AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene031283

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031283.t1 MTR_2g082510 94.697 132 7 0 1 132 1 132 6.50e-86 246
MS.gene031283.t1 MTR_2g082220 94.697 132 6 1 1 132 1 131 6.88e-85 244
MS.gene031283.t1 MTR_7g108320 85.600 125 14 1 3 127 13 133 3.66e-70 207
MS.gene031283.t1 MTR_7g114060 85.600 125 14 1 3 127 10 130 4.00e-70 207
MS.gene031283.t1 MTR_7g114040 85.600 125 14 1 3 127 10 130 4.00e-70 207
MS.gene031283.t1 MTR_7g093910 79.200 125 22 1 3 127 13 133 1.38e-67 201
MS.gene031283.t1 MTR_2g096610 78.704 108 23 0 14 121 20 127 2.07e-58 177
MS.gene031283.t1 MTR_7g113160 78.378 111 24 0 11 121 21 131 2.15e-58 177
MS.gene031283.t1 MTR_4g063280 77.982 109 24 0 14 122 16 124 3.83e-57 174
MS.gene031283.t1 MTR_4g064005 78.302 106 23 0 16 121 24 129 2.86e-56 172
MS.gene031283.t1 MTR_7g114050 80.508 118 10 3 13 130 18 122 3.80e-56 171
MS.gene031283.t1 MTR_4g071150 77.570 107 24 0 16 122 24 130 4.32e-56 172
MS.gene031283.t1 MTR_4g064967 78.302 106 23 0 16 121 24 129 4.84e-56 172
MS.gene031283.t1 MTR_8g086640 77.570 107 24 0 16 122 24 130 5.16e-56 172
MS.gene031283.t1 MTR_2g096570 77.570 107 24 0 16 122 23 129 5.61e-56 172
MS.gene031283.t1 MTR_4g063410 77.358 106 24 0 16 121 24 129 1.08e-55 171
MS.gene031283.t1 MTR_6g005150 63.303 109 31 2 16 123 26 126 1.01e-40 132
MS.gene031283.t1 MTR_1g011750 64.545 110 37 2 14 122 24 132 2.00e-40 132
MS.gene031283.t1 MTR_1g011850 64.545 110 37 2 14 122 24 132 2.00e-40 132
MS.gene031283.t1 MTR_1g114050 58.462 130 45 4 1 122 1 129 3.53e-39 128
MS.gene031283.t1 MTR_1g071040 64.486 107 36 2 17 122 27 132 1.31e-38 127
MS.gene031283.t1 MTR_4g063300 78.378 74 16 0 37 110 10 83 6.44e-35 117
MS.gene031283.t1 MTR_4g005910 89.091 55 6 0 78 132 3 57 2.00e-29 101
MS.gene031283.t1 MTR_7g010440 90.566 53 5 0 70 122 122 174 6.08e-26 99.0
MS.gene031283.t1 MTR_1g069770 50.685 73 36 0 59 131 32 104 3.20e-20 79.7
MS.gene031283.t1 MTR_4g048490 45.714 105 28 2 16 120 26 101 1.99e-19 77.8
MS.gene031283.t1 MTR_7g027610 44.545 110 35 2 14 122 12 96 3.03e-17 72.0
MS.gene031283.t1 MTR_0653s0030 54.717 53 24 0 47 99 43 95 1.42e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031283.t1 AT1G51060 93.939 132 8 0 1 132 1 132 4.79e-86 247
MS.gene031283.t1 AT4G27230 95.420 131 6 0 1 131 1 131 8.47e-86 246
MS.gene031283.t1 AT4G27230 95.420 131 6 0 1 131 1 131 8.47e-86 246
MS.gene031283.t1 AT5G54640 98.413 126 2 0 1 126 1 126 7.28e-85 244
MS.gene031283.t1 AT3G20670 91.667 132 11 0 1 132 1 132 2.21e-83 240
MS.gene031283.t1 AT1G54690 84.496 129 17 1 2 127 5 133 8.35e-71 209
MS.gene031283.t1 AT1G08880 83.721 129 18 1 2 127 5 133 1.80e-70 208
MS.gene031283.t1 AT5G59870 76.852 108 25 0 15 122 23 130 1.06e-57 176
MS.gene031283.t1 AT5G27670 73.333 120 32 0 11 130 20 139 6.18e-57 174
MS.gene031283.t1 AT5G02560 77.064 109 25 0 14 122 22 130 8.85e-57 174
MS.gene031283.t1 AT5G02560 63.158 133 25 1 14 122 22 154 2.66e-51 160
MS.gene031283.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene031283.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene031283.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene031283.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene031283.t1 AT1G52740 63.208 106 37 2 18 122 28 132 7.00e-38 125
MS.gene031283.t1 AT3G54560 62.500 104 37 2 18 120 30 132 2.75e-36 121
MS.gene031283.t1 AT3G54560 62.500 104 37 2 18 120 30 132 2.75e-36 121
MS.gene031283.t1 AT4G13570 44.037 109 59 2 7 114 17 124 2.17e-22 85.9
MS.gene031283.t1 AT4G13570 50.000 92 44 2 24 114 28 118 5.18e-22 84.7

Find 41 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAACAAGTTGTGAATATT+TGG 0.203212 2.1:+18377186 None:intergenic
TTGGAAGGACCAGCTTTCTT+TGG 0.296401 2.1:+18377162 None:intergenic
GAAGAATTGAGCAAGCTTCT+TGG 0.376859 2.1:-18377240 MS.gene031283:CDS
AGTACGGCGGCGAGGTAAAC+AGG 0.402491 2.1:+18377576 None:intergenic
AACCGAGCGATACGGCCAAC+GGG 0.422056 2.1:+18377642 None:intergenic
TCCCCGTTGGCCGTATCGCT+CGG 0.440290 2.1:-18377644 MS.gene031283:CDS
GGTGATGTTACCATTGCTAA+TGG 0.441296 2.1:-18377219 MS.gene031283:CDS
TGTGCCAAGGCACATTCAAT+TGG 0.445049 2.1:-18377277 MS.gene031283:CDS
TTCATCTTCAGCAGCACCCT+TGG 0.446246 2.1:+18377143 None:intergenic
AGAGGCAAAACCCTTGGTTC+CGG 0.465510 2.1:-18377714 MS.gene031283:CDS
TTGTTGCTTCCAAAGAAAGC+TGG 0.506478 2.1:-18377171 MS.gene031283:CDS
TCAATCTCTTCATCAATGGC+TGG 0.508829 2.1:-18377738 None:intergenic
ACCTCAAGAAGCAGCAAAGC+CGG 0.509169 2.1:-18377675 MS.gene031283:CDS
AAAGAAAGCTGGTCCTTCCA+AGG 0.525187 2.1:-18377160 MS.gene031283:CDS
ACCGGCTTTGCTGCTTCTTG+AGG 0.537253 2.1:+18377674 None:intergenic
TCTTCATCAATGGCTGGTAG+AGG 0.543571 2.1:-18377732 None:intergenic
ATCGCTCGGTTCCTCAAAGC+CGG 0.550014 2.1:-18377630 MS.gene031283:CDS
CTTTGAGGAACCGAGCGATA+CGG 0.551489 2.1:+18377634 None:intergenic
CTTAGCAGCACCGGAACCAA+GGG 0.561448 2.1:+18377704 None:intergenic
GGAAAATACGCTGAACGTGT+TGG 0.561927 2.1:-18377609 MS.gene031283:CDS
TACGCTGAACGTGTTGGTGC+TGG 0.564093 2.1:-18377603 MS.gene031283:CDS
TCTTAGCAGCACCGGAACCA+AGG 0.565384 2.1:+18377703 None:intergenic
GCCGGTCTTCAATTCCCCGT+TGG 0.566444 2.1:-18377657 MS.gene031283:CDS
TCTTCAGCAGCACCCTTGGA+AGG 0.566645 2.1:+18377147 None:intergenic
GCTGGTAGAGGCAAAACCCT+TGG 0.567239 2.1:-18377720 MS.gene031283:CDS
ACAGCCAATTGAATGTGCCT+TGG 0.575552 2.1:+18377273 None:intergenic
AAGAAAGCTGGTCCTTCCAA+GGG 0.587991 2.1:-18377159 MS.gene031283:CDS
ACTCGAATATCTCGCTGCTG+AGG 0.598991 2.1:-18377556 MS.gene031283:intron
GAACCGAGCGATACGGCCAA+CGG 0.602999 2.1:+18377641 None:intergenic
GGTAGCTTTCTTAGCAGCAC+CGG 0.622435 2.1:+18377695 None:intergenic
GGCACATTCAATTGGCTGTG+AGG 0.623764 2.1:-18377269 MS.gene031283:CDS
GCCAACGGGGAATTGAAGAC+CGG 0.624424 2.1:+18377656 None:intergenic
GTTGGCTGGAAATGCTGCAA+GGG 0.629600 2.1:-18377319 MS.gene031283:CDS
AGCAGCGAGATATTCGAGTA+CGG 0.637094 2.1:+18377560 None:intergenic
CATAACACCACCATTAGCAA+TGG 0.644464 2.1:+18377209 None:intergenic
AGTTGGCTGGAAATGCTGCA+AGG 0.665089 2.1:-18377320 MS.gene031283:CDS
GATGTTACCATTGCTAATGG+TGG 0.667704 2.1:-18377216 MS.gene031283:CDS
AGAAAACAAGAATTGTGCCA+AGG 0.670789 2.1:-18377290 MS.gene031283:CDS
GATATTCGAGTACGGCGGCG+AGG 0.699553 2.1:+18377568 None:intergenic
ACCGAGCGATACGGCCAACG+GGG 0.712861 2.1:+18377643 None:intergenic
AGCGAGATATTCGAGTACGG+CGG 0.756711 2.1:+18377563 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCAATAATTACTAAAAT+TGG + chr2.1:18377415-18377434 None:intergenic 10.0%
!!! AATTTGTGATTTTTGTGATT+AGG - chr2.1:18377514-18377533 MS.gene031283:intron 20.0%
! TAGGGTTTCTTAATTCAATT+AGG - chr2.1:18377383-18377402 MS.gene031283:intron 25.0%
!! TGATTTTTGTGATTAGGTTT+TGG - chr2.1:18377520-18377539 MS.gene031283:intron 25.0%
!! TGTTGAATTTGAAGTGATTT+GGG - chr2.1:18377471-18377490 MS.gene031283:intron 25.0%
!! TTGTTGAATTTGAAGTGATT+TGG - chr2.1:18377470-18377489 MS.gene031283:intron 25.0%
AGCAACAAGTTGTGAATATT+TGG + chr2.1:18377680-18377699 None:intergenic 30.0%
AGAAAACAAGAATTGTGCCA+AGG - chr2.1:18377573-18377592 MS.gene031283:CDS 35.0%
ATATTGAAGGTGAAAGAAGG+TGG + chr2.1:18377345-18377364 None:intergenic 35.0%
GAATTAAGAAACCCTAGATC+TGG + chr2.1:18377379-18377398 None:intergenic 35.0%
GGTTATGTGTGTGATATTGA+AGG + chr2.1:18377358-18377377 None:intergenic 35.0%
GTGATATTGAAGGTGAAAGA+AGG + chr2.1:18377348-18377367 None:intergenic 35.0%
!! GAAGTGATTTGGGTTGATTA+GGG - chr2.1:18377481-18377500 MS.gene031283:intron 35.0%
!! TGAAGTGATTTGGGTTGATT+AGG - chr2.1:18377480-18377499 MS.gene031283:intron 35.0%
!!! TTGTGATTAGGTTTTGGAGT+TGG - chr2.1:18377526-18377545 MS.gene031283:intron 35.0%
CACACACATAACCAGATCTA+GGG - chr2.1:18377365-18377384 MS.gene031283:intron 40.0%
CATAACACCACCATTAGCAA+TGG + chr2.1:18377657-18377676 None:intergenic 40.0%
GAAGAATTGAGCAAGCTTCT+TGG - chr2.1:18377623-18377642 MS.gene031283:CDS 40.0%
GATGTTACCATTGCTAATGG+TGG - chr2.1:18377647-18377666 MS.gene031283:CDS 40.0%
GGTGATGTTACCATTGCTAA+TGG - chr2.1:18377644-18377663 MS.gene031283:CDS 40.0%
TCACACACATAACCAGATCT+AGG - chr2.1:18377364-18377383 MS.gene031283:intron 40.0%
! AACACGTTCAGCGTATTTTC+CGG + chr2.1:18377255-18377274 None:intergenic 40.0%
! TTGTTGCTTCCAAAGAAAGC+TGG - chr2.1:18377692-18377711 MS.gene031283:CDS 40.0%
AAAGAAAGCTGGTCCTTCCA+AGG - chr2.1:18377703-18377722 MS.gene031283:CDS 45.0%
AAGAAAGCTGGTCCTTCCAA+GGG - chr2.1:18377704-18377723 MS.gene031283:CDS 45.0%
AAGGTGAAAGAAGGTGGTGA+TGG + chr2.1:18377339-18377358 None:intergenic 45.0%
ACAGCCAATTGAATGTGCCT+TGG + chr2.1:18377593-18377612 None:intergenic 45.0%
AGCAGCGAGATATTCGAGTA+CGG + chr2.1:18377306-18377325 None:intergenic 45.0%
GGAAAATACGCTGAACGTGT+TGG - chr2.1:18377254-18377273 MS.gene031283:CDS 45.0%
TGTGCCAAGGCACATTCAAT+TGG - chr2.1:18377586-18377605 MS.gene031283:CDS 45.0%
TTGGAAGGACCAGCTTTCTT+TGG + chr2.1:18377704-18377723 None:intergenic 45.0%
!!! GATTAGGTTTTGGAGTTGGC+TGG - chr2.1:18377530-18377549 MS.gene031283:intron 45.0%
ACCTCAAGAAGCAGCAAAGC+CGG - chr2.1:18377188-18377207 MS.gene031283:CDS 50.0%
ACTCGAATATCTCGCTGCTG+AGG - chr2.1:18377307-18377326 MS.gene031283:CDS 50.0%
AGAGGCAAAACCCTTGGTTC+CGG - chr2.1:18377149-18377168 MS.gene031283:CDS 50.0%
AGCGAGATATTCGAGTACGG+CGG + chr2.1:18377303-18377322 None:intergenic 50.0%
AGTTGGCTGGAAATGCTGCA+AGG - chr2.1:18377543-18377562 MS.gene031283:intron 50.0%
GGCACATTCAATTGGCTGTG+AGG - chr2.1:18377594-18377613 MS.gene031283:CDS 50.0%
GGTAGCTTTCTTAGCAGCAC+CGG + chr2.1:18377171-18377190 None:intergenic 50.0%
GTTGGCTGGAAATGCTGCAA+GGG - chr2.1:18377544-18377563 MS.gene031283:intron 50.0%
TTCATCTTCAGCAGCACCCT+TGG + chr2.1:18377723-18377742 None:intergenic 50.0%
! CAGCGTATTTTCCGGCTTTG+AGG + chr2.1:18377247-18377266 None:intergenic 50.0%
! CTTTGAGGAACCGAGCGATA+CGG + chr2.1:18377232-18377251 None:intergenic 50.0%
ATCGCTCGGTTCCTCAAAGC+CGG - chr2.1:18377233-18377252 MS.gene031283:CDS 55.0%
GCCAACGGGGAATTGAAGAC+CGG + chr2.1:18377210-18377229 None:intergenic 55.0%
GCTGGTAGAGGCAAAACCCT+TGG - chr2.1:18377143-18377162 MS.gene031283:CDS 55.0%
TCTTCAGCAGCACCCTTGGA+AGG + chr2.1:18377719-18377738 None:intergenic 55.0%
! ACCGGCTTTGCTGCTTCTTG+AGG + chr2.1:18377192-18377211 None:intergenic 55.0%
! CTTAGCAGCACCGGAACCAA+GGG + chr2.1:18377162-18377181 None:intergenic 55.0%
! TACGCTGAACGTGTTGGTGC+TGG - chr2.1:18377260-18377279 MS.gene031283:CDS 55.0%
! TCTTAGCAGCACCGGAACCA+AGG + chr2.1:18377163-18377182 None:intergenic 55.0%
AACCGAGCGATACGGCCAAC+GGG + chr2.1:18377224-18377243 None:intergenic 60.0%
AGTACGGCGGCGAGGTAAAC+AGG + chr2.1:18377290-18377309 None:intergenic 60.0%
GAACCGAGCGATACGGCCAA+CGG + chr2.1:18377225-18377244 None:intergenic 60.0%
GATATTCGAGTACGGCGGCG+AGG + chr2.1:18377298-18377317 None:intergenic 60.0%
GCCGGTCTTCAATTCCCCGT+TGG - chr2.1:18377206-18377225 MS.gene031283:CDS 60.0%
ACCGAGCGATACGGCCAACG+GGG + chr2.1:18377223-18377242 None:intergenic 65.0%
TCCCCGTTGGCCGTATCGCT+CGG - chr2.1:18377219-18377238 MS.gene031283:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 18377140 18377745 18377140 ID=MS.gene031283
chr2.1 mRNA 18377140 18377745 18377140 ID=MS.gene031283.t1;Parent=MS.gene031283
chr2.1 exon 18377557 18377745 18377557 ID=MS.gene031283.t1.exon1;Parent=MS.gene031283.t1
chr2.1 CDS 18377557 18377745 18377557 ID=cds.MS.gene031283.t1;Parent=MS.gene031283.t1
chr2.1 exon 18377140 18377349 18377140 ID=MS.gene031283.t1.exon2;Parent=MS.gene031283.t1
chr2.1 CDS 18377140 18377349 18377140 ID=cds.MS.gene031283.t1;Parent=MS.gene031283.t1
Gene Sequence

>MS.gene031283

ATGGCTGGTAGAGGCAAAACCCTTGGTTCCGGTGCTGCTAAGAAAGCTACCTCAAGAAGCAGCAAAGCCGGTCTTCAATTCCCCGTTGGCCGTATCGCTCGGTTCCTCAAAGCCGGAAAATACGCTGAACGTGTTGGTGCTGGTGCTCCTGTTTACCTCGCCGCCGTACTCGAATATCTCGCTGCTGAGGTAATTTCCATCACCACCTTCTTTCACCTTCAATATCACACACATAACCAGATCTAGGGTTTCTTAATTCAATTAGGTTTTCTCCAATTTTAGTAATTATTGATAATTTTTTTATTAAATTTCAGCTTAAATTGAATATGTTTGTTGAATTTGAAGTGATTTGGGTTGATTAGGGTTTTGAATTGAATTTGTGATTTTTGTGATTAGGTTTTGGAGTTGGCTGGAAATGCTGCAAGGGACAACAAGAAAACAAGAATTGTGCCAAGGCACATTCAATTGGCTGTGAGGAATGATGAAGAATTGAGCAAGCTTCTTGGTGATGTTACCATTGCTAATGGTGGTGTTATGCCAAATATTCACAACTTGTTGCTTCCAAAGAAAGCTGGTCCTTCCAAGGGTGCTGCTGAAGATGAATGA
Protein sequence

>MS.gene031283.t1

MAGRGKTLGSGAAKKATSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHNLLLPKKAGPSKGAAEDE