGCTGGATCCAACCCTCAA+TGG 0.516268 8.4:+64386422 MS.gene58249:CDS
AGAAATGTCTCATTCCATTG+AGG 0.522164 8.4:-64386436 None:intergenic
TGTCTCATTCCATTGAGGGT+TGG 0.547968 8.4:-64386431 None:intergenic
GTGGATGGAAACAATCGGCT+AGG 0.550623 8.4:+64387089 MS.gene58249:CDS
CTATAAGTGAGGATCACATA+AGG 0.556013 8.4:-64386271 None:intergenic
TACAATCAAGAGGAGGAGAC+TGG 0.557679 8.4:+64387067 MS.gene58249:CDS
AAGAGGAGGAGACTGGTGGA+TGG 0.563015 8.4:+64387074 MS.gene58249:CDS
GACTGGTGGATGGAAACAAT+CGG 0.565129 8.4:+64387084 MS.gene58249:CDS
GATCCTCACTTATAGGGCAC+AGG 0.584755 8.4:+64386279 MS.gene58249:CDS
GAATTCTTACAAACTTGTGA+AGG 0.595780 8.4:+64386878 MS.gene58249:CDS
CACAAGAGTACTGTGCAAGA+AGG 0.601180 8.4:+64386304 MS.gene58249:CDS
TGGATGGAAACAATCGGCTA+GGG 0.602214 8.4:+64387090 MS.gene58249:CDS
AATCAAGAGGAGGAGACTGG+TGG 0.628097 8.4:+64387070 MS.gene58249:CDS
TTTAGAGACAGTGATTCAAG+AGG 0.636421 8.4:+64386842 MS.gene58249:CDS
TGAACGGAGTTACAATCAAG+AGG 0.638924 8.4:+64387057 MS.gene58249:CDS
TTAGAGACAGTGATTCAAGA+GGG 0.640617 8.4:+64386843 MS.gene58249:CDS
GCTCCTGTGCCCTATAAGTG+AGG 0.645283 8.4:-64386282 None:intergenic
GGTTGCAGAGAAACTATGAA+CGG 0.677708 8.4:+64387041 MS.gene58249:intron
AATCAGAGAAAGATGCCTCG+TGG 0.689332 8.4:+64385489 None:intergenic
ATATTGTGGAGAGGTTAAGG+TGG 0.690996 8.4:+64386908 MS.gene58249:CDS
ACGGAGTTACAATCAAGAGG+AGG 0.705054 8.4:+64387060 MS.gene58249:CDS
ACAACTTCAAGCGTTCCACG+AGG 0.769497 8.4:-64385504 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGAAAAATATTAGAAAAAC+AGG - chr8.4:64386971-64386990 None:intergenic 15.0%
!!! AACAATTTTAATAGTCAAAT+TGG - chr8.4:64386194-64386213 None:intergenic 15.0%
!! ATAATATGATAAAACCAAAC+CGG - chr8.4:64385987-64386006 None:intergenic 20.0%
!!! AATGTTGTAATTTGTAATGT+TGG + chr8.4:64386794-64386813 MS.gene58249:intron 20.0%
!!! ATCACAAAATTTCATACTTT+TGG - chr8.4:64385628-64385647 None:intergenic 20.0%
!!! ATTGGTTTATGAATAATATC+AGG + chr8.4:64386400-64386419 MS.gene58249:intron 20.0%
!!! CATGAGTTTTTATTGAATAT+CGG - chr8.4:64386642-64386661 None:intergenic 20.0%
!!! GAAATTTTTTGATCTTAAGT+TGG + chr8.4:64385662-64385681 MS.gene58249:intron 20.0%
! ATAACTGAAAAGTTGAATGT+TGG + chr8.4:64386701-64386720 MS.gene58249:intron 25.0%
! GGAACAACAAATATATAGAT+CGG - chr8.4:64385689-64385708 None:intergenic 25.0%
! GTGTTGTATGCTATTAAATT+GGG + chr8.4:64386020-64386039 MS.gene58249:intron 25.0%
! TAAAAACTCATGATATTGCA+AGG + chr8.4:64386650-64386669 MS.gene58249:intron 25.0%
! TAAAACGCACTATCAATTAT+TGG + chr8.4:64387020-64387039 MS.gene58249:intron 25.0%
! TGTGTTGTATGCTATTAAAT+TGG + chr8.4:64386019-64386038 MS.gene58249:intron 25.0%
!! AACTAGTTTACACTTAAAAG+AGG + chr8.4:64386767-64386786 MS.gene58249:intron 25.0%
!!! AATTGATAGTGCGTTTTAAT+AGG - chr8.4:64387018-64387037 None:intergenic 25.0%
!!! ATTGATAGTGCGTTTTAATA+GGG - chr8.4:64387017-64387036 None:intergenic 25.0%
!!! CAATCTAAAGATAATGGAAA+AGG + chr8.4:64386489-64386508 MS.gene58249:CDS 25.0%
AAAATATTGTGGAGAGGTTA+AGG + chr8.4:64386905-64386924 MS.gene58249:CDS 30.0%
AAACGAACACTATAACAAGA+CGG - chr8.4:64385876-64385895 None:intergenic 30.0%
AACAAAGATCAAGACTTTAG+AGG - chr8.4:64386228-64386247 None:intergenic 30.0%
AATGTATCTCCATTAAACTC+AGG - chr8.4:64386597-64386616 None:intergenic 30.0%
AATGTTGACAGCTAAATCAT+TGG - chr8.4:64385941-64385960 None:intergenic 30.0%
ACAAGTTTGTAAGAATTCTC+TGG - chr8.4:64386876-64386895 None:intergenic 30.0%
AGACTCAATTAACAAGCTTT+AGG - chr8.4:64385710-64385729 None:intergenic 30.0%
AGAGAAAATCATTGTCTTCA+AGG - chr8.4:64385548-64385567 None:intergenic 30.0%
CATCGCTAAAAACGAAAAAA+AGG - chr8.4:64386072-64386091 None:intergenic 30.0%
CTGATTTAGTGAATCAATTC+AGG + chr8.4:64385741-64385760 MS.gene58249:intron 30.0%
GAAATTTCTGCATCAAACAA+TGG + chr8.4:64385600-64385619 MS.gene58249:intron 30.0%
GAATTCTTACAAACTTGTGA+AGG + chr8.4:64386878-64386897 MS.gene58249:CDS 30.0%
GTGAAGGATGAAAAATATTG+TGG + chr8.4:64386894-64386913 MS.gene58249:CDS 30.0%
TGAGCTCAATCTAAAGATAA+TGG + chr8.4:64386483-64386502 MS.gene58249:CDS 30.0%
TTAAACTCAGGATGAATCAA+AGG - chr8.4:64386585-64386604 None:intergenic 30.0%
TTATGAATAATATCAGGTGC+TGG + chr8.4:64386406-64386425 MS.gene58249:intron 30.0%
TTATGTGATCCTCACTTATA+GGG + chr8.4:64386273-64386292 MS.gene58249:CDS 30.0%
TTCTCTAGTTGCTTGATTAT+TGG + chr8.4:64386382-64386401 MS.gene58249:intron 30.0%
TTGATTCATCCTGAGTTTAA+TGG + chr8.4:64386585-64386604 MS.gene58249:intron 30.0%
! CTGAATTGATTCACTAAATC+AGG - chr8.4:64385743-64385762 None:intergenic 30.0%
! TTAAGTTGTAGTGAGAAAGT+TGG - chr8.4:64386680-64386699 None:intergenic 30.0%
!! TATAGTGCTGATGATAATCT+TGG + chr8.4:64386517-64386536 MS.gene58249:CDS 30.0%
AGAAATGTCTCATTCCATTG+AGG - chr8.4:64386439-64386458 None:intergenic 35.0%
CTATAAGTGAGGATCACATA+AGG - chr8.4:64386274-64386293 None:intergenic 35.0%
CTTATGTGATCCTCACTTAT+AGG + chr8.4:64386272-64386291 MS.gene58249:CDS 35.0%
GAAATGTCTCATTCCATTGA+GGG - chr8.4:64386438-64386457 None:intergenic 35.0%
GAGTACATTGAATACAGTCT+CGG - chr8.4:64386101-64386120 None:intergenic 35.0%
GGATGAAAAATATTGTGGAG+AGG + chr8.4:64386899-64386918 MS.gene58249:CDS 35.0%
TCTTGAATCACTGTCTCTAA+AGG - chr8.4:64386843-64386862 None:intergenic 35.0%
TTAGAGACAGTGATTCAAGA+GGG + chr8.4:64386843-64386862 MS.gene58249:CDS 35.0%
TTTAGAGACAGTGATTCAAG+AGG + chr8.4:64386842-64386861 MS.gene58249:CDS 35.0%
!!! GTTGTTTTGATCAGTGCAAA+AGG + chr8.4:64385522-64385541 MS.gene58249:CDS 35.0%
ATATTGTGGAGAGGTTAAGG+TGG + chr8.4:64386908-64386927 MS.gene58249:CDS 40.0%
GGTTGCAGAGAAACTATGAA+CGG + chr8.4:64387041-64387060 MS.gene58249:intron 40.0%
TAATAGCCCAATTCACGAGT+CGG + chr8.4:64385810-64385829 MS.gene58249:intron 40.0%
TGAACGGAGTTACAATCAAG+AGG + chr8.4:64387057-64387076 MS.gene58249:CDS 40.0%
TGTCAACATTGCATAACCCT+AGG + chr8.4:64385951-64385970 MS.gene58249:intron 40.0%
TTCTATAGCCTCATTACCTC+AGG - chr8.4:64386948-64386967 None:intergenic 40.0%
! CTTTTACACCTGAGGTAATG+AGG + chr8.4:64386937-64386956 MS.gene58249:intron 40.0%
AAACCGGAATACTCATGCCT+AGG - chr8.4:64385971-64385990 None:intergenic 45.0%
AACCCTAGGCATGAGTATTC+CGG + chr8.4:64385965-64385984 MS.gene58249:intron 45.0%
AACCGGAATACTCATGCCTA+GGG - chr8.4:64385970-64385989 None:intergenic 45.0%
ACGGAGTTACAATCAAGAGG+AGG + chr8.4:64387060-64387079 MS.gene58249:CDS 45.0%
CACCACGACGATCAACAATA+AGG - chr8.4:64385836-64385855 None:intergenic 45.0%
TACAATCAAGAGGAGGAGAC+TGG + chr8.4:64387067-64387086 MS.gene58249:CDS 45.0%
TAGGCATGAGTATTCCGGTT+TGG + chr8.4:64385970-64385989 MS.gene58249:intron 45.0%
TGGATGGAAACAATCGGCTA+GGG + chr8.4:64387090-64387109 MS.gene58249:CDS 45.0%
TGTCTCATTCCATTGAGGGT+TGG - chr8.4:64386434-64386453 None:intergenic 45.0%
! GACTGGTGGATGGAAACAAT+CGG + chr8.4:64387084-64387103 MS.gene58249:CDS 45.0%
!! AATAAGGCCGACTCGTGAAT+TGG - chr8.4:64385820-64385839 None:intergenic 45.0%
!! ATAAGGCCGACTCGTGAATT+GGG - chr8.4:64385819-64385838 None:intergenic 45.0%
!! CACAAGAGTACTGTGCAAGA+AGG + chr8.4:64386304-64386323 MS.gene58249:CDS 45.0%
!!! AGTTTTTTTTTTTTAAAAAA+GGG - chr8.4:64386146-64386165 None:intergenic 5.0%
!!! TAGTTTTTTTTTTTTAAAAA+AGG - chr8.4:64386147-64386166 None:intergenic 5.0%
AATCAAGAGGAGGAGACTGG+TGG + chr8.4:64387070-64387089 MS.gene58249:CDS 50.0%
ACAACTTCAAGCGTTCCACG+AGG - chr8.4:64385507-64385526 None:intergenic 50.0%
GATCCTCACTTATAGGGCAC+AGG + chr8.4:64386279-64386298 MS.gene58249:CDS 50.0%
GTGGATGGAAACAATCGGCT+AGG + chr8.4:64387089-64387108 MS.gene58249:CDS 50.0%
!! GGCCTTATTGTTGATCGTCG+TGG + chr8.4:64385831-64385850 MS.gene58249:intron 50.0%
!! GGCTCTCACTTTTACACCTG+AGG + chr8.4:64386929-64386948 MS.gene58249:CDS 50.0%
AAGAGGAGGAGACTGGTGGA+TGG + chr8.4:64387074-64387093 MS.gene58249:CDS 55.0%
GCTCCTGTGCCCTATAAGTG+AGG - chr8.4:64386285-64386304 None:intergenic 55.0%
GTGCTGGATCCAACCCTCAA+TGG + chr8.4:64386422-64386441 MS.gene58249:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 64385501 64387120 64385501 ID=MS.gene58249
chr8.4 mRNA 64385501 64387120 64385501 ID=MS.gene58249.t1;Parent=MS.gene58249
chr8.4 exon 64385501 64385567 64385501 ID=MS.gene58249.t1.exon1;Parent=MS.gene58249.t1
chr8.4 CDS 64385501 64385567 64385501 ID=cds.MS.gene58249.t1;Parent=MS.gene58249.t1
chr8.4 exon 64386260 64386325 64386260 ID=MS.gene58249.t1.exon2;Parent=MS.gene58249.t1
chr8.4 CDS 64386260 64386325 64386260 ID=cds.MS.gene58249.t1;Parent=MS.gene58249.t1
chr8.4 exon 64386422 64386548 64386422 ID=MS.gene58249.t1.exon3;Parent=MS.gene58249.t1
chr8.4 CDS 64386422 64386548 64386422 ID=cds.MS.gene58249.t1;Parent=MS.gene58249.t1
chr8.4 exon 64386836 64386950 64386836 ID=MS.gene58249.t1.exon4;Parent=MS.gene58249.t1
chr8.4 CDS 64386836 64386950 64386836 ID=cds.MS.gene58249.t1;Parent=MS.gene58249.t1
chr8.4 exon 64387049 64387120 64387049 ID=MS.gene58249.t1.exon5;Parent=MS.gene58249.t1
chr8.4 CDS 64387049 64387120 64387049 ID=cds.MS.gene58249.t1;Parent=MS.gene58249.t1
Gene Sequence

>MS.gene58249

ATGCCTCGTGGAACGCTTGAAGTTGTTTTGATCAGTGCAAAAGGCCTTGAAGACAATGATTTTCTCTGTAAGTAAAGTAATACTATGTACATTCTCATTGAAATTTCTGCATCAAACAATGGATCCAAAAGTATGAAATTTTGTGATCAAATTAATCTATAGAAATTTTTTGATCTTAAGTTGGTCCGATCTATATATTTGTTGTTCCTAAAGCTTGTTAATTGAGTCTATTTTTCATTCCTGATTTAGTGAATCAATTCAGGTGACTTTTTCTTTGTTAATTTCTAATTAGTTGTAACTATAATCATATAATAGCCCAATTCACGAGTCGGCCTTATTGTTGATCGTCGTGGTGCGATGTTGTTTGATTTTCCGTCTTGTTATAGTGTTCGTTTGATTAATATTGAAAGATCAGCTTTAATCAATTATTGATTCAACCAATGATTTAGCTGTCAACATTGCATAACCCTAGGCATGAGTATTCCGGTTTGGTTTTATCATATTATTTGTATATATTTTGTGTTGTATGCTATTAAATTGGGTGTTGCGAGTTTGTTTGCAGATTCATCCTTTTTTTCGTTTTTAGCGATGTTGAATCCGAGACTGTATTCAATGTACTCTATCAATATATACGAACGAATACCCTTTTTTAAAAAAAAAAAACTAAAATCATATAATAATGTTGAATTACCAATTTGACTATTAAAATTGTTCTAGATATGATCCTCTAAAGTCTTGATCTTTGTTCTGAATGAGCAGCTAGCATAGATCCTTATGTGATCCTCACTTATAGGGCACAGGAGCACAAGAGTACTGTGCAAGAAGGTACATTTCTGAATCTTATGACAAGTATTAATCTGCTTATTTGTTAATTTTTTTTTTTCTCTAGTTGCTTGATTATTGGTTTATGAATAATATCAGGTGCTGGATCCAACCCTCAATGGAATGAGACATTTCTTTTCACTGTTTCTGACAATGCTTCTGAGCTCAATCTAAAGATAATGGAAAAGGACAACTATAGTGCTGATGATAATCTTGGAGAAGTAATGTGAGTTAAATTCTTCTTATACTTGCAAATTTTCCTTTGATTCATCCTGAGTTTAATGGAGATACATTGTCAGTGTAAAATAGTATTACACCGATATTCAATAAAAACTCATGATATTGCAAGGTAAACCAACTTTCTCACTACAACTTAAAATAACTGAAAAGTTGAATGTTGGTGTAAAACTAGTTTATATTGATAGTGTACACTTCTTTTCTTAAAACTAGTTTACACTTAAAAGAGGTCAGAATGTTGTAATTTGTAATGTTGGCATTCATTTCTGTCTATAGAATTCCTTTAGAGACAGTGATTCAAGAGGGTAGCGTTCCAGAGAATTCTTACAAACTTGTGAAGGATGAAAAATATTGTGGAGAGGTTAAGGTGGCTCTCACTTTTACACCTGAGGTAATGAGGCTATAGAACCTGTTTTTCTAATATTTTTCTTCATACTTTTCTGCATAATTTTCTCCCTATTAAAACGCACTATCAATTATTGGTTGCAGAGAAACTATGAACGGAGTTACAATCAAGAGGAGGAGACTGGTGGATGGAAACAATCGGCTAGGGACTATTGA

Protein sequence

>MS.gene58249.t1

MPRGTLEVVLISAKGLEDNDFLSSIDPYVILTYRAQEHKSTVQEGAGSNPQWNETFLFTVSDNASELNLKIMEKDNYSADDNLGEVIIPLETVIQEGSVPENSYKLVKDEKYCGEVKVALTFTPERNYERSYNQEEETGGWKQSARDY