AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70642

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70642.t1 MTR_3g077560 96.850 127 4 0 1 127 1 127 7.01e-91 259
MS.gene70642.t1 MTR_3g077570 81.667 120 19 1 1 120 1 117 3.32e-70 206
MS.gene70642.t1 MTR_7g035245 59.048 105 43 0 21 125 3 107 5.84e-44 139
MS.gene70642.t1 MTR_1g069255 48.000 100 49 2 25 123 87 184 7.76e-26 96.3
MS.gene70642.t1 MTR_2g038560 42.000 100 51 1 15 114 29 121 6.10e-23 87.0
MS.gene70642.t1 MTR_2g038560 42.000 100 51 1 15 114 70 162 8.90e-23 87.8
MS.gene70642.t1 MTR_2g038560 42.000 100 51 1 15 114 73 165 9.77e-23 87.8
MS.gene70642.t1 MTR_5g021090 42.353 85 49 0 30 114 42 126 1.83e-19 78.2
MS.gene70642.t1 MTR_2g019900 38.000 100 62 0 21 120 1 100 1.82e-18 74.7
MS.gene70642.t1 MTR_7g022690 39.423 104 62 1 18 120 27 130 6.64e-18 74.3
MS.gene70642.t1 MTR_7g022710 40.385 104 61 1 18 120 27 130 8.06e-18 73.9
MS.gene70642.t1 MTR_1g088905 34.000 100 66 0 21 120 1 100 8.74e-18 73.2
MS.gene70642.t1 MTR_7g022550 39.423 104 62 1 18 120 27 130 1.57e-17 73.2
MS.gene70642.t1 MTR_7g108250 34.000 100 66 0 21 120 1 100 1.49e-16 70.1
MS.gene70642.t1 MTR_4g119050 35.644 101 64 1 21 120 1 101 1.07e-15 67.8
MS.gene70642.t1 MTR_4g119030 35.644 101 64 1 21 120 1 101 1.07e-15 67.8
MS.gene70642.t1 MTR_4g119040 35.644 101 64 1 21 120 1 101 1.07e-15 67.8
MS.gene70642.t1 MTR_7g108220 36.634 101 63 1 21 120 1 101 1.10e-15 67.8
MS.gene70642.t1 MTR_7g026770 37.615 109 67 1 13 120 14 122 1.81e-15 70.9
MS.gene70642.t1 MTR_1g088925 34.043 94 62 0 21 114 1 94 2.27e-15 67.0
MS.gene70642.t1 MTR_1g088920 34.043 94 62 0 21 114 1 94 2.32e-15 67.0
MS.gene70642.t1 MTR_2g048970 35.354 99 60 1 26 120 33 131 5.29e-15 67.0
MS.gene70642.t1 MTR_7g108210 35.644 101 64 1 21 120 1 101 5.52e-15 65.9
MS.gene70642.t1 MTR_1g088910 35.000 100 65 0 21 120 1 100 1.20e-14 65.1
MS.gene70642.t1 MTR_2g019950 32.000 100 68 0 21 120 1 100 1.78e-14 64.7
MS.gene70642.t1 MTR_7g108260 35.106 94 61 0 27 120 7 100 2.88e-14 64.3
MS.gene70642.t1 MTR_1g088895 35.106 94 61 0 27 120 7 100 1.31e-13 62.8
MS.gene70642.t1 MTR_5g077550 40.476 84 48 1 39 120 38 121 1.86e-13 62.8
MS.gene70642.t1 MTR_7g108200 31.915 94 64 0 21 114 1 94 2.15e-12 59.3
MS.gene70642.t1 MTR_2g014760 35.000 100 62 3 22 120 28 125 3.01e-12 59.7
MS.gene70642.t1 MTR_2g090755 35.135 111 63 3 13 120 34 138 3.77e-11 57.0
MS.gene70642.t1 MTR_1g015890 31.132 106 69 2 18 120 43 147 8.66e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70642.t1 AT5G63030 66.142 127 41 1 1 127 1 125 6.02e-60 181
MS.gene70642.t1 AT5G40370 62.857 105 39 0 21 125 3 107 5.54e-47 147
MS.gene70642.t1 AT5G40370 64.835 91 32 0 35 125 42 132 3.50e-41 133
MS.gene70642.t1 AT2G20270 48.000 100 50 2 20 117 73 172 2.23e-24 92.4
MS.gene70642.t1 AT5G20500 42.105 95 55 0 24 118 35 129 3.28e-23 88.2
MS.gene70642.t1 AT1G77370 46.512 86 46 0 30 115 43 128 3.20e-22 85.5
MS.gene70642.t1 AT4G28730 41.748 103 56 2 16 117 68 167 2.66e-21 84.3
MS.gene70642.t1 AT5G14070 38.532 109 59 1 20 120 30 138 1.46e-19 79.0
MS.gene70642.t1 AT2G20270 37.795 127 50 2 20 117 73 199 3.26e-19 79.7
MS.gene70642.t1 AT5G18600 38.000 100 62 0 21 120 1 100 1.87e-17 72.4
MS.gene70642.t1 AT1G77370 36.036 111 45 1 30 114 43 153 7.68e-17 72.4
MS.gene70642.t1 AT1G03020 39.000 100 61 0 21 120 1 100 1.12e-16 70.5
MS.gene70642.t1 AT3G02000 36.697 109 63 1 18 120 26 134 4.87e-16 69.7
MS.gene70642.t1 AT4G15700 39.394 99 59 1 22 120 3 100 9.70e-16 67.8
MS.gene70642.t1 AT4G33040 32.203 118 76 1 7 120 25 142 1.47e-15 68.6
MS.gene70642.t1 AT3G62930 35.000 100 65 0 21 120 1 100 1.59e-15 67.4
MS.gene70642.t1 AT4G15670 34.000 100 66 0 21 120 1 100 4.96e-15 66.2
MS.gene70642.t1 AT4G15680 33.000 100 67 0 21 120 1 100 9.47e-15 65.5
MS.gene70642.t1 AT4G15690 37.374 99 61 1 22 120 3 100 1.43e-14 65.1
MS.gene70642.t1 AT4G15660 34.000 100 66 0 21 120 1 100 2.34e-14 64.3
MS.gene70642.t1 AT1G28480 32.773 119 67 3 7 120 25 135 3.02e-14 65.1
MS.gene70642.t1 AT3G62950 30.693 101 69 1 21 120 1 101 3.28e-14 63.9
MS.gene70642.t1 AT2G47880 31.000 100 69 0 21 120 1 100 1.11e-13 62.8
MS.gene70642.t1 AT3G21460 33.000 100 67 0 21 120 1 100 1.25e-13 62.4
MS.gene70642.t1 AT1G06830 31.915 94 64 0 21 114 1 94 3.22e-13 61.2
MS.gene70642.t1 AT3G62960 30.851 94 65 0 21 114 1 94 4.16e-13 61.2
MS.gene70642.t1 AT5G11930 33.645 107 61 3 15 120 49 146 5.95e-13 62.0
MS.gene70642.t1 AT2G47870 29.703 101 70 1 21 120 1 101 6.83e-13 60.8
MS.gene70642.t1 AT4G28730 40.789 76 41 2 16 90 68 140 1.39e-12 60.8
MS.gene70642.t1 AT2G30540 32.979 94 63 0 21 114 1 94 1.43e-12 59.7

Find 34 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTTGTTTCCATCTCTTCTT+TGG 0.212250 3.1:-63768324 None:intergenic
ACAGTACCTAATGTGTTTAT+TGG 0.265313 3.1:+63769313 MS.gene70642:CDS
TTTATTTGTTGCAGCTGTTT+TGG 0.272729 3.1:+63769474 MS.gene70642:intron
TCAGAGCTGAGCAGAGTTCT+TGG 0.303817 3.1:-63769551 None:intergenic
ATAATAATGGGTTCTATGTT+TGG 0.328535 3.1:+63768281 None:intergenic
CACTTTCTATATCCATTTCA+AGG 0.388516 3.1:-63769078 None:intergenic
ATCCATTTCAAGGACCTTGT+AGG 0.400003 3.1:-63769068 None:intergenic
CTTATTGTGGTTACTGCAAA+CGG 0.407824 3.1:+63769014 MS.gene70642:CDS
ATTCCCCTTCTCACTGATGC+TGG 0.424957 3.1:+63769520 MS.gene70642:CDS
AACCTACAAGGTCCTTGAAA+TGG 0.451012 3.1:+63769066 MS.gene70642:CDS
TTGCCTCCAATAAACACATT+AGG 0.466203 3.1:-63769319 None:intergenic
CGCTCCAGCATCAGTGAGAA+GGG 0.479868 3.1:-63769524 None:intergenic
TTATTGTGGTTACTGCAAAC+GGG 0.502636 3.1:+63769015 MS.gene70642:CDS
AATAACCTGAAGACAAAGAC+GGG 0.504868 3.1:-63768380 None:intergenic
TGGTTACTGCAAACGGGTCA+AGG 0.522187 3.1:+63769021 MS.gene70642:CDS
GTACCTAATGTGTTTATTGG+AGG 0.525018 3.1:+63769316 MS.gene70642:CDS
GCAGCATTAACTGAGTGGAC+AGG 0.525614 3.1:+63769283 MS.gene70642:CDS
ATTGGAGGCAAGCACATTGG+TGG 0.528449 3.1:+63769331 MS.gene70642:CDS
TTTGGTTCTCAGAAGACTCA+AGG 0.530472 3.1:+63768299 MS.gene70642:CDS
TCAAGGGACCAAAGAAGAGA+TGG 0.547018 3.1:+63768316 MS.gene70642:CDS
TCGCTCCAGCATCAGTGAGA+AGG 0.547446 3.1:-63769525 None:intergenic
CAGCATTAACTGAGTGGACA+GGG 0.563697 3.1:+63769284 MS.gene70642:CDS
TAACTGAGTGGACAGGGCAA+AGG 0.599599 3.1:+63769290 MS.gene70642:CDS
AAGGATCTACTCAAACAGCT+AGG 0.624288 3.1:+63769040 MS.gene70642:CDS
AAATAACCTGAAGACAAAGA+CGG 0.625074 3.1:-63768381 None:intergenic
TGTGACAGTAAGACTTATTG+TGG 0.631935 3.1:+63769001 MS.gene70642:intron
ACAGCTAGGAGCAACCTACA+AGG 0.634355 3.1:+63769054 MS.gene70642:CDS
TTGGTTCTCAGAAGACTCAA+GGG 0.637370 3.1:+63768300 MS.gene70642:CDS
TTTATTGGAGGCAAGCACAT+TGG 0.645273 3.1:+63769328 MS.gene70642:CDS
GGGGAATCAATTGACCTGCA+CGG 0.659613 3.1:-63769504 None:intergenic
GCTCCAGCATCAGTGAGAAG+GGG 0.673549 3.1:-63769523 None:intergenic
TTCATGCAGCATTAACTGAG+TGG 0.679113 3.1:+63769278 MS.gene70642:CDS
ATAACCTGAAGACAAAGACG+GGG 0.734989 3.1:-63768379 None:intergenic
TAACCTGAAGACAAAGACGG+GGG 0.745087 3.1:-63768378 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTTTTTTTAGGTAATAG+TGG + chr3.1:63768467-63768486 MS.gene70642:intron 15.0%
!!! TATATATGTCTTTTGATTTT+TGG + chr3.1:63768575-63768594 MS.gene70642:intron 15.0%
!! ATCATGTTTATGTATTGAAT+TGG + chr3.1:63768885-63768904 MS.gene70642:intron 20.0%
!! ATTTCTCAATAAATACAAAG+TGG + chr3.1:63769186-63769205 MS.gene70642:intron 20.0%
!! TTTCTCAATAAATACAAAGT+GGG + chr3.1:63769187-63769206 MS.gene70642:intron 20.0%
!!! AAGCTAGAATATATAGTTTT+TGG - chr3.1:63768739-63768758 None:intergenic 20.0%
!!! GAGATGTCAATATTTTTTTT+AGG + chr3.1:63768458-63768477 MS.gene70642:intron 20.0%
! AAGGATATGCTTTATGAAAA+TGG - chr3.1:63768947-63768966 None:intergenic 25.0%
! ATTTGTCTTTACCTATTTGA+AGG + chr3.1:63769241-63769260 MS.gene70642:intron 25.0%
! GTTGATCAAAATACTAGTTA+AGG + chr3.1:63768436-63768455 MS.gene70642:intron 25.0%
! TTCTCTACATATATAGTCTT+TGG + chr3.1:63768519-63768538 MS.gene70642:intron 25.0%
AAATAACCTGAAGACAAAGA+CGG - chr3.1:63768384-63768403 None:intergenic 30.0%
ACAGTACCTAATGTGTTTAT+TGG + chr3.1:63769313-63769332 MS.gene70642:CDS 30.0%
ATGCTTTATGAAAATGGACA+AGG - chr3.1:63768941-63768960 None:intergenic 30.0%
ATGTATTGAATTGGTTGTCA+AGG + chr3.1:63768894-63768913 MS.gene70642:intron 30.0%
CACTTTCTATATCCATTTCA+AGG - chr3.1:63769081-63769100 None:intergenic 30.0%
GATCAAACTATGTGTATGTT+TGG - chr3.1:63768868-63768887 None:intergenic 30.0%
TATATCTAAACTTGCATGCA+CGG - chr3.1:63768552-63768571 None:intergenic 30.0%
TCACAACATACATTACAGAT+GGG - chr3.1:63768986-63769005 None:intergenic 30.0%
TTTATGAAAATGGACAAGGA+GGG - chr3.1:63768937-63768956 None:intergenic 30.0%
!! TTTATTTGTTGCAGCTGTTT+TGG + chr3.1:63769474-63769493 MS.gene70642:intron 30.0%
AATAACCTGAAGACAAAGAC+GGG - chr3.1:63768383-63768402 None:intergenic 35.0%
AATCTCAACCCAGATAGAAA+AGG - chr3.1:63769130-63769149 None:intergenic 35.0%
AATTGGTTGTCAAGGCAATT+TGG + chr3.1:63768902-63768921 MS.gene70642:intron 35.0%
CACATGAAAAAAGAAGCAAC+AGG - chr3.1:63769380-63769399 None:intergenic 35.0%
CTTATTGTGGTTACTGCAAA+CGG + chr3.1:63769014-63769033 MS.gene70642:CDS 35.0%
CTTTACCTATTTGAAGGTGA+TGG + chr3.1:63769247-63769266 MS.gene70642:intron 35.0%
CTTTATGAAAATGGACAAGG+AGG - chr3.1:63768938-63768957 None:intergenic 35.0%
GGGATTGTCAAGGTTAAAAA+AGG - chr3.1:63768966-63768985 None:intergenic 35.0%
GTACCTAATGTGTTTATTGG+AGG + chr3.1:63769316-63769335 MS.gene70642:CDS 35.0%
GTCACAACATACATTACAGA+TGG - chr3.1:63768987-63769006 None:intergenic 35.0%
TGTGACAGTAAGACTTATTG+TGG + chr3.1:63769001-63769020 MS.gene70642:intron 35.0%
TTATTGTGGTTACTGCAAAC+GGG + chr3.1:63769015-63769034 MS.gene70642:CDS 35.0%
TTGCCTCCAATAAACACATT+AGG - chr3.1:63769322-63769341 None:intergenic 35.0%
! GCTTTGTACCTTTTCTATCT+GGG + chr3.1:63769119-63769138 MS.gene70642:intron 35.0%
! TGCTTTGTACCTTTTCTATC+TGG + chr3.1:63769118-63769137 MS.gene70642:intron 35.0%
!!! CTGTTGCTTCTTTTTTCATG+TGG + chr3.1:63769378-63769397 MS.gene70642:intron 35.0%
AACCTACAAGGTCCTTGAAA+TGG + chr3.1:63769066-63769085 MS.gene70642:CDS 40.0%
AAGGATCTACTCAAACAGCT+AGG + chr3.1:63769040-63769059 MS.gene70642:CDS 40.0%
ATAACCTGAAGACAAAGACG+GGG - chr3.1:63768382-63768401 None:intergenic 40.0%
ATCCATTTCAAGGACCTTGT+AGG - chr3.1:63769071-63769090 None:intergenic 40.0%
CATCTCCATCACCTTCAAAT+AGG - chr3.1:63769255-63769274 None:intergenic 40.0%
CATTACAGATGGGATTGTCA+AGG - chr3.1:63768976-63768995 None:intergenic 40.0%
TGACACCACAAAACCAAACA+CGG - chr3.1:63768607-63768626 None:intergenic 40.0%
TTCATGCAGCATTAACTGAG+TGG + chr3.1:63769278-63769297 MS.gene70642:CDS 40.0%
TTTATTGGAGGCAAGCACAT+TGG + chr3.1:63769328-63769347 MS.gene70642:CDS 40.0%
! CGTTGTTTCCATCTCTTCTT+TGG - chr3.1:63768327-63768346 None:intergenic 40.0%
! TTGGTTCTCAGAAGACTCAA+GGG + chr3.1:63768300-63768319 MS.gene70642:CDS 40.0%
!! TTTGGTTCTCAGAAGACTCA+AGG + chr3.1:63768299-63768318 MS.gene70642:CDS 40.0%
!! TTTTTGGTCAAGTCCGTGTT+TGG + chr3.1:63768591-63768610 MS.gene70642:intron 40.0%
CAGCATTAACTGAGTGGACA+GGG + chr3.1:63769284-63769303 MS.gene70642:CDS 45.0%
TAACCTGAAGACAAAGACGG+GGG - chr3.1:63768381-63768400 None:intergenic 45.0%
TCAAGGGACCAAAGAAGAGA+TGG + chr3.1:63768316-63768335 MS.gene70642:CDS 45.0%
! CATTGGTGGTTGTGACTGTA+AGG + chr3.1:63769345-63769364 MS.gene70642:intron 45.0%
!!! CAAGTCCGTGTTTGGTTTTG+TGG + chr3.1:63768599-63768618 MS.gene70642:intron 45.0%
ACAGCTAGGAGCAACCTACA+AGG + chr3.1:63769054-63769073 MS.gene70642:CDS 50.0%
ATTCCCCTTCTCACTGATGC+TGG + chr3.1:63769520-63769539 MS.gene70642:CDS 50.0%
ATTGGAGGCAAGCACATTGG+TGG + chr3.1:63769331-63769350 MS.gene70642:CDS 50.0%
GCAGCATTAACTGAGTGGAC+AGG + chr3.1:63769283-63769302 MS.gene70642:CDS 50.0%
GGGGAATCAATTGACCTGCA+CGG - chr3.1:63769507-63769526 None:intergenic 50.0%
TAACTGAGTGGACAGGGCAA+AGG + chr3.1:63769290-63769309 MS.gene70642:CDS 50.0%
TCAGAGCTGAGCAGAGTTCT+TGG - chr3.1:63769554-63769573 None:intergenic 50.0%
TGGTTACTGCAAACGGGTCA+AGG + chr3.1:63769021-63769040 MS.gene70642:CDS 50.0%
!!! GTTTTGGAGAAACACCGTGC+AGG + chr3.1:63769490-63769509 MS.gene70642:CDS 50.0%
CGCTCCAGCATCAGTGAGAA+GGG - chr3.1:63769527-63769546 None:intergenic 55.0%
CTTCCCCCGTCTTTGTCTTC+AGG + chr3.1:63768375-63768394 MS.gene70642:CDS 55.0%
GAAGACAAAGACGGGGGAAG+AGG - chr3.1:63768375-63768394 None:intergenic 55.0%
GCTCCAGCATCAGTGAGAAG+GGG - chr3.1:63769526-63769545 None:intergenic 55.0%
TCGCTCCAGCATCAGTGAGA+AGG - chr3.1:63769528-63769547 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 63768287 63769573 63768287 ID=MS.gene70642
chr3.1 mRNA 63768287 63769573 63768287 ID=MS.gene70642.t1;Parent=MS.gene70642
chr3.1 exon 63768287 63768396 63768287 ID=MS.gene70642.t1.exon1;Parent=MS.gene70642.t1
chr3.1 CDS 63768287 63768396 63768287 ID=cds.MS.gene70642.t1;Parent=MS.gene70642.t1
chr3.1 exon 63769009 63769097 63769009 ID=MS.gene70642.t1.exon2;Parent=MS.gene70642.t1
chr3.1 CDS 63769009 63769097 63769009 ID=cds.MS.gene70642.t1;Parent=MS.gene70642.t1
chr3.1 exon 63769263 63769361 63769263 ID=MS.gene70642.t1.exon3;Parent=MS.gene70642.t1
chr3.1 CDS 63769263 63769361 63769263 ID=cds.MS.gene70642.t1;Parent=MS.gene70642.t1
chr3.1 exon 63769488 63769573 63769488 ID=MS.gene70642.t1.exon4;Parent=MS.gene70642.t1
chr3.1 CDS 63769488 63769573 63769488 ID=cds.MS.gene70642.t1;Parent=MS.gene70642.t1
Gene Sequence

>MS.gene70642

ATGGGTTCTATGTTTGGTTCTCAGAAGACTCAAGGGACCAAAGAAGAGATGGAAACAACGTTGAATAAAACTAAACAGATTGCTGCCTCTTCCCCCGTCTTTGTCTTCAGGTTATTTTTATTTTTATCTAATCTTAGTAACATGTTTTTGTTGATCAAAATACTAGTTAAGGAGATGTCAATATTTTTTTTAGGTAATAGTGGAATTCTCGAAATAGAGAGACTATATTTATTTCTCTACATATATAGTCTTTGGAAATTGACCGTGCATGCAAGTTTAGATATATCATATATATGTCTTTTGATTTTTGGTCAAGTCCGTGTTTGGTTTTGTGGTGTCACAAATTGATTTTGAATGAATTGATTATAGCTAAGAAGTAAGAATGAATTGACTGTAAAACGAAAATGAGTTGAAAAATAAATTCAAAACTTAAAAAACAATTGTAGAAGCCAAAAACTATATATTCTAGCTTCAAGTTAGAATGAGACAAAATTAGTTATACTTGAGAACATTCAATTGATAAAAAAAATCAATTCTACACTTTTAGAATCAATTTTAAATCTTTTGAAAGTAAAAAACCAAACATACACATAGTTTGATCATGTTTATGTATTGAATTGGTTGTCAAGGCAATTTGGTGTATGTAACCCTCCTTGTCCATTTTCATAAAGCATATCCTTTTTTAACCTTGACAATCCCATCTGTAATGTATGTTGTGACAGTAAGACTTATTGTGGTTACTGCAAACGGGTCAAGGATCTACTCAAACAGCTAGGAGCAACCTACAAGGTCCTTGAAATGGATATAGAAAGTGAGTTTACTTATTTCTCATGCTTTGTACCTTTTCTATCTGGGTTGAGATTGTATGTGAATGTGCAAAATGCAAAAATGAGAGTCTTATTTCTCAATAAATACAAAGTGGGTCTATCTATTATTATTATCTTCTGTTCTTGAATTTGTCTTTACCTATTTGAAGGTGATGGAGATGAGATTCATGCAGCATTAACTGAGTGGACAGGGCAAAGGACAGTACCTAATGTGTTTATTGGAGGCAAGCACATTGGTGGTTGTGACTGTAAGGCTACACACTCCTGTTGCTTCTTTTTTCATGTGGCAAAGACAAAATTAGAGTTGTTTTTTTCTTTCTCTGTTTTCATTATTTGTGTGTGTAATATTTTTATCACATGTTTATTTGTTGCAGCTGTTTTGGAGAAACACCGTGCAGGTCAATTGATTCCCCTTCTCACTGATGCTGGAGCGATCGCCAAGAACTCTGCTCAGCTCTGA
Protein sequence

>MS.gene70642.t1

MGSMFGSQKTQGTKEEMETTLNKTKQIAASSPVFVFSKTYCGYCKRVKDLLKQLGATYKVLEMDIESDGDEIHAALTEWTGQRTVPNVFIGGKHIGGCDSVLEKHRAGQLIPLLTDAGAIAKNSAQL