AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07031

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07031.t1 MTR_7g109250 96.942 327 10 0 1 327 1 327 0.0 661
MS.gene07031.t1 MTR_7g109250 96.942 327 10 0 1 327 61 387 0.0 658
MS.gene07031.t1 MTR_7g108868 51.412 177 26 5 62 238 11 127 1.36e-46 156
MS.gene07031.t1 MTR_8g058593 51.412 177 26 5 62 238 11 127 1.36e-46 156
MS.gene07031.t1 MTR_8g058607 50.000 176 28 4 62 237 24 139 1.16e-45 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07031.t1 AT1G01350 69.375 320 95 2 8 327 20 336 3.31e-163 459
MS.gene07031.t1 AT5G06420 68.125 320 96 2 8 327 58 371 3.17e-161 455
MS.gene07031.t1 AT5G06420 68.125 320 96 2 8 327 58 371 3.17e-161 455
MS.gene07031.t1 AT4G01023 64.407 59 21 0 258 316 76 134 2.53e-26 104
MS.gene07031.t1 AT4G01023 65.079 63 21 1 254 316 92 153 5.86e-26 104
MS.gene07031.t1 AT4G01023 64.407 59 21 0 258 316 95 153 8.26e-26 103

Find 66 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATATTCTTCCTATTAAC+AGG 0.250339 7.2:-5440256 None:intergenic
TCTTCAGAAAACCTGTTAAT+AGG 0.277151 7.2:+5440245 MS.gene07031:CDS
TTGTAATCCTTGCATATATC+TGG 0.290645 7.2:-5440763 None:intergenic
GTGGGTCACACGGTCCTCTC+AGG 0.313412 7.2:+5440698 MS.gene07031:CDS
GATCGAGGTGATTACAAATC+TGG 0.331028 7.2:+5440832 MS.gene07031:CDS
TGCAAGGATTACAAGGAAAC+TGG 0.409524 7.2:+5440772 MS.gene07031:CDS
AAATGAAAGCTGGGTTTCTC+AGG 0.415855 7.2:-5440433 None:intergenic
CATTTGTCGAAACCCATTTG+TGG 0.418726 7.2:+5440993 MS.gene07031:CDS
CTTGCTTAAGAGCTCTTTCA+CGG 0.431115 7.2:-5440549 None:intergenic
CTGTGAGCATTGTGCATTGA+AGG 0.436410 7.2:+5441047 MS.gene07031:CDS
TAGCAAAGCAACAGCAACTT+TGG 0.436558 7.2:+5440489 MS.gene07031:CDS
GTTGAGACAGGATCCACAAA+TGG 0.441292 7.2:-5441006 None:intergenic
AGAAGACTCGAAATGAAAGC+TGG 0.441893 7.2:-5440443 None:intergenic
ACACGGTCCTCTCAGGGCTT+CGG 0.450938 7.2:+5440705 MS.gene07031:CDS
GTCTGCAATCAGCCTACGCT+TGG 0.462383 7.2:+5441215 MS.gene07031:CDS
TGTTTACACTTGGTTGAGAC+AGG 0.468148 7.2:-5441018 None:intergenic
CAATAATTATACAGATCATA+AGG 0.469416 7.2:+5440633 MS.gene07031:CDS
GGTGGCAGATGGAGAAAGAA+TGG 0.469953 7.2:+5440854 MS.gene07031:CDS
TGCAGGTGAGGATGCGGAAG+AGG 0.471533 7.2:+5440912 MS.gene07031:CDS
CGAGGATGTAAAATTATACA+AGG 0.486690 7.2:+5440606 MS.gene07031:CDS
ACATACCTTGTTCAGTCGGC+TGG 0.489348 7.2:-5440107 None:intergenic
GCAAACAATTGCCAGTGAAA+AGG 0.499122 7.2:+5440672 MS.gene07031:CDS
CGACAAATGAAACACGCAAA+TGG 0.499537 7.2:-5440979 None:intergenic
GAAAGCAAGGAAGATGAGAT+TGG 0.507679 7.2:+5440888 MS.gene07031:CDS
TGCAGAGCTCTTCGAAGAGC+CGG 0.511210 7.2:-5440389 None:intergenic
AATTATACAGATCATAAGGC+TGG 0.520545 7.2:+5440637 MS.gene07031:CDS
ATCGAGGTGATTACAAATCT+GGG 0.520829 7.2:+5440833 MS.gene07031:CDS
GAGCTCTTTCACGGATGGCA+CGG 0.524231 7.2:-5440540 None:intergenic
TTGAGACAGGATCCACAAAT+GGG 0.525917 7.2:-5441005 None:intergenic
AGATATATGCAAGGATTACA+AGG 0.530308 7.2:+5440765 MS.gene07031:CDS
TGGGTCACACGGTCCTCTCA+GGG 0.532282 7.2:+5440699 MS.gene07031:CDS
CTTAAGAGCTCTTTCACGGA+TGG 0.538525 7.2:-5440545 None:intergenic
AGTCTCAAGGGAAAGAGTAC+TGG 0.538575 7.2:+5440580 MS.gene07031:CDS
GAAAACCAGCCGACTGAACA+AGG 0.548242 7.2:+5440102 MS.gene07031:CDS
GTGGCAGATGGAGAAAGAAT+GGG 0.553122 7.2:+5440855 MS.gene07031:CDS
TTACAAATCTGGGTGGCAGA+TGG 0.553483 7.2:+5440843 MS.gene07031:CDS
GAAGACTCGAAATGAAAGCT+GGG 0.554193 7.2:-5440442 None:intergenic
AGCTCTTTCACGGATGGCAC+GGG 0.560125 7.2:-5440539 None:intergenic
GAAACTGGTTACTGTGGGTA+TGG 0.560524 7.2:+5440787 MS.gene07031:CDS
TATTGAGAATGAAGATAATG+AGG 0.560776 7.2:+5440288 MS.gene07031:CDS
TCATGAGATACGAAAGAAGA+TGG 0.563924 7.2:+5441253 MS.gene07031:CDS
ATAGGAAGAATATGAGGAAG+CGG 0.564756 7.2:+5440263 MS.gene07031:CDS
GGTGAGGATGCGGAAGAGGA+AGG 0.573050 7.2:+5440916 MS.gene07031:CDS
CTGTTAATAGGAAGAATATG+AGG 0.583376 7.2:+5440257 MS.gene07031:CDS
GGGATGAAGCTGAGAAAGCA+AGG 0.584805 7.2:+5440875 MS.gene07031:CDS
TACAAGGAAACTGGTTACTG+TGG 0.587264 7.2:+5440781 MS.gene07031:CDS
ACAATTGCCAGTGAAAAGGC+TGG 0.588175 7.2:+5440676 MS.gene07031:CDS
GATGAGATTGGCTGCAGGTG+AGG 0.590274 7.2:+5440900 MS.gene07031:CDS
ACAGAAGTAGTGTTTACACT+TGG 0.595746 7.2:-5441028 None:intergenic
TTATACATACCTTGTTCAGT+CGG 0.596044 7.2:-5440111 None:intergenic
GAAAAGGCTGGTGGGTCACA+CGG 0.600903 7.2:+5440688 MS.gene07031:CDS
AGGAAGATGAGATTGGCTGC+AGG 0.603143 7.2:+5440895 MS.gene07031:CDS
ATTGGCTGCAGGTGAGGATG+CGG 0.603342 7.2:+5440906 MS.gene07031:CDS
ATTGCCAGTGAAAAGGCTGG+TGG 0.607353 7.2:+5440679 MS.gene07031:CDS
GATACGAAAGAAGATGGCTG+AGG 0.623889 7.2:+5441259 MS.gene07031:CDS
TTGCCAGTGAAAAGGCTGGT+GGG 0.630138 7.2:+5440680 MS.gene07031:CDS
CAAGCGACTGAGAGTCTCAA+GGG 0.630489 7.2:+5440568 MS.gene07031:CDS
GCAAGCGACTGAGAGTCTCA+AGG 0.636269 7.2:+5440567 MS.gene07031:CDS
GGGAAAGAGTACTGGTTCCG+AGG 0.640397 7.2:+5440588 MS.gene07031:CDS
ACAAGGAAACTGGTTACTGT+GGG 0.647981 7.2:+5440782 MS.gene07031:CDS
TGTAAGTTTATGCATGATCG+AGG 0.650874 7.2:+5440817 MS.gene07031:CDS
TTATCAGCCAGATATATGCA+AGG 0.656472 7.2:+5440756 MS.gene07031:CDS
AGAGCTCTTCGAAGAGCCGG+TGG 0.686462 7.2:-5440386 None:intergenic
GAGGATGTAAAATTATACAA+GGG 0.688297 7.2:+5440607 MS.gene07031:CDS
ATGTGAGCCGAAGCCCTGAG+AGG 0.689295 7.2:-5440712 None:intergenic
GAGGTGATTACAAATCTGGG+TGG 0.758440 7.2:+5440836 MS.gene07031:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAAAAAAAAGGTTAATGA+TGG - chr7.2:5440196-5440215 None:intergenic 20.0%
!! CAATAATTATACAGATCATA+AGG + chr7.2:5440633-5440652 MS.gene07031:CDS 20.0%
! AGAAGTTAGGCATAATTAAA+AGG - chr7.2:5441151-5441170 None:intergenic 25.0%
! GAGGATGTAAAATTATACAA+GGG + chr7.2:5440607-5440626 MS.gene07031:CDS 25.0%
! TATTGAGAATGAAGATAATG+AGG + chr7.2:5440288-5440307 MS.gene07031:CDS 25.0%
!! CTTGTATAATTTTACATCCT+CGG - chr7.2:5440608-5440627 None:intergenic 25.0%
!!! ACTTATTTGCTTTGAAGTTA+AGG - chr7.2:5441078-5441097 None:intergenic 25.0%
!!! CTTATTTGCTTTGAAGTTAA+GGG - chr7.2:5441077-5441096 None:intergenic 25.0%
AAGTAAAATGAGCAGAAGTT+AGG - chr7.2:5441164-5441183 None:intergenic 30.0%
AATTATACAGATCATAAGGC+TGG + chr7.2:5440637-5440656 MS.gene07031:CDS 30.0%
ACAAACGCGTAGAAAAAAAA+AGG - chr7.2:5440206-5440225 None:intergenic 30.0%
AGATATATGCAAGGATTACA+AGG + chr7.2:5440765-5440784 MS.gene07031:CDS 30.0%
CGAGGATGTAAAATTATACA+AGG + chr7.2:5440606-5440625 MS.gene07031:CDS 30.0%
CTCATATTCTTCCTATTAAC+AGG - chr7.2:5440259-5440278 None:intergenic 30.0%
CTGTTAATAGGAAGAATATG+AGG + chr7.2:5440257-5440276 MS.gene07031:CDS 30.0%
GATGGTACAAAAAAATGTAG+AGG - chr7.2:5440178-5440197 None:intergenic 30.0%
TCTTCAGAAAACCTGTTAAT+AGG + chr7.2:5440245-5440264 MS.gene07031:CDS 30.0%
TGTTCAGAAAAAGAACATGA+AGG + chr7.2:5440342-5440361 MS.gene07031:CDS 30.0%
TTATACATACCTTGTTCAGT+CGG - chr7.2:5440114-5440133 None:intergenic 30.0%
TTGTAATCCTTGCATATATC+TGG - chr7.2:5440766-5440785 None:intergenic 30.0%
! AATAAGTTGTTCTTTTCCAC+CGG + chr7.2:5440370-5440389 MS.gene07031:CDS 30.0%
ACAGAAGTAGTGTTTACACT+TGG - chr7.2:5441031-5441050 None:intergenic 35.0%
ACATTAAAAATGCCAAGCGT+AGG - chr7.2:5441230-5441249 None:intergenic 35.0%
ATAGGAAGAATATGAGGAAG+CGG + chr7.2:5440263-5440282 MS.gene07031:CDS 35.0%
ATCGAGGTGATTACAAATCT+GGG + chr7.2:5440833-5440852 MS.gene07031:CDS 35.0%
TCATGAGATACGAAAGAAGA+TGG + chr7.2:5441253-5441272 MS.gene07031:CDS 35.0%
TGTAAGTTTATGCATGATCG+AGG + chr7.2:5440817-5440836 MS.gene07031:CDS 35.0%
TTATCAGCCAGATATATGCA+AGG + chr7.2:5440756-5440775 MS.gene07031:CDS 35.0%
! TACGCTTGGCATTTTTAATG+TGG + chr7.2:5441229-5441248 MS.gene07031:CDS 35.0%
AAATGAAAGCTGGGTTTCTC+AGG - chr7.2:5440436-5440455 None:intergenic 40.0%
ACAAGGAAACTGGTTACTGT+GGG + chr7.2:5440782-5440801 MS.gene07031:CDS 40.0%
AGAAGACTCGAAATGAAAGC+TGG - chr7.2:5440446-5440465 None:intergenic 40.0%
CATTTGTCGAAACCCATTTG+TGG + chr7.2:5440993-5441012 MS.gene07031:CDS 40.0%
CGACAAATGAAACACGCAAA+TGG - chr7.2:5440982-5441001 None:intergenic 40.0%
CTTGCTTAAGAGCTCTTTCA+CGG - chr7.2:5440552-5440571 None:intergenic 40.0%
GAAAGCAAGGAAGATGAGAT+TGG + chr7.2:5440888-5440907 MS.gene07031:CDS 40.0%
GAAGACTCGAAATGAAAGCT+GGG - chr7.2:5440445-5440464 None:intergenic 40.0%
GATCGAGGTGATTACAAATC+TGG + chr7.2:5440832-5440851 MS.gene07031:CDS 40.0%
GCAAACAATTGCCAGTGAAA+AGG + chr7.2:5440672-5440691 MS.gene07031:CDS 40.0%
TACAAGGAAACTGGTTACTG+TGG + chr7.2:5440781-5440800 MS.gene07031:CDS 40.0%
TAGCAAAGCAACAGCAACTT+TGG + chr7.2:5440489-5440508 MS.gene07031:CDS 40.0%
TGCAAGGATTACAAGGAAAC+TGG + chr7.2:5440772-5440791 MS.gene07031:CDS 40.0%
TGTTTACACTTGGTTGAGAC+AGG - chr7.2:5441021-5441040 None:intergenic 40.0%
TTGAGACAGGATCCACAAAT+GGG - chr7.2:5441008-5441027 None:intergenic 40.0%
ACAATTGCCAGTGAAAAGGC+TGG + chr7.2:5440676-5440695 MS.gene07031:CDS 45.0%
CTTAAGAGCTCTTTCACGGA+TGG - chr7.2:5440548-5440567 None:intergenic 45.0%
GAAACTGGTTACTGTGGGTA+TGG + chr7.2:5440787-5440806 MS.gene07031:CDS 45.0%
GAGGTGATTACAAATCTGGG+TGG + chr7.2:5440836-5440855 MS.gene07031:CDS 45.0%
GATACGAAAGAAGATGGCTG+AGG + chr7.2:5441259-5441278 MS.gene07031:CDS 45.0%
GTGGCAGATGGAGAAAGAAT+GGG + chr7.2:5440855-5440874 MS.gene07031:CDS 45.0%
GTTGAGACAGGATCCACAAA+TGG - chr7.2:5441009-5441028 None:intergenic 45.0%
TTACAAATCTGGGTGGCAGA+TGG + chr7.2:5440843-5440862 MS.gene07031:CDS 45.0%
! AGTCTCAAGGGAAAGAGTAC+TGG + chr7.2:5440580-5440599 MS.gene07031:CDS 45.0%
! CTGTGAGCATTGTGCATTGA+AGG + chr7.2:5441047-5441066 MS.gene07031:CDS 45.0%
ACATACCTTGTTCAGTCGGC+TGG - chr7.2:5440110-5440129 None:intergenic 50.0%
ATTGCCAGTGAAAAGGCTGG+TGG + chr7.2:5440679-5440698 MS.gene07031:CDS 50.0%
CAAGCGACTGAGAGTCTCAA+GGG + chr7.2:5440568-5440587 MS.gene07031:CDS 50.0%
GAAAACCAGCCGACTGAACA+AGG + chr7.2:5440102-5440121 MS.gene07031:CDS 50.0%
GGGATGAAGCTGAGAAAGCA+AGG + chr7.2:5440875-5440894 MS.gene07031:CDS 50.0%
GGTGGCAGATGGAGAAAGAA+TGG + chr7.2:5440854-5440873 MS.gene07031:CDS 50.0%
TTGCCAGTGAAAAGGCTGGT+GGG + chr7.2:5440680-5440699 MS.gene07031:CDS 50.0%
! AGGAAGATGAGATTGGCTGC+AGG + chr7.2:5440895-5440914 MS.gene07031:CDS 50.0%
!!! CGGCTGGTTTTCAGCAGATT+TGG - chr7.2:5440094-5440113 None:intergenic 50.0%
AGCTCTTTCACGGATGGCAC+GGG - chr7.2:5440542-5440561 None:intergenic 55.0%
ATTGGCTGCAGGTGAGGATG+CGG + chr7.2:5440906-5440925 MS.gene07031:CDS 55.0%
GAGCTCTTTCACGGATGGCA+CGG - chr7.2:5440543-5440562 None:intergenic 55.0%
GCAAGCGACTGAGAGTCTCA+AGG + chr7.2:5440567-5440586 MS.gene07031:CDS 55.0%
GTCTGCAATCAGCCTACGCT+TGG + chr7.2:5441215-5441234 MS.gene07031:CDS 55.0%
TGCAGAGCTCTTCGAAGAGC+CGG - chr7.2:5440392-5440411 None:intergenic 55.0%
! GAAAAGGCTGGTGGGTCACA+CGG + chr7.2:5440688-5440707 MS.gene07031:CDS 55.0%
! GATGAGATTGGCTGCAGGTG+AGG + chr7.2:5440900-5440919 MS.gene07031:CDS 55.0%
! TGACCCACCAGCCTTTTCAC+TGG - chr7.2:5440686-5440705 None:intergenic 55.0%
!! GGGAAAGAGTACTGGTTCCG+AGG + chr7.2:5440588-5440607 MS.gene07031:CDS 55.0%
ACACGGTCCTCTCAGGGCTT+CGG + chr7.2:5440705-5440724 MS.gene07031:CDS 60.0%
AGAGCTCTTCGAAGAGCCGG+TGG - chr7.2:5440389-5440408 None:intergenic 60.0%
ATGTGAGCCGAAGCCCTGAG+AGG - chr7.2:5440715-5440734 None:intergenic 60.0%
GGTGAGGATGCGGAAGAGGA+AGG + chr7.2:5440916-5440935 MS.gene07031:CDS 60.0%
TGCAGGTGAGGATGCGGAAG+AGG + chr7.2:5440912-5440931 MS.gene07031:CDS 60.0%
TGGGTCACACGGTCCTCTCA+GGG + chr7.2:5440699-5440718 MS.gene07031:CDS 60.0%
GTGGGTCACACGGTCCTCTC+AGG + chr7.2:5440698-5440717 MS.gene07031:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 5440075 5441289 5440075 ID=MS.gene07031
chr7.2 mRNA 5440075 5441289 5440075 ID=MS.gene07031.t1;Parent=MS.gene07031
chr7.2 exon 5440075 5440123 5440075 ID=MS.gene07031.t1.exon1;Parent=MS.gene07031.t1
chr7.2 CDS 5440075 5440123 5440075 ID=cds.MS.gene07031.t1;Parent=MS.gene07031.t1
chr7.2 exon 5440236 5441068 5440236 ID=MS.gene07031.t1.exon2;Parent=MS.gene07031.t1
chr7.2 CDS 5440236 5441068 5440236 ID=cds.MS.gene07031.t1;Parent=MS.gene07031.t1
chr7.2 exon 5441188 5441289 5441188 ID=MS.gene07031.t1.exon3;Parent=MS.gene07031.t1
chr7.2 CDS 5441188 5441289 5441188 ID=cds.MS.gene07031.t1;Parent=MS.gene07031.t1
Gene Sequence

>MS.gene07031

ATGGAAAATTCTGAGGCCAAATCTGCTGAAAACCAGCCGACTGAACAAGGTATGTATAACATTTTGCATTATTAGACTCACAATCTTGTTATCTTATGCACCTCTACATTTTTTTGTACCATCATTAACCTTTTTTTTTCTACGCGTTTGTTTATCATCAGTGTGTAGTTTCTTCAGAAAACCTGTTAATAGGAAGAATATGAGGAAGCGGACTATTGAGAATGAAGATAATGAGGATGACTCGAACAATGAAGAGTCTTTGATGCATGTTCAGAAAAAGAACATGAAGGCTGATAATAAGTTGTTCTTTTCCACCGGCTCTTCGAAGAGCTCTGCATCTGCTAAACTGAATGAAGAACCTGAGAAACCCAGCTTTCATTTCGAGTCTTCTAAAGAGATTCAAGTTCAACATGATAGCAAAGCAACAGCAACTTTGGAGACTGAGACTGATTTTTCAAGAGATGCCCGTGCCATCCGTGAAAGAGCTCTTAAGCAAGCGACTGAGAGTCTCAAGGGAAAGAGTACTGGTTCCGAGGATGTAAAATTATACAAGGGAATCAATAATTATACAGATCATAAGGCTGGATTTCGTAGAGAGCAAACAATTGCCAGTGAAAAGGCTGGTGGGTCACACGGTCCTCTCAGGGCTTCGGCTCACATAAGAGTTTCAGCAAGATTTGATTATCAGCCAGATATATGCAAGGATTACAAGGAAACTGGTTACTGTGGGTATGGTGATTCGTGTAAGTTTATGCATGATCGAGGTGATTACAAATCTGGGTGGCAGATGGAGAAAGAATGGGATGAAGCTGAGAAAGCAAGGAAGATGAGATTGGCTGCAGGTGAGGATGCGGAAGAGGAAGGTGCTAGTTTGAATGATGAAGATGATGATGAAGACGTATTACCATTTGCGTGTTTCATTTGTCGAAACCCATTTGTGGATCCTGTCTCAACCAAGTGTAAACACTACTTCTGTGAGCATTGTGCATTGAAGGTACACCCTTAACTTCAAAGCAAATAAGTTTTAATTTATAACAGTTTCAAGTTATTCAGTAATGCTTAATTTCTTTTTTCCTTTTAATTATGCCTAACTTCTGCTCATTTTACTTGCAGCATCATGCGAAGAATAAGAAGTGTTTTGTCTGCAATCAGCCTACGCTTGGCATTTTTAATGTGGCTCATGAGATACGAAAGAAGATGGCTGAGGATAAATAG
Protein sequence

>MS.gene07031.t1

MENSEAKSAENQPTEQVCSFFRKPVNRKNMRKRTIENEDNEDDSNNEESLMHVQKKNMKADNKLFFSTGSSKSSASAKLNEEPEKPSFHFESSKEIQVQHDSKATATLETETDFSRDARAIRERALKQATESLKGKSTGSEDVKLYKGINNYTDHKAGFRREQTIASEKAGGSHGPLRASAHIRVSARFDYQPDICKDYKETGYCGYGDSCKFMHDRGDYKSGWQMEKEWDEAEKARKMRLAAGEDAEEEGASLNDEDDDEDVLPFACFICRNPFVDPVSTKCKHYFCEHCALKHHAKNKKCFVCNQPTLGIFNVAHEIRKKMAEDK