AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017874

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017874.t1 MTR_5g036670 95.413 109 5 0 3 111 77 185 1.26e-65 217
MS.gene017874.t1 MTR_8g062700 70.370 108 32 0 3 110 76 183 2.13e-45 159
MS.gene017874.t1 MTR_8g062700 70.370 108 32 0 3 110 76 183 2.23e-45 159
MS.gene017874.t1 MTR_6g008970 65.741 108 37 0 3 110 97 204 1.22e-40 145
MS.gene017874.t1 MTR_6g008995 64.815 108 36 2 3 110 14 119 7.38e-38 134
MS.gene017874.t1 MTR_6g008995 64.815 108 36 2 3 110 71 176 1.20e-37 134
MS.gene017874.t1 MTR_1g023820 50.476 105 10 2 3 107 21 83 6.40e-22 85.5
MS.gene017874.t1 MTR_7g013410 38.596 114 59 3 3 113 32 137 2.51e-19 79.3
MS.gene017874.t1 MTR_8g062350 32.857 140 55 2 8 108 53 192 2.21e-15 70.5
MS.gene017874.t1 MTR_1g105955 36.283 113 65 2 1 113 48 153 2.38e-15 70.1
MS.gene017874.t1 MTR_1g104960 31.532 111 76 0 3 113 47 157 1.21e-14 68.2
MS.gene017874.t1 MTR_4g133470 35.135 111 66 1 3 113 43 147 2.19e-14 68.9
MS.gene017874.t1 MTR_4g133300 35.135 111 66 1 3 113 43 147 5.60e-14 67.8
MS.gene017874.t1 MTR_5g036790 42.466 73 35 1 44 109 2 74 1.54e-11 57.8
MS.gene017874.t1 MTR_1g105960 54.545 44 20 0 3 46 35 78 2.37e-11 57.8
MS.gene017874.t1 MTR_3g006065 32.143 112 74 2 3 113 39 149 4.61e-11 58.9
MS.gene017874.t1 MTR_3g006150 31.250 112 75 2 3 113 39 149 5.31e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017874.t1 AT1G24190 71.028 107 31 0 3 109 48 154 7.97e-44 154
MS.gene017874.t1 AT1G24190 71.028 107 31 0 3 109 48 154 8.54e-44 154
MS.gene017874.t1 AT1G24190 71.028 107 31 0 3 109 48 154 8.87e-44 154
MS.gene017874.t1 AT1G70060 72.222 108 29 1 3 109 48 155 7.53e-43 151
MS.gene017874.t1 AT1G70060 72.222 108 29 1 3 109 48 155 7.53e-43 151
MS.gene017874.t1 AT3G01320 63.889 108 38 1 3 110 91 197 5.00e-37 135
MS.gene017874.t1 AT3G01320 63.889 108 38 1 3 110 91 197 5.04e-37 135
MS.gene017874.t1 AT5G15020 62.963 108 38 1 3 110 86 191 2.74e-36 133
MS.gene017874.t1 AT1G59890 61.682 107 39 1 3 109 79 183 2.76e-36 133
MS.gene017874.t1 AT1G59890 61.682 107 39 1 3 109 79 183 2.84e-36 133
MS.gene017874.t1 AT1G59890 61.682 107 39 1 3 109 79 183 2.84e-36 133
MS.gene017874.t1 AT1G59890 61.682 107 39 1 3 109 79 183 2.84e-36 133
MS.gene017874.t1 AT5G15020 62.963 108 38 1 3 110 86 191 2.90e-36 132
MS.gene017874.t1 AT1G24200 57.944 107 42 1 3 109 48 151 2.29e-35 122
MS.gene017874.t1 AT1G10450 58.879 107 42 1 3 109 67 171 3.93e-35 129
MS.gene017874.t1 AT1G10450 58.879 107 42 1 3 109 67 171 3.93e-35 129
MS.gene017874.t1 AT1G10450 58.879 107 42 1 3 109 118 222 4.22e-35 129
MS.gene017874.t1 AT1G70030 52.427 103 47 2 8 110 50 150 7.65e-28 102
MS.gene017874.t1 AT1G24230 37.963 108 62 3 3 109 120 223 7.29e-18 78.2
MS.gene017874.t1 AT1G27280 36.364 99 62 1 2 99 114 212 2.26e-14 68.6
MS.gene017874.t1 AT5G35610 40.187 107 49 3 3 98 44 146 5.95e-14 65.9
MS.gene017874.t1 AT1G70030 53.125 64 27 2 8 69 61 123 2.18e-11 58.9
MS.gene017874.t1 AT1G70030 54.386 57 25 1 8 64 61 116 4.44e-11 57.8

Find 44 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATGTTTACAAGTCATTTA+TGG 0.140196 7.3:+17754774 MS.gene017874:CDS
CTCATGGCCCTTTGGCAAAA+AGG 0.248205 7.3:-17754542 None:intergenic
CAAGAAGATCCGGGTGGTTT+TGG 0.249415 7.3:-17754978 None:intergenic
TCTTTGTAGACCAGGGTGAT+AGG 0.392252 7.3:-17754829 None:intergenic
TTGTATGAGTGCACTGCAAA+GGG 0.421632 7.3:-17755141 None:intergenic
GAGTTATGTGAACACGATAA+AGG 0.446913 7.3:+17754630 MS.gene017874:CDS
AGGGTAATCTCATGGCCCTT+TGG 0.451315 7.3:-17754550 None:intergenic
ACTGCAAAGGGGTATGTCTC+AGG 0.456330 7.3:-17755129 None:intergenic
AACCACCCGGATCTTCTTGA+AGG 0.457397 7.3:+17754982 MS.gene017874:CDS
TGGTTGAGGTTGCTCATCCT+CGG 0.459938 7.3:-17754578 None:intergenic
CAGGTACTTTCCCTCTTGGT+AGG 0.460534 7.3:-17755238 None:intergenic
ACTCAGCATCAGTGGGGAAG+GGG 0.462185 7.3:+17755090 MS.gene017874:intron
CACATACCTCTTTGTAGACC+AGG 0.470385 7.3:-17754837 None:intergenic
TGTCATAGAGACTTGATCTT+GGG 0.471551 7.3:+17754511 MS.gene017874:CDS
ACATCAGGTACTTTCCCTCT+TGG 0.471918 7.3:-17755242 None:intergenic
ATAAACCCTTCAAGAAGATC+CGG 0.477187 7.3:-17754988 None:intergenic
AAACTCAGCATCAGTGGGGA+AGG 0.485203 7.3:+17755088 MS.gene017874:intron
TTTATGCAGACTCGGTTTCA+GGG 0.487740 7.3:+17754745 MS.gene017874:intron
AGGTACTTTCCCTCTTGGTA+GGG 0.505190 7.3:-17755237 None:intergenic
ATGTCATAGAGACTTGATCT+TGG 0.511171 7.3:+17754510 MS.gene017874:CDS
AACTCAGCATCAGTGGGGAA+GGG 0.528339 7.3:+17755089 MS.gene017874:intron
CTATAAAACTCAGCATCAGT+GGG 0.537356 7.3:+17755083 MS.gene017874:intron
CTCAGCATCAGTGGGGAAGG+GGG 0.538394 7.3:+17755091 MS.gene017874:intron
TTGCTCATCCTCGGACGAAA+GGG 0.539598 7.3:-17754569 None:intergenic
CTTGTATGAGTGCACTGCAA+AGG 0.547650 7.3:-17755142 None:intergenic
GTTGCTCATCCTCGGACGAA+AGG 0.549267 7.3:-17754570 None:intergenic
ACCACCCGGATCTTCTTGAA+GGG 0.554045 7.3:+17754983 MS.gene017874:CDS
GCTATAAAACTCAGCATCAG+TGG 0.557331 7.3:+17755082 MS.gene017874:intron
TATATTCATCCTTCGAGCAA+TGG 0.563072 7.3:+17755166 MS.gene017874:CDS
CATATTGAATACGTACAGAA+AGG 0.566699 7.3:+17754798 MS.gene017874:CDS
CGGACGAAAGGGTAATCTCA+TGG 0.581909 7.3:-17754558 None:intergenic
TGAGATTACCCTTTCGTCCG+AGG 0.584557 7.3:+17754561 MS.gene017874:CDS
TAAACCCTTCAAGAAGATCC+GGG 0.599628 7.3:-17754987 None:intergenic
TGCATTCTTCCAAAACCACC+CGG 0.599692 7.3:+17754969 MS.gene017874:CDS
TTTGAGGTGCCCTACCAAGA+GGG 0.609334 7.3:+17755228 MS.gene017874:CDS
TCATTGACACCATTGCTCGA+AGG 0.620805 7.3:-17755175 None:intergenic
ATTTGTAGAGTTGATACTGA+TGG 0.633224 7.3:+17754457 MS.gene017874:intron
GGAAAGTAAGCCTATCACCC+TGG 0.646683 7.3:+17754819 MS.gene017874:CDS
TATCACCCTGGTCTACAAAG+AGG 0.680013 7.3:+17754831 MS.gene017874:CDS
ACATACCTCTTTGTAGACCA+GGG 0.680303 7.3:-17754836 None:intergenic
TGGTGTCATTGAAAGAGTGA+AGG 0.685356 7.3:+17754477 MS.gene017874:CDS
TGTATGAGTGCACTGCAAAG+GGG 0.718580 7.3:-17755140 None:intergenic
ACCCTTCAAGAAGATCCGGG+TGG 0.747614 7.3:-17754984 None:intergenic
TATAAAACTCAGCATCAGTG+GGG 0.747821 7.3:+17755084 MS.gene017874:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTGTTTTTGTATATATATT+GGG + chr7.3:17754382-17754401 MS.gene017874:intron 15.0%
!! ATATATATACAAAAACAACG+TGG - chr7.3:17754381-17754400 None:intergenic 20.0%
!!! AATTGATTTGTTTATCCTTT+TGG + chr7.3:17754431-17754450 MS.gene017874:intron 20.0%
!!! CGTTGTTTTTGTATATATAT+TGG + chr7.3:17754381-17754400 MS.gene017874:intron 20.0%
!!! TAAAATTCAACCTTCTTTTT+TGG - chr7.3:17754601-17754620 None:intergenic 20.0%
! TAGAATGTTTGTGAGTTTAA+TGG + chr7.3:17754654-17754673 MS.gene017874:intron 25.0%
! TCATGTTTACAAGTCATTTA+TGG + chr7.3:17754774-17754793 MS.gene017874:CDS 25.0%
! TTTGTATATATATTGGGAGA+GGG + chr7.3:17754388-17754407 MS.gene017874:intron 25.0%
!! TTTTGTATATATATTGGGAG+AGG + chr7.3:17754387-17754406 MS.gene017874:intron 25.0%
!!! AAGTTAACCATTACTTTTTG+AGG + chr7.3:17755212-17755231 MS.gene017874:CDS 25.0%
!!! AGTTTTAGTTTTGAGCTTAA+TGG + chr7.3:17754716-17754735 MS.gene017874:intron 25.0%
CATATTGAATACGTACAGAA+AGG + chr7.3:17754798-17754817 MS.gene017874:CDS 30.0%
! ATTTAACACCTTTTTGCCAA+AGG + chr7.3:17754534-17754553 MS.gene017874:CDS 30.0%
! TTTAACACCTTTTTGCCAAA+GGG + chr7.3:17754535-17754554 MS.gene017874:CDS 30.0%
!! ATTTGTAGAGTTGATACTGA+TGG + chr7.3:17754457-17754476 MS.gene017874:intron 30.0%
AACTCTACAAATGCACCAAA+AGG - chr7.3:17754449-17754468 None:intergenic 35.0%
ATAAACCCTTCAAGAAGATC+CGG - chr7.3:17754991-17755010 None:intergenic 35.0%
ATGTCATAGAGACTTGATCT+TGG + chr7.3:17754510-17754529 MS.gene017874:CDS 35.0%
CTATAAAACTCAGCATCAGT+GGG + chr7.3:17755083-17755102 MS.gene017874:intron 35.0%
GAGTTATGTGAACACGATAA+AGG + chr7.3:17754630-17754649 MS.gene017874:CDS 35.0%
GTCAGGAAAATCTGTAATGT+TGG + chr7.3:17754868-17754887 MS.gene017874:intron 35.0%
TATAAAACTCAGCATCAGTG+GGG + chr7.3:17755084-17755103 MS.gene017874:intron 35.0%
TATATTCATCCTTCGAGCAA+TGG + chr7.3:17755166-17755185 MS.gene017874:CDS 35.0%
TGTCATAGAGACTTGATCTT+GGG + chr7.3:17754511-17754530 MS.gene017874:CDS 35.0%
!!! TCAACCTTCTTTTTTGGTTG+AGG - chr7.3:17754595-17754614 None:intergenic 35.0%
AATCATGATTGCACTTCTCC+AGG + chr7.3:17754942-17754961 MS.gene017874:intron 40.0%
ACATACCTCTTTGTAGACCA+GGG - chr7.3:17754839-17754858 None:intergenic 40.0%
CACAGCAATATGTCAAGTAC+TGG - chr7.3:17754911-17754930 None:intergenic 40.0%
GAAACCGAGTCTGCATAAAA+AGG - chr7.3:17754744-17754763 None:intergenic 40.0%
GCAACCTCAACCAAAAAAGA+AGG + chr7.3:17754588-17754607 MS.gene017874:CDS 40.0%
GCTATAAAACTCAGCATCAG+TGG + chr7.3:17755082-17755101 MS.gene017874:intron 40.0%
TAAACCCTTCAAGAAGATCC+GGG - chr7.3:17754990-17755009 None:intergenic 40.0%
TTGTATGAGTGCACTGCAAA+GGG - chr7.3:17755144-17755163 None:intergenic 40.0%
! AGGTATGTGCTGTTATAGTC+AGG + chr7.3:17754851-17754870 MS.gene017874:intron 40.0%
! GGTTCCTTTTTATGCAGACT+CGG + chr7.3:17754737-17754756 MS.gene017874:intron 40.0%
! GTGTTGCGTAATTTTCGTGT+TGG + chr7.3:17755055-17755074 MS.gene017874:intron 40.0%
! TAGGGCACCTCAAAAAGTAA+TGG - chr7.3:17755222-17755241 None:intergenic 40.0%
! TTCATCTGTGTCGTGTTGAT+TGG + chr7.3:17755010-17755029 MS.gene017874:intron 40.0%
! TTTATGCAGACTCGGTTTCA+GGG + chr7.3:17754745-17754764 MS.gene017874:intron 40.0%
!! AGCAATATGTCAAGTACTGG+AGG - chr7.3:17754908-17754927 None:intergenic 40.0%
!! TGGTGTCATTGAAAGAGTGA+AGG + chr7.3:17754477-17754496 MS.gene017874:CDS 40.0%
!! TTTTATGCAGACTCGGTTTC+AGG + chr7.3:17754744-17754763 MS.gene017874:intron 40.0%
AGGTACTTTCCCTCTTGGTA+GGG - chr7.3:17755240-17755259 None:intergenic 45.0%
CACATACCTCTTTGTAGACC+AGG - chr7.3:17754840-17754859 None:intergenic 45.0%
CTTGTATGAGTGCACTGCAA+AGG - chr7.3:17755145-17755164 None:intergenic 45.0%
TATCACCCTGGTCTACAAAG+AGG + chr7.3:17754831-17754850 MS.gene017874:CDS 45.0%
TCATTGACACCATTGCTCGA+AGG - chr7.3:17755178-17755197 None:intergenic 45.0%
TCTTTGTAGACCAGGGTGAT+AGG - chr7.3:17754832-17754851 None:intergenic 45.0%
TGCATTCTTCCAAAACCACC+CGG + chr7.3:17754969-17754988 MS.gene017874:CDS 45.0%
TGTATGAGTGCACTGCAAAG+GGG - chr7.3:17755143-17755162 None:intergenic 45.0%
TTTGGAAGAATGCAGCAACC+TGG - chr7.3:17754963-17754982 None:intergenic 45.0%
!! ATCTGTGTCGTGTTGATTGG+CGG + chr7.3:17755013-17755032 MS.gene017874:intron 45.0%
AAACTCAGCATCAGTGGGGA+AGG + chr7.3:17755088-17755107 MS.gene017874:intron 50.0%
AACCACCCGGATCTTCTTGA+AGG + chr7.3:17754982-17755001 MS.gene017874:CDS 50.0%
AACTCAGCATCAGTGGGGAA+GGG + chr7.3:17755089-17755108 MS.gene017874:intron 50.0%
ACCACCCGGATCTTCTTGAA+GGG + chr7.3:17754983-17755002 MS.gene017874:CDS 50.0%
AGGGTAATCTCATGGCCCTT+TGG - chr7.3:17754553-17754572 None:intergenic 50.0%
CAGGTACTTTCCCTCTTGGT+AGG - chr7.3:17755241-17755260 None:intergenic 50.0%
CGGACGAAAGGGTAATCTCA+TGG - chr7.3:17754561-17754580 None:intergenic 50.0%
CTCATGGCCCTTTGGCAAAA+AGG - chr7.3:17754545-17754564 None:intergenic 50.0%
GGAAAGTAAGCCTATCACCC+TGG + chr7.3:17754819-17754838 MS.gene017874:CDS 50.0%
TGAGATTACCCTTTCGTCCG+AGG + chr7.3:17754561-17754580 MS.gene017874:CDS 50.0%
TGGTTGAGGTTGCTCATCCT+CGG - chr7.3:17754581-17754600 None:intergenic 50.0%
TTGCTCATCCTCGGACGAAA+GGG - chr7.3:17754572-17754591 None:intergenic 50.0%
! ACTGCAAAGGGGTATGTCTC+AGG - chr7.3:17755132-17755151 None:intergenic 50.0%
! CAAGAAGATCCGGGTGGTTT+TGG - chr7.3:17754981-17755000 None:intergenic 50.0%
! TTTGAGGTGCCCTACCAAGA+GGG + chr7.3:17755228-17755247 MS.gene017874:CDS 50.0%
!!! TTTTGAGGTGCCCTACCAAG+AGG + chr7.3:17755227-17755246 MS.gene017874:CDS 50.0%
ACCCTTCAAGAAGATCCGGG+TGG - chr7.3:17754987-17755006 None:intergenic 55.0%
ACTCAGCATCAGTGGGGAAG+GGG + chr7.3:17755090-17755109 MS.gene017874:intron 55.0%
GTTGCTCATCCTCGGACGAA+AGG - chr7.3:17754573-17754592 None:intergenic 55.0%
!! TCGTGTTGATTGGCGGTGAC+TGG + chr7.3:17755020-17755039 MS.gene017874:intron 55.0%
CTCAGCATCAGTGGGGAAGG+GGG + chr7.3:17755091-17755110 MS.gene017874:intron 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 17754370 17755261 17754370 ID=MS.gene017874
chr7.3 mRNA 17754370 17755261 17754370 ID=MS.gene017874.t1;Parent=MS.gene017874
chr7.3 exon 17754370 17754374 17754370 ID=MS.gene017874.t1.exon1;Parent=MS.gene017874.t1
chr7.3 CDS 17754370 17754374 17754370 ID=cds.MS.gene017874.t1;Parent=MS.gene017874.t1
chr7.3 exon 17754465 17754651 17754465 ID=MS.gene017874.t1.exon2;Parent=MS.gene017874.t1
chr7.3 CDS 17754465 17754651 17754465 ID=cds.MS.gene017874.t1;Parent=MS.gene017874.t1
chr7.3 exon 17754754 17754852 17754754 ID=MS.gene017874.t1.exon3;Parent=MS.gene017874.t1
chr7.3 CDS 17754754 17754852 17754754 ID=cds.MS.gene017874.t1;Parent=MS.gene017874.t1
chr7.3 exon 17754964 17755004 17754964 ID=MS.gene017874.t1.exon4;Parent=MS.gene017874.t1
chr7.3 CDS 17754964 17755004 17754964 ID=cds.MS.gene017874.t1;Parent=MS.gene017874.t1
chr7.3 exon 17755096 17755261 17755096 ID=MS.gene017874.t1.exon5;Parent=MS.gene017874.t1
chr7.3 CDS 17755096 17755261 17755096 ID=cds.MS.gene017874.t1;Parent=MS.gene017874.t1
Gene Sequence

>MS.gene017874

ATGTTGTACCACGTTGTTTTTGTATATATATTGGGAGAGGGATTATGAATTTGTTAGTTGTAATTGATTTGTTTATCCTTTTGGTGCATTTGTAGAGTTGATACTGATGGTGTCATTGAAAGAGTGAAGGAACTTTTTAGATGTCATAGAGACTTGATCTTGGGATTTAACACCTTTTTGCCAAAGGGCCATGAGATTACCCTTTCGTCCGAGGATGAGCAACCTCAACCAAAAAAGAAGGTTGAATTTTATGAAGCTACGAGTTATGTGAACACGATAAAGGTTAGAATGTTTGTGAGTTTAATGGATTCTCTTCATGCAGATTTGTTTGCAATGTAGAATTAATAGTTTTAGTTTTGAGCTTAATGGTTCCTTTTTATGCAGACTCGGTTTCAGGGCGATGTTCATGTTTACAAGTCATTTATGGACATATTGAATACGTACAGAAAGGAAAGTAAGCCTATCACCCTGGTCTACAAAGAGGTATGTGCTGTTATAGTCAGGAAAATCTGTAATGTTGGTTTTTTTTTTATTTCCTCCAGTACTTGACATATTGCTGTGATACACATTTTAATCATGATTGCACTTCTCCAGGTTGCTGCATTCTTCCAAAACCACCCGGATCTTCTTGAAGGGTTTATTCATCTGTGTCGTGTTGATTGGCGGTGACTGGAAAGCTATCTGTGTGTTGCGTAATTTTCGTGTTGGTCATGCTATAAAACTCAGCATCAGTGGGGAAGGGGGTGCTGATGTTGTGTACCTGAGACATACCCCTTTGCAGTGCACTCATACAAGCTATATTCATCCTTCGAGCAATGGTGTCAATGAGAAATTTGTATATCAAGTTAACCATTACTTTTTGAGGTGCCCTACCAAGAGGGAAAGTACCTGA
Protein sequence

>MS.gene017874.t1

MLVDTDGVIERVKELFRCHRDLILGFNTFLPKGHEITLSSEDEQPQPKKKVEFYEATSYVNTIKTRFQGDVHVYKSFMDILNTYRKESKPITLVYKEVAAFFQNHPDLLEGISGEGGADVVYLRHTPLQCTHTSYIHPSSNGVNEKFVYQVNHYFLRCPTKREST