AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063525

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063525.t1 MTR_7g029400 35.714 126 66 3 79 200 55 169 5.31e-17 76.3
MS.gene063525.t1 MTR_8g015250 36.364 121 62 3 84 200 50 159 6.72e-17 75.5
MS.gene063525.t1 MTR_7g017880 42.342 111 60 1 73 179 52 162 4.99e-16 73.6
MS.gene063525.t1 MTR_6g016375 41.441 111 60 1 76 181 57 167 7.33e-16 73.2
MS.gene063525.t1 MTR_4g070860 35.833 120 64 3 93 199 16 135 9.02e-13 63.9
MS.gene063525.t1 MTR_5g015090 36.232 138 71 6 73 202 27 155 2.01e-12 63.2
MS.gene063525.t1 MTR_3g117120 37.255 102 54 2 93 184 16 117 1.25e-11 60.8
MS.gene063525.t1 MTR_1g087040 30.769 117 74 1 84 193 7 123 5.57e-11 58.9
MS.gene063525.t1 MTR_4g097440 29.870 154 86 5 25 172 6 143 7.87e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063525.t1 AT5G60830 54.118 85 39 0 102 186 69 153 4.29e-22 90.1
MS.gene063525.t1 AT5G38800 41.667 96 54 1 86 179 52 147 2.64e-18 79.0
MS.gene063525.t1 AT3G30530 41.176 102 60 0 82 183 59 160 6.77e-18 78.2
MS.gene063525.t1 AT1G13600 42.105 95 50 1 90 179 67 161 1.51e-16 75.1
MS.gene063525.t1 AT5G15830 36.036 111 65 1 92 196 56 166 1.28e-14 69.7
MS.gene063525.t1 AT2G04038 40.426 94 50 1 92 179 56 149 8.00e-14 67.0
MS.gene063525.t1 AT2G18160 34.211 114 68 1 90 196 17 130 4.38e-12 62.4
MS.gene063525.t1 AT1G75390 35.246 122 64 3 82 188 11 132 3.23e-11 60.1
MS.gene063525.t1 AT3G62420 33.898 118 69 3 87 196 8 124 4.02e-11 59.3

Find 57 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAGTTCATGATGGGTTTC+TGG 0.068192 8.4:+17677895 None:intergenic
CCAACAAGTAAATGATCTTT+TGG 0.211603 8.4:+17677538 None:intergenic
ATGAGTTGGGAGAAGATTTA+TGG 0.268120 8.4:+17677736 None:intergenic
AGCCTGCAAAACCTGGAAAA+TGG 0.302202 8.4:-17677873 MS.gene063525:CDS
CCAAAAGATCATTTACTTGT+TGG 0.311300 8.4:-17677538 MS.gene063525:CDS
GTGAGGTATACCAACATTTC+CGG 0.334411 8.4:+17677425 None:intergenic
TGAGTTCATGATGGGTTTCT+GGG 0.383025 8.4:+17677896 None:intergenic
AGCGATACTATCTACTTTGT+TGG 0.386310 8.4:-17677454 MS.gene063525:CDS
TTTATGGTCTGGAATTTGAA+TGG 0.416953 8.4:+17677752 None:intergenic
GAACTCAAGCCTGCAAAACC+TGG 0.431180 8.4:-17677880 MS.gene063525:CDS
CGGAAGCATAGGGTACTTCA+TGG 0.433114 8.4:+17677949 None:intergenic
TTGGGAGAAGATTTATGGTC+TGG 0.437689 8.4:+17677741 None:intergenic
TTGCAGGCTTGAGTTCATGA+TGG 0.445548 8.4:+17677887 None:intergenic
TGAAGCTGGGAGTAGTGAAA+TGG 0.452683 8.4:+17677798 None:intergenic
TTATGGTCTGGAATTTGAAT+GGG 0.454968 8.4:+17677753 None:intergenic
TTCATGATGGGTTTCTGGGT+TGG 0.465026 8.4:+17677900 None:intergenic
TTGCTGTTTGATGATGAGTT+GGG 0.465194 8.4:+17677723 None:intergenic
GTTGCTGTTTGATGATGAGT+TGG 0.468729 8.4:+17677722 None:intergenic
TGCAGGCTTGAGTTCATGAT+GGG 0.472548 8.4:+17677888 None:intergenic
TTGATGATCGAAAGAAGAAA+AGG 0.480340 8.4:-17677671 MS.gene063525:CDS
AGACGAGTTGAAAGGTTGGC+TGG 0.483172 8.4:+17677384 None:intergenic
TGTCGTTAGAGAGGTGAAGC+TGG 0.483487 8.4:+17677784 None:intergenic
ACCCATCTGTATCCATCTCA+AGG 0.506932 8.4:-17677834 MS.gene063525:CDS
CTACTCAAAATCGCTATGCT+CGG 0.512535 8.4:+17677341 None:intergenic
TCTACTTTGTTGGTTACGAC+CGG 0.517483 8.4:-17677444 MS.gene063525:CDS
GTACTGTATCACGGAAGCAT+AGG 0.517499 8.4:+17677938 None:intergenic
TACTCAAAATCGCTATGCTC+GGG 0.518651 8.4:+17677342 None:intergenic
ATTGATGGTTCAGCGCCTGC+AGG 0.527456 8.4:+17677565 None:intergenic
AGGTTGGCTGGGAAGCCACT+AGG 0.529008 8.4:+17677396 None:intergenic
ATGGGTTTCTGGGTTGGAGA+AGG 0.532216 8.4:+17677906 None:intergenic
GATACAGATGGGTCAAAGAA+TGG 0.534656 8.4:+17677844 None:intergenic
CTGGGAAGCCACTAGGGATG+TGG 0.538645 8.4:+17677403 None:intergenic
TTTCTGGGTTGGAGAAGGAT+AGG 0.544788 8.4:+17677911 None:intergenic
GTATCAAGTGAATCACCTGC+AGG 0.567327 8.4:-17677580 MS.gene063525:CDS
ATATCATGTAAACCTTGAGA+TGG 0.573761 8.4:+17677822 None:intergenic
TCAAACAGCAACAACAACTC+TGG 0.574952 8.4:-17677711 MS.gene063525:CDS
GTCGTTAGAGAGGTGAAGCT+GGG 0.575441 8.4:+17677785 None:intergenic
GACGAGTTGAAAGGTTGGCT+GGG 0.575767 8.4:+17677385 None:intergenic
AACCTTGAGATGGATACAGA+TGG 0.576394 8.4:+17677832 None:intergenic
TACTGTATCACGGAAGCATA+GGG 0.579135 8.4:+17677939 None:intergenic
GGTTGGCTGGGAAGCCACTA+GGG 0.587937 8.4:+17677397 None:intergenic
TTGTAACTAGACGAGTTGAA+AGG 0.591340 8.4:+17677376 None:intergenic
TTGGTTACGACCGGAAATGT+TGG 0.596096 8.4:-17677435 MS.gene063525:CDS
GACTGTCGCTGTCGTTAGAG+AGG 0.603830 8.4:+17677775 None:intergenic
CAAAACCTGGAAAATGGAGA+AGG 0.605645 8.4:-17677867 MS.gene063525:CDS
GGTGATTCACTTGATACCAC+AGG 0.615500 8.4:+17677586 None:intergenic
AACTAGACGAGTTGAAAGGT+TGG 0.615858 8.4:+17677380 None:intergenic
ACCTTGAGATGGATACAGAT+GGG 0.616103 8.4:+17677833 None:intergenic
AGATAGTATCGCTTGAAGAG+AGG 0.616741 8.4:+17677464 None:intergenic
ATAGGAAAGGTACTGTATCA+CGG 0.627119 8.4:+17677929 None:intergenic
CAACAACTCTGGTAAAGCAA+AGG 0.630742 8.4:-17677700 MS.gene063525:CDS
AGACATGGTACGCAATGACG+AGG 0.666727 8.4:-17677976 None:intergenic
CTAACAGAGAATCTGCTCGT+CGG 0.675721 8.4:-17677641 MS.gene063525:CDS
ATACCTCACCACATCCCTAG+TGG 0.679014 8.4:-17677411 MS.gene063525:CDS
AGCAGCGAATTGAAGTCCTG+TGG 0.703639 8.4:-17677602 MS.gene063525:CDS
AAGCCACTAGGGATGTGGTG+AGG 0.721984 8.4:+17677408 None:intergenic
GGGTTGGAGAAGGATAGGAA+AGG 0.730828 8.4:+17677916 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAACAAGTAAATGATCTTTT+GGG + chr8.4:17677777-17677796 None:intergenic 25.0%
ATATCATGTAAACCTTGAGA+TGG + chr8.4:17677494-17677513 None:intergenic 30.0%
CCAAAAGATCATTTACTTGT+TGG - chr8.4:17677775-17677794 MS.gene063525:CDS 30.0%
! CCAACAAGTAAATGATCTTT+TGG + chr8.4:17677778-17677797 None:intergenic 30.0%
! TTATGGTCTGGAATTTGAAT+GGG + chr8.4:17677563-17677582 None:intergenic 30.0%
! TTGATGATCGAAAGAAGAAA+AGG - chr8.4:17677642-17677661 MS.gene063525:CDS 30.0%
! TTTATGGTCTGGAATTTGAA+TGG + chr8.4:17677564-17677583 None:intergenic 30.0%
! TTTTCTTCTTTCGATCATCA+AGG + chr8.4:17677643-17677662 None:intergenic 30.0%
!! CATTTTGTTGGTTGATTAGT+TGG + chr8.4:17677808-17677827 None:intergenic 30.0%
!!! CTTTAAGTTGAGCATTTTGT+TGG + chr8.4:17677820-17677839 None:intergenic 30.0%
AGCGATACTATCTACTTTGT+TGG - chr8.4:17677859-17677878 MS.gene063525:CDS 35.0%
! ATGAGTTGGGAGAAGATTTA+TGG + chr8.4:17677580-17677599 None:intergenic 35.0%
! TTGTAACTAGACGAGTTGAA+AGG + chr8.4:17677940-17677959 None:intergenic 35.0%
!! ATAGGAAAGGTACTGTATCA+CGG + chr8.4:17677387-17677406 None:intergenic 35.0%
!! TTGCTGTTTGATGATGAGTT+GGG + chr8.4:17677593-17677612 None:intergenic 35.0%
!!! TGATCTTTTGGGACAATTGA+TGG + chr8.4:17677766-17677785 None:intergenic 35.0%
AACCTTGAGATGGATACAGA+TGG + chr8.4:17677484-17677503 None:intergenic 40.0%
ACCTTGAGATGGATACAGAT+GGG + chr8.4:17677483-17677502 None:intergenic 40.0%
AGATAGTATCGCTTGAAGAG+AGG + chr8.4:17677852-17677871 None:intergenic 40.0%
CAAAACCTGGAAAATGGAGA+AGG - chr8.4:17677446-17677465 MS.gene063525:CDS 40.0%
CAACAACTCTGGTAAAGCAA+AGG - chr8.4:17677613-17677632 MS.gene063525:CDS 40.0%
CTACTCAAAATCGCTATGCT+CGG + chr8.4:17677975-17677994 None:intergenic 40.0%
GATACAGATGGGTCAAAGAA+TGG + chr8.4:17677472-17677491 None:intergenic 40.0%
GTGAGGTATACCAACATTTC+CGG + chr8.4:17677891-17677910 None:intergenic 40.0%
TACTCAAAATCGCTATGCTC+GGG + chr8.4:17677974-17677993 None:intergenic 40.0%
TCAAACAGCAACAACAACTC+TGG - chr8.4:17677602-17677621 MS.gene063525:CDS 40.0%
TTGGGAGAAGATTTATGGTC+TGG + chr8.4:17677575-17677594 None:intergenic 40.0%
! AACTAGACGAGTTGAAAGGT+TGG + chr8.4:17677936-17677955 None:intergenic 40.0%
! TACTGTATCACGGAAGCATA+GGG + chr8.4:17677377-17677396 None:intergenic 40.0%
! TCTACTTTGTTGGTTACGAC+CGG - chr8.4:17677869-17677888 MS.gene063525:CDS 40.0%
!! GTTGCTGTTTGATGATGAGT+TGG + chr8.4:17677594-17677613 None:intergenic 40.0%
!! TGAGTTCATGATGGGTTTCT+GGG + chr8.4:17677420-17677439 None:intergenic 40.0%
!! TTGAGTTCATGATGGGTTTC+TGG + chr8.4:17677421-17677440 None:intergenic 40.0%
ACCCATCTGTATCCATCTCA+AGG - chr8.4:17677479-17677498 MS.gene063525:CDS 45.0%
AGCCTGCAAAACCTGGAAAA+TGG - chr8.4:17677440-17677459 MS.gene063525:CDS 45.0%
CTAACAGAGAATCTGCTCGT+CGG - chr8.4:17677672-17677691 MS.gene063525:CDS 45.0%
GGTGATTCACTTGATACCAC+AGG + chr8.4:17677730-17677749 None:intergenic 45.0%
GTATCAAGTGAATCACCTGC+AGG - chr8.4:17677733-17677752 MS.gene063525:CDS 45.0%
TGAAGCTGGGAGTAGTGAAA+TGG + chr8.4:17677518-17677537 None:intergenic 45.0%
TGCAGGCTTGAGTTCATGAT+GGG + chr8.4:17677428-17677447 None:intergenic 45.0%
TTGCAGGCTTGAGTTCATGA+TGG + chr8.4:17677429-17677448 None:intergenic 45.0%
TTGGTTACGACCGGAAATGT+TGG - chr8.4:17677878-17677897 MS.gene063525:CDS 45.0%
! AATGGCCTTCTCCATTTTCC+AGG + chr8.4:17677454-17677473 None:intergenic 45.0%
! CTCCATTTTCCAGGTTTTGC+AGG + chr8.4:17677445-17677464 None:intergenic 45.0%
! GTACTGTATCACGGAAGCAT+AGG + chr8.4:17677378-17677397 None:intergenic 45.0%
! TTTCTGGGTTGGAGAAGGAT+AGG + chr8.4:17677405-17677424 None:intergenic 45.0%
!! TTCATGATGGGTTTCTGGGT+TGG + chr8.4:17677416-17677435 None:intergenic 45.0%
AGCAGCGAATTGAAGTCCTG+TGG - chr8.4:17677711-17677730 MS.gene063525:CDS 50.0%
ATACCTCACCACATCCCTAG+TGG - chr8.4:17677902-17677921 MS.gene063525:CDS 50.0%
GAACTCAAGCCTGCAAAACC+TGG - chr8.4:17677433-17677452 MS.gene063525:CDS 50.0%
GGGTTGGAGAAGGATAGGAA+AGG + chr8.4:17677400-17677419 None:intergenic 50.0%
GTCGTTAGAGAGGTGAAGCT+GGG + chr8.4:17677531-17677550 None:intergenic 50.0%
TGTCGTTAGAGAGGTGAAGC+TGG + chr8.4:17677532-17677551 None:intergenic 50.0%
! AGACGAGTTGAAAGGTTGGC+TGG + chr8.4:17677932-17677951 None:intergenic 50.0%
! ATGGGTTTCTGGGTTGGAGA+AGG + chr8.4:17677410-17677429 None:intergenic 50.0%
! CGGAAGCATAGGGTACTTCA+TGG + chr8.4:17677367-17677386 None:intergenic 50.0%
! GACGAGTTGAAAGGTTGGCT+GGG + chr8.4:17677931-17677950 None:intergenic 50.0%
AAGCCACTAGGGATGTGGTG+AGG + chr8.4:17677908-17677927 None:intergenic 55.0%
GACTGTCGCTGTCGTTAGAG+AGG + chr8.4:17677541-17677560 None:intergenic 55.0%
! ATTGATGGTTCAGCGCCTGC+AGG + chr8.4:17677751-17677770 None:intergenic 55.0%
CTGGGAAGCCACTAGGGATG+TGG + chr8.4:17677913-17677932 None:intergenic 60.0%
! AGGTTGGCTGGGAAGCCACT+AGG + chr8.4:17677920-17677939 None:intergenic 60.0%
! GGTTGGCTGGGAAGCCACTA+GGG + chr8.4:17677919-17677938 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 17677341 17677994 17677341 ID=MS.gene063525
chr8.4 mRNA 17677341 17677994 17677341 ID=MS.gene063525.t1;Parent=MS.gene063525
chr8.4 exon 17677341 17677994 17677341 ID=MS.gene063525.t1.exon1;Parent=MS.gene063525.t1
chr8.4 CDS 17677341 17677994 17677341 ID=cds.MS.gene063525.t1;Parent=MS.gene063525.t1
Gene Sequence

>MS.gene063525

ATGGTACGCAATGACGAGGAACTCCATGAAGTACCCTATGCTTCCGTGATACAGTACCTTTCCTATCCTTCTCCAACCCAGAAACCCATCATGAACTCAAGCCTGCAAAACCTGGAAAATGGAGAAGGCCATTCTTTGACCCATCTGTATCCATCTCAAGGTTTACATGATATTCCATTTCACTACTCCCAGCTTCACCTCTCTAACGACAGCGACAGTCCCATTCAAATTCCAGACCATAAATCTTCTCCCAACTCATCATCAAACAGCAACAACAACTCTGGTAAAGCAAAGGATCTCCTTGATGATCGAAAGAAGAAAAGGATGTTCTCTAACAGAGAATCTGCTCGTCGGTCGCGAATGAGAAAGAAGCAGCGAATTGAAGTCCTGTGGTATCAAGTGAATCACCTGCAGGCGCTGAACCATCAATTGTCCCAAAAGATCATTTACTTGTTGGAATGTAACCAACTAATCAACCAACAAAATGCTCAACTTAAAGACAAAGTTTCCTCTCTTCAAGCGATACTATCTACTTTGTTGGTTACGACCGGAAATGTTGGTATACCTCACCACATCCCTAGTGGCTTCCCAGCCAACCTTTCAACTCGTCTAGTTACAAACTTACAATTTCCCGAGCATAGCGATTTTGAGTAG
Protein sequence

>MS.gene063525.t1

MVRNDEELHEVPYASVIQYLSYPSPTQKPIMNSSLQNLENGEGHSLTHLYPSQGLHDIPFHYSQLHLSNDSDSPIQIPDHKSSPNSSSNSNNNSGKAKDLLDDRKKKRMFSNRESARRSRMRKKQRIEVLWYQVNHLQALNHQLSQKIIYLLECNQLINQQNAQLKDKVSSLQAILSTLLVTTGNVGIPHHIPSGFPANLSTRLVTNLQFPEHSDFE