AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056647


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056647.t1 MTR_4g068860 93.750 160 2 1 1 152 1 160 8.55e-106 299
MS.gene056647.t1 MTR_4g068870 79.333 150 23 1 8 149 48 197 2.47e-81 239
MS.gene056647.t1 MTR_4g068870 79.333 150 23 1 8 149 131 280 3.47e-80 239
MS.gene056647.t1 MTR_4g068870 84.404 109 17 0 41 149 1 109 5.33e-61 190
MS.gene056647.t1 MTR_4g068870 76.923 156 28 1 2 149 171 326 6.48e-80 240
MS.gene056647.t1 MTR_4g068870 76.923 156 27 2 3 149 7 162 1.40e-77 234
MS.gene056647.t1 MTR_4g068870 79.333 150 23 1 8 149 184 333 2.27e-79 239
MS.gene056647.t1 MTR_4g068870 76.923 156 27 2 3 149 7 162 2.23e-77 233
MS.gene056647.t1 MTR_0026s0210 78.667 150 24 1 8 149 184 333 6.48e-79 237
MS.gene056647.t1 MTR_0026s0210 77.852 149 25 1 9 149 14 162 4.74e-78 235
MS.gene056647.t1 MTR_4g068860 89.256 121 5 1 1 113 1 121 1.04e-72 214
MS.gene056647.t1 MTR_1g090810 47.651 149 69 2 9 148 4 152 3.59e-35 120
MS.gene056647.t1 MTR_1g011540 46.939 147 67 3 9 148 3 145 7.56e-34 116
MS.gene056647.t1 MTR_5g041610 47.297 148 66 3 9 148 3 146 1.36e-33 115
MS.gene056647.t1 MTR_5g081030 45.270 148 69 3 9 148 3 146 1.88e-33 115
MS.gene056647.t1 MTR_5g080440 45.270 148 69 3 9 148 3 146 5.39e-33 114
MS.gene056647.t1 MTR_5g081000 46.259 147 68 3 9 148 3 145 9.95e-33 113
MS.gene056647.t1 MTR_5g066070 45.270 148 69 3 9 148 3 146 7.81e-32 111
MS.gene056647.t1 MTR_1g090820 43.919 148 72 2 9 148 3 147 7.18e-30 106
MS.gene056647.t1 MTR_5g080400 43.624 149 72 3 9 149 3 147 8.24e-30 106
MS.gene056647.t1 MTR_1g049330 41.892 148 75 2 9 148 3 147 9.09e-29 103
MS.gene056647.t1 MTR_1g090820 46.296 108 55 1 41 148 1 105 1.00e-22 86.7
MS.gene056647.t1 MTR_5g080400 44.954 109 56 2 41 149 1 105 1.96e-22 86.3
MS.gene056647.t1 MTR_5g080900 39.456 147 64 4 9 148 3 131 2.76e-22 86.3
MS.gene056647.t1 MTR_5g066070 43.519 108 49 3 9 108 3 106 7.44e-19 77.0
MS.gene056647.t1 MTR_1g090820 40.741 108 53 2 9 108 3 107 1.11e-16 71.2
MS.gene056647.t1 MTR_7g110180 41.525 118 48 5 9 120 3 105 2.79e-15 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056647.t1 AT2G16060 75.163 153 30 1 8 152 8 160 9.84e-81 235
MS.gene056647.t1 AT3G10520 51.007 149 65 1 9 149 6 154 1.31e-46 149

Find 25 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGACAAAGTTTGCACTTT+TGG 0.206749 4.3:+36362225 MS.gene056647:intron
CTACTACACCATATTTAAAA+TGG 0.249717 4.3:-36362031 None:intergenic
AAAAGATTCAAAAGTTCCTT+TGG 0.334733 4.3:+36361629 MS.gene056647:CDS
TTCTCTGACCGTGACTTTAC+CGG 0.339739 4.3:-36361982 None:intergenic
CCTTTAGAATATGGGCACTT+TGG 0.384904 4.3:+36361330 None:intergenic
TATAAACTAGAGAGTTTAAG+AGG 0.389161 4.3:-36362356 None:intergenic
AACTAGAGAGTTTAAGAGGA+AGG 0.427518 4.3:-36362352 None:intergenic
ATAGCCGGTGACCACATTTC+AGG 0.433187 4.3:-36362268 None:intergenic
GCAGTTCAATTGCGGAAATC+CGG 0.465498 4.3:+36361963 MS.gene056647:CDS
CCCCATGCATTCTTCATAGC+CGG 0.478259 4.3:-36362283 None:intergenic
TGCCATGTCTGTCTTTCTCA+TGG 0.508395 4.3:+36361677 MS.gene056647:CDS
CACCGGCTATGAAGAATGCA+TGG 0.521161 4.3:+36362281 MS.gene056647:CDS
GGGAGAAGCTTATGATCAGC+TGG 0.524272 4.3:+36362303 MS.gene056647:CDS
AAGCTCTTGTGGTGAAGTCA+TGG 0.525782 4.3:+36361380 MS.gene056647:CDS
ACCGGCTATGAAGAATGCAT+GGG 0.592597 4.3:+36362282 MS.gene056647:CDS
GTGAATCAGCAGTTCAATTG+CGG 0.612574 4.3:+36361955 MS.gene056647:CDS
CATGGCATGAGGCTTGAGCT+TGG 0.612875 4.3:-36361661 None:intergenic
GGTACCTGAAATGTGGTCAC+CGG 0.616133 4.3:+36362264 MS.gene056647:CDS
TGAAGAACAAGAAGCTCTTG+TGG 0.616139 4.3:+36361369 MS.gene056647:CDS
TTTGGAGACCATAAAAGAAG+CGG 0.616186 4.3:+36362243 MS.gene056647:CDS
GCGGAAATCCGGTAAAGTCA+CGG 0.634999 4.3:+36361974 MS.gene056647:CDS
AAGAAGCGGTACCTGAAATG+TGG 0.646045 4.3:+36362257 MS.gene056647:CDS
AGAAAGACAGACATGGCATG+AGG 0.665594 4.3:-36361672 None:intergenic
CCGGCTATGAAGAATGCATG+GGG 0.704265 4.3:+36362283 MS.gene056647:CDS
TACCATGAGAAAGACAGACA+TGG 0.720993 4.3:-36361679 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCTTATATATATATTCAAA+TGG - chr4.3:36361902-36361921 None:intergenic 10.0%
!!! ATAAGTATATTTTTTTTACT+AGG + chr4.3:36362084-36362103 MS.gene056647:intron 10.0%
!!! TAAGTATATTTTTTTTACTA+GGG + chr4.3:36362085-36362104 MS.gene056647:intron 10.0%
!!! TTTAATTTTTTGATTTTGTA+AGG + chr4.3:36362204-36362223 MS.gene056647:intron 10.0%
!! TTACATTAAAATTTGACATA+AGG + chr4.3:36362140-36362159 MS.gene056647:intron 15.0%
!! TTAAAATTTGACATAAGGTT+TGG + chr4.3:36362145-36362164 MS.gene056647:intron 20.0%
!!! CTAATTCAGTAACTAAATTT+TGG + chr4.3:36361764-36361783 MS.gene056647:intron 20.0%
! AAAAGATTCAAAAGTTCCTT+TGG + chr4.3:36361629-36361648 MS.gene056647:CDS 25.0%
! ATATATATTCAAATGGTGAG+TGG - chr4.3:36361895-36361914 None:intergenic 25.0%
! CTACTACACCATATTTAAAA+TGG - chr4.3:36362034-36362053 None:intergenic 25.0%
! GAATCAAGCTTGAAAAAATT+AGG + chr4.3:36362002-36362021 MS.gene056647:CDS 25.0%
! GCAATAACAAAATAATTAGC+TGG - chr4.3:36361929-36361948 None:intergenic 25.0%
! TTTAGTTACTGAATTAGAGA+CGG - chr4.3:36361761-36361780 None:intergenic 25.0%
! GGTGCTAACCATTTTAAATA+TGG + chr4.3:36362023-36362042 MS.gene056647:CDS 30.0%
AAATCCGTCTCTAATGTACT+CGG - chr4.3:36361791-36361810 None:intergenic 35.0%
AAGAAGAATTCTGCAGAGTT+AGG + chr4.3:36361412-36361431 MS.gene056647:intron 35.0%
TGACAAAGTCAAAGCTTGAA+TGG - chr4.3:36361865-36361884 None:intergenic 35.0%
TTTGGAGACCATAAAAGAAG+CGG + chr4.3:36362243-36362262 MS.gene056647:CDS 35.0%
GTGAATCAGCAGTTCAATTG+CGG + chr4.3:36361955-36361974 MS.gene056647:CDS 40.0%
TACCATGAGAAAGACAGACA+TGG - chr4.3:36361682-36361701 None:intergenic 40.0%
TGAAGAACAAGAAGCTCTTG+TGG + chr4.3:36361369-36361388 MS.gene056647:CDS 40.0%
! GGTGACAAAGTTTGCACTTT+TGG + chr4.3:36362225-36362244 MS.gene056647:intron 40.0%
! TGTAGTAGACGAGCATTTTG+AGG + chr4.3:36362046-36362065 MS.gene056647:CDS 40.0%
!! GAGAACAGTTTTTGAGCTGA+TGG - chr4.3:36361603-36361622 None:intergenic 40.0%
!! TTCAGGTACCGCTTCTTTTA+TGG - chr4.3:36362254-36362273 None:intergenic 40.0%
AAGAAGCGGTACCTGAAATG+TGG + chr4.3:36362257-36362276 MS.gene056647:CDS 45.0%
AAGCTCTTGTGGTGAAGTCA+TGG + chr4.3:36361380-36361399 MS.gene056647:CDS 45.0%
ACCGGCTATGAAGAATGCAT+GGG + chr4.3:36362282-36362301 MS.gene056647:CDS 45.0%
AGAAAGACAGACATGGCATG+AGG - chr4.3:36361675-36361694 None:intergenic 45.0%
AGTCAAAGCTTGAATGGTCG+TGG - chr4.3:36361859-36361878 None:intergenic 45.0%
GCAGTTCAATTGCGGAAATC+CGG + chr4.3:36361963-36361982 MS.gene056647:CDS 45.0%
TGCCATGTCTGTCTTTCTCA+TGG + chr4.3:36361677-36361696 MS.gene056647:CDS 45.0%
TGGACCGAGTACATTAGAGA+CGG + chr4.3:36361784-36361803 MS.gene056647:intron 45.0%
TTCTCTGACCGTGACTTTAC+CGG - chr4.3:36361985-36362004 None:intergenic 45.0%
!!! AGCTTGGTGTTTTGCTCCAA+AGG - chr4.3:36361648-36361667 None:intergenic 45.0%
ATAGCCGGTGACCACATTTC+AGG - chr4.3:36362271-36362290 None:intergenic 50.0%
CCCCATGCATTCTTCATAGC+CGG - chr4.3:36362286-36362305 None:intergenic 50.0%
CCGGCTATGAAGAATGCATG+GGG + chr4.3:36362283-36362302 MS.gene056647:CDS 50.0%
GCGGAAATCCGGTAAAGTCA+CGG + chr4.3:36361974-36361993 MS.gene056647:CDS 50.0%
GGGAGAAGCTTATGATCAGC+TGG + chr4.3:36362303-36362322 MS.gene056647:CDS 50.0%
GGTACCTGAAATGTGGTCAC+CGG + chr4.3:36362264-36362283 MS.gene056647:CDS 50.0%
! CACCGGCTATGAAGAATGCA+TGG + chr4.3:36362281-36362300 MS.gene056647:CDS 50.0%
CATGGCATGAGGCTTGAGCT+TGG - chr4.3:36361664-36361683 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 36361340 36362363 36361340 ID=MS.gene056647
chr4.3 mRNA 36361340 36362363 36361340 ID=MS.gene056647.t1;Parent=MS.gene056647
chr4.3 exon 36361340 36361428 36361340 ID=MS.gene056647.t1.exon1;Parent=MS.gene056647.t1
chr4.3 CDS 36361340 36361428 36361340 ID=cds.MS.gene056647.t1;Parent=MS.gene056647.t1
chr4.3 exon 36361584 36361698 36361584 ID=MS.gene056647.t1.exon2;Parent=MS.gene056647.t1
chr4.3 CDS 36361584 36361698 36361584 ID=cds.MS.gene056647.t1;Parent=MS.gene056647.t1
chr4.3 exon 36361951 36362067 36361951 ID=MS.gene056647.t1.exon3;Parent=MS.gene056647.t1
chr4.3 CDS 36361951 36362067 36361951 ID=cds.MS.gene056647.t1;Parent=MS.gene056647.t1
chr4.3 exon 36362226 36362363 36362226 ID=MS.gene056647.t1.exon4;Parent=MS.gene056647.t1
chr4.3 CDS 36362226 36362363 36362226 ID=cds.MS.gene056647.t1;Parent=MS.gene056647.t1
Gene Sequence

>MS.gene056647

ATGGGCACTTTGGATACAAAAGTTTTCACTGAAGAACAAGAAGCTCTTGTGGTGAAGTCATGGAATGCAATGAAGAAGAATTCTGCAGAGTTAGGACTAAAGCTTTTTTTTTGAAGTAAGTAGCTATGTTTTTCTTCAACATTTTTAACTCTAGAGTTTTTATTTCATTTTTTTTTTTGTGCAAGTTTTTATTTCATTTTTGTTTATTCGAAAAGTTGAACTGAATATACTTTCAATCTTGTAGAATATTTGAGATTGCTCCATCAGCTCAAAAACTGTTCTCATTCTTAAAAGATTCAAAAGTTCCTTTGGAGCAAAACACCAAGCTCAAGCCTCATGCCATGTCTGTCTTTCTCATGGTAAGTTACTAGAAACAATTAAATTAGCAAAGAAAATTTCGTAAAAGAAAACATGAAATCCGTCTCTAATTCAGTAACTAAATTTTGGACCGAGTACATTAGAGACGGATTTCATTTTTATTTGTCACTAATTTTATTTTTTAGTGTCATTTCGCATCCACGACCATTCAAGCTTTGACTTTGTCAATTGTCACCACTCACCATTTGAATATATATATAAGAAAAAACCAGCTAATTATTTTGTTATTGCAGACATGTGAATCAGCAGTTCAATTGCGGAAATCCGGTAAAGTCACGGTCAGAGAATCAAGCTTGAAAAAATTAGGTGCTAACCATTTTAAATATGGTGTAGTAGACGAGCATTTTGAGGTACGTAAATTTTCAAATAAGTATATTTTTTTTACTAGGGTCAATGTATTATTTAGTCTTGTTATATTAAATTTACATTAAAATTTGACATAAGGTTTGGCAGAGTAGTACTTACGTAATATAAGACAATGTATGATTTAATTTTTTGATTTTGTAAGGTGACAAAGTTTGCACTTTTGGAGACCATAAAAGAAGCGGTACCTGAAATGTGGTCACCGGCTATGAAGAATGCATGGGGAGAAGCTTATGATCAGCTGGTCAATGCTATCAAATCTGAAATGAAACCTTCCTCTTAA

Protein sequence

>MS.gene056647.t1

MGTLDTKVFTEEQEALVVKSWNAMKKNSAEIFEIAPSAQKLFSFLKDSKVPLEQNTKLKPHAMSVFLMTCESAVQLRKSGKVTVRESSLKKLGANHFKYGVVDEHFEVTKFALLETIKEAVPEMWSPAMKNAWGEAYDQLVNAIKSEMKPSS