AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70331


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70331.t1 MTR_8g091720 93.717 191 5 1 1 184 1 191 9.77e-131 365
MS.gene70331.t1 MTR_5g095740 79.487 117 22 1 13 129 10 124 8.07e-63 192
MS.gene70331.t1 MTR_2g026710 80.702 114 20 1 24 137 13 124 2.57e-62 191
MS.gene70331.t1 MTR_3g058980 87.879 99 12 0 25 123 24 122 4.04e-60 186
MS.gene70331.t1 MTR_7g061270 75.439 114 28 0 13 126 11 124 1.31e-59 184
MS.gene70331.t1 MTR_7g100650 75.439 114 28 0 13 126 11 124 1.34e-59 184
MS.gene70331.t1 MTR_8g093920 76.636 107 25 0 27 133 39 145 1.44e-56 178
MS.gene70331.t1 MTR_1g072790 76.699 103 24 0 23 125 24 126 2.27e-56 176
MS.gene70331.t1 MTR_4g133938 74.312 109 28 0 17 125 8 116 2.17e-53 167
MS.gene70331.t1 MTR_1g088860 69.307 101 31 0 22 122 30 130 1.83e-48 157
MS.gene70331.t1 MTR_0392s0020 64.151 106 38 0 21 126 11 116 2.69e-48 154
MS.gene70331.t1 MTR_4g119500 56.557 122 53 0 12 133 6 127 2.47e-47 151
MS.gene70331.t1 MTR_4g133952 64.948 97 34 0 27 123 57 153 4.84e-46 152
MS.gene70331.t1 MTR_1g039040 62.745 102 38 0 27 128 5 106 1.38e-44 146
MS.gene70331.t1 MTR_1g083070 61.957 92 35 0 28 119 4 95 7.69e-39 130
MS.gene70331.t1 MTR_1g029070 49.580 119 54 1 14 126 32 150 2.45e-32 115
MS.gene70331.t1 MTR_5g095900 44.330 97 51 1 24 117 9 105 1.50e-21 87.4
MS.gene70331.t1 MTR_1g028480 53.125 64 30 0 58 121 19 82 2.13e-18 77.0
MS.gene70331.t1 MTR_1g029100 40.789 76 45 0 33 108 7 82 1.91e-17 73.9
MS.gene70331.t1 MTR_2g056000 32.143 84 57 0 22 105 35 118 1.20e-13 66.6
MS.gene70331.t1 MTR_4g112380 33.766 77 51 0 29 105 12 88 2.63e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70331.t1 AT4G14540 81.818 110 20 0 24 133 17 126 3.65e-64 195
MS.gene70331.t1 AT5G47640 85.859 99 14 0 25 123 24 122 6.47e-60 186
MS.gene70331.t1 AT2G13570 74.576 118 29 1 8 125 17 133 1.92e-59 185
MS.gene70331.t1 AT3G53340 68.800 125 28 2 14 133 21 139 1.87e-56 176
MS.gene70331.t1 AT3G53340 68.800 125 28 2 14 133 21 139 1.87e-56 176
MS.gene70331.t1 AT2G37060 71.552 116 28 1 27 137 29 144 4.54e-56 175
MS.gene70331.t1 AT2G37060 71.552 116 28 1 27 137 29 144 4.54e-56 175
MS.gene70331.t1 AT2G37060 71.552 116 28 1 27 137 29 144 4.54e-56 175
MS.gene70331.t1 AT2G38880 69.643 112 34 0 14 125 7 118 7.77e-55 171
MS.gene70331.t1 AT3G53340 75.238 105 20 1 14 118 21 119 9.01e-55 170
MS.gene70331.t1 AT2G38880 69.643 112 34 0 14 125 7 118 1.20e-54 171
MS.gene70331.t1 AT2G38880 69.643 112 34 0 14 125 7 118 1.20e-54 171
MS.gene70331.t1 AT2G38880 69.643 112 34 0 14 125 7 118 1.20e-54 171
MS.gene70331.t1 AT3G53340 75.472 106 20 1 14 119 21 120 2.67e-54 170
MS.gene70331.t1 AT3G53340 75.472 106 20 1 14 119 21 120 2.67e-54 170
MS.gene70331.t1 AT2G38880 71.429 105 30 0 14 118 7 111 1.13e-52 164
MS.gene70331.t1 AT2G38880 67.544 114 37 0 14 127 7 120 1.39e-52 165
MS.gene70331.t1 AT2G38880 71.429 105 30 0 14 118 7 111 3.32e-52 165
MS.gene70331.t1 AT2G38880 71.429 105 30 0 14 118 7 111 3.32e-52 165
MS.gene70331.t1 AT2G38880 77.660 94 21 0 25 118 18 111 5.34e-52 164
MS.gene70331.t1 AT2G38880 77.660 94 21 0 25 118 18 111 5.34e-52 164
MS.gene70331.t1 AT2G38880 77.660 94 21 0 25 118 18 111 5.34e-52 164
MS.gene70331.t1 AT2G47810 71.845 103 29 0 22 124 45 147 3.72e-51 162
MS.gene70331.t1 AT5G47670 60.714 112 44 0 16 127 17 128 6.05e-48 155
MS.gene70331.t1 AT5G47670 60.714 112 44 0 16 127 46 157 1.49e-47 155
MS.gene70331.t1 AT5G47670 60.714 112 44 0 16 127 46 157 1.49e-47 155
MS.gene70331.t1 AT1G21970 62.000 100 38 0 26 125 57 156 2.48e-45 150
MS.gene70331.t1 AT1G09030 62.500 96 36 0 28 123 3 98 1.22e-42 140
MS.gene70331.t1 AT5G08190 35.897 78 50 0 28 105 11 88 1.70e-14 68.2
MS.gene70331.t1 AT5G08190 35.897 78 50 0 28 105 11 88 1.83e-14 68.2
MS.gene70331.t1 AT5G23090 33.766 77 51 0 29 105 12 88 4.99e-14 67.0
MS.gene70331.t1 AT5G23090 33.766 77 51 0 29 105 12 88 4.99e-14 67.0
MS.gene70331.t1 AT5G23090 33.766 77 51 0 29 105 12 88 4.99e-14 67.0
MS.gene70331.t1 AT5G23090 33.766 77 51 0 29 105 12 88 4.99e-14 67.0

Find 42 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATGGTGATGATCTTCTT+TGG 0.277181 4.1:-9593446 MS.gene70331:CDS
TTAATCTCTTGGAACCTCTT+TGG 0.292077 4.1:+9593249 None:intergenic
AAGTTTATCTTAATAATTAT+AGG 0.297968 4.1:-9593380 MS.gene70331:CDS
GAGTTCATAAGTTTCATTAC+TGG 0.304041 4.1:-9593510 MS.gene70331:CDS
TGCCACCAAACCTACGTTAC+AGG 0.318400 4.1:-9593149 MS.gene70331:CDS
GAAAAGAGGAAAACAATTAA+TGG 0.329176 4.1:-9593462 MS.gene70331:CDS
AGTTTATCTTAATAATTATA+GGG 0.334719 4.1:-9593379 MS.gene70331:CDS
ATTGTGGATTATAGAGTAAT+TGG 0.335947 4.1:-9593219 MS.gene70331:CDS
AAGAGGTTCCAAGAGATTAA+TGG 0.350652 4.1:-9593246 MS.gene70331:CDS
ATTATTAATTTCAACATGTC+CGG 0.359734 4.1:-9593720 None:intergenic
TAATGGTGATGATCTTCTTT+GGG 0.364795 4.1:-9593445 MS.gene70331:CDS
GACTTCCTACAGGACTTGTT+TGG 0.366205 4.1:+9593685 None:intergenic
TGTTTGGTTTCTCTTATTCC+CGG 0.387356 4.1:+9593701 None:intergenic
CAATCCCTCCATTAATCTCT+TGG 0.406112 4.1:+9593238 None:intergenic
GATGAAACAGAACATGCAAT+TGG 0.429214 4.1:-9593189 MS.gene70331:CDS
CCTGATGTTGGACTTCCTAC+AGG 0.434628 4.1:+9593675 None:intergenic
ATACGGCTCACGTTGGCAAT+TGG 0.452960 4.1:+9593606 None:intergenic
TCTGAGATGTTTCCTGATGT+TGG 0.453105 4.1:+9593663 None:intergenic
CTTTGGGCTATGACAACACT+TGG 0.464387 4.1:-9593429 MS.gene70331:CDS
AATAATTATAGGGAAATTGA+AGG 0.468083 4.1:-9593369 MS.gene70331:CDS
TCAACCCTGTAACGTAGGTT+TGG 0.472415 4.1:+9593144 None:intergenic
TCAATTGATGTTAATGATGT+TGG 0.481755 4.1:-9593288 MS.gene70331:CDS
CCTGTAGGAAGTCCAACATC+AGG 0.498605 4.1:-9593675 MS.gene70331:CDS
ACCTACGTTACAGGGTTGAA+TGG 0.502904 4.1:-9593140 MS.gene70331:CDS
TTATTAATTTCAACATGTCC+GGG 0.509564 4.1:-9593719 None:intergenic
AGAGATTAATGGAGGGATTG+TGG 0.513734 4.1:-9593235 MS.gene70331:CDS
ACAGAACATGCAATTGGAAG+TGG 0.518322 4.1:-9593183 MS.gene70331:CDS
CTCAAAAGAAGCAAAGGAAA+CGG 0.525390 4.1:-9593550 MS.gene70331:CDS
ATTGATGTTAATGATGTTGG+TGG 0.525414 4.1:-9593285 MS.gene70331:CDS
ACCCTGTAACGTAGGTTTGG+TGG 0.528618 4.1:+9593147 None:intergenic
GATGTTAATGATGTTGGTGG+TGG 0.530464 4.1:-9593282 MS.gene70331:CDS
CATCATCAAAAGAACAAGAC+AGG 0.530857 4.1:-9593635 MS.gene70331:CDS
ATAAGTGCCAGAGAGAAAAG+AGG 0.537335 4.1:-9593476 MS.gene70331:CDS
TTATTAAGATAAACTTTCAA+AGG 0.539135 4.1:+9593387 None:intergenic
GCCACCAAACCTACGTTACA+GGG 0.557356 4.1:-9593148 MS.gene70331:CDS
TAAAATCTCAAAAGAAGCAA+AGG 0.579705 4.1:-9593556 MS.gene70331:CDS
AGAAACCAAACAAGTCCTGT+AGG 0.592028 4.1:-9593690 MS.gene70331:CDS
GGCTCACGTTGGCAATTGGT+AGG 0.609486 4.1:+9593610 None:intergenic
ACCATTCAACCCTGTAACGT+AGG 0.617328 4.1:+9593139 None:intergenic
AGGTTCCAAGAGATTAATGG+AGG 0.632716 4.1:-9593243 MS.gene70331:CDS
GGTTCCAAGAGATTAATGGA+GGG 0.665223 4.1:-9593242 MS.gene70331:CDS
TTTCATTATACGGCTCACGT+TGG 0.672250 4.1:+9593599 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTTTATCTTAATAATTAT+AGG - chr4.1:9593462-9593481 MS.gene70331:CDS 10.0%
!! AGTTTATCTTAATAATTATA+GGG - chr4.1:9593463-9593482 MS.gene70331:CDS 10.0%
!! TTATTAAGATAAACTTTCAA+AGG + chr4.1:9593458-9593477 None:intergenic 15.0%
!! AATAATTATAGGGAAATTGA+AGG - chr4.1:9593473-9593492 MS.gene70331:CDS 20.0%
! GAAAAGAGGAAAACAATTAA+TGG - chr4.1:9593380-9593399 MS.gene70331:CDS 25.0%
! TAAAATCTCAAAAGAAGCAA+AGG - chr4.1:9593286-9593305 MS.gene70331:CDS 25.0%
! TCAATTGATGTTAATGATGT+TGG - chr4.1:9593554-9593573 MS.gene70331:CDS 25.0%
!! ATTGTGGATTATAGAGTAAT+TGG - chr4.1:9593623-9593642 MS.gene70331:CDS 25.0%
ATTGATGTTAATGATGTTGG+TGG - chr4.1:9593557-9593576 MS.gene70331:CDS 30.0%
GAGTTCATAAGTTTCATTAC+TGG - chr4.1:9593332-9593351 MS.gene70331:CDS 30.0%
! TAATGGTGATGATCTTCTTT+GGG - chr4.1:9593397-9593416 MS.gene70331:CDS 30.0%
! TTAATGGTGATGATCTTCTT+TGG - chr4.1:9593396-9593415 MS.gene70331:CDS 30.0%
!! GAAGTGCTCTTTTCATTATA+CGG + chr4.1:9593256-9593275 None:intergenic 30.0%
!! TTTGAGATTTTAGCATTTGC+TGG + chr4.1:9593278-9593297 None:intergenic 30.0%
!!! CTTGGTTTTGAAAACTATGT+TGG - chr4.1:9593431-9593450 MS.gene70331:CDS 30.0%
AAGAGGTTCCAAGAGATTAA+TGG - chr4.1:9593596-9593615 MS.gene70331:CDS 35.0%
CATCATCAAAAGAACAAGAC+AGG - chr4.1:9593207-9593226 MS.gene70331:CDS 35.0%
CTCAAAAGAAGCAAAGGAAA+CGG - chr4.1:9593292-9593311 MS.gene70331:CDS 35.0%
GATGAAACAGAACATGCAAT+TGG - chr4.1:9593653-9593672 MS.gene70331:CDS 35.0%
TTAATCTCTTGGAACCTCTT+TGG + chr4.1:9593596-9593615 None:intergenic 35.0%
! TGTTTGGTTTCTCTTATTCC+CGG + chr4.1:9593144-9593163 None:intergenic 35.0%
! TTGTTTTCCTCTTTTCTCTC+TGG + chr4.1:9593376-9593395 None:intergenic 35.0%
ACAGAACATGCAATTGGAAG+TGG - chr4.1:9593659-9593678 MS.gene70331:CDS 40.0%
AGAAACCAAACAAGTCCTGT+AGG - chr4.1:9593152-9593171 MS.gene70331:CDS 40.0%
AGAGATTAATGGAGGGATTG+TGG - chr4.1:9593607-9593626 MS.gene70331:CDS 40.0%
AGGTTCCAAGAGATTAATGG+AGG - chr4.1:9593599-9593618 MS.gene70331:CDS 40.0%
ATAAGTGCCAGAGAGAAAAG+AGG - chr4.1:9593366-9593385 MS.gene70331:CDS 40.0%
CAATCCCTCCATTAATCTCT+TGG + chr4.1:9593607-9593626 None:intergenic 40.0%
GGTTCCAAGAGATTAATGGA+GGG - chr4.1:9593600-9593619 MS.gene70331:CDS 40.0%
TTTCATTATACGGCTCACGT+TGG + chr4.1:9593246-9593265 None:intergenic 40.0%
! GATGTTAATGATGTTGGTGG+TGG - chr4.1:9593560-9593579 MS.gene70331:CDS 40.0%
! GTGGATTTTATGCTCCAAAG+AGG - chr4.1:9593579-9593598 MS.gene70331:CDS 40.0%
! TCTGAGATGTTTCCTGATGT+TGG + chr4.1:9593182-9593201 None:intergenic 40.0%
ACCATTCAACCCTGTAACGT+AGG + chr4.1:9593706-9593725 None:intergenic 45.0%
ACCTACGTTACAGGGTTGAA+TGG - chr4.1:9593702-9593721 MS.gene70331:CDS 45.0%
CTTTGGGCTATGACAACACT+TGG - chr4.1:9593413-9593432 MS.gene70331:CDS 45.0%
TCAACCCTGTAACGTAGGTT+TGG + chr4.1:9593701-9593720 None:intergenic 45.0%
! GACTTCCTACAGGACTTGTT+TGG + chr4.1:9593160-9593179 None:intergenic 45.0%
ACCCTGTAACGTAGGTTTGG+TGG + chr4.1:9593698-9593717 None:intergenic 50.0%
ATACGGCTCACGTTGGCAAT+TGG + chr4.1:9593239-9593258 None:intergenic 50.0%
CCTGATGTTGGACTTCCTAC+AGG + chr4.1:9593170-9593189 None:intergenic 50.0%
CCTGTAGGAAGTCCAACATC+AGG - chr4.1:9593167-9593186 MS.gene70331:CDS 50.0%
GCCACCAAACCTACGTTACA+GGG - chr4.1:9593694-9593713 MS.gene70331:CDS 50.0%
TGCCACCAAACCTACGTTAC+AGG - chr4.1:9593693-9593712 MS.gene70331:CDS 50.0%
GGCTCACGTTGGCAATTGGT+AGG + chr4.1:9593235-9593254 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 9593137 9593727 9593137 ID=MS.gene70331
chr4.1 mRNA 9593137 9593727 9593137 ID=MS.gene70331.t1;Parent=MS.gene70331
chr4.1 exon 9593137 9593727 9593137 ID=MS.gene70331.t1.exon1;Parent=MS.gene70331.t1
chr4.1 CDS 9593137 9593727 9593137 ID=cds.MS.gene70331.t1;Parent=MS.gene70331.t1
Gene Sequence

>MS.gene70331

ATGTCCGGGAATAAGAGAAACCAAACAAGTCCTGTAGGAAGTCCAACATCAGGAAACATCTCAGACAGTTCATCATCAAAAGAACAAGACAGGTTCCTACCAATTGCCAACGTGAGCCGTATAATGAAAAGAGCACTTCCAGCAAATGCTAAAATCTCAAAAGAAGCAAAGGAAACGGTTCAAGAATGTGTCTCTGAGTTCATAAGTTTCATTACTGGTGAAGCTTCTGATAAGTGCCAGAGAGAAAAGAGGAAAACAATTAATGGTGATGATCTTCTTTGGGCTATGACAACACTTGGTTTTGAAAACTATGTTGGTCCTTTGAAAGTTTATCTTAATAATTATAGGGAAATTGAAGGAGAAAAGAGTAATTCTAGTGCTACTAAACAAGATGATCAATATGATCATAATTCTTCTTCAATTGATGTTAATGATGTTGGTGGTGGATTTTATGCTCCAAAGAGGTTCCAAGAGATTAATGGAGGGATTGTGGATTATAGAGTAATTGGTAATAGTGATGAAACAGAACATGCAATTGGAAGTGGTAATAGAATCATGCCACCAAACCTACGTTACAGGGTTGAATGGTAG

Protein sequence

>MS.gene70331.t1

MSGNKRNQTSPVGSPTSGNISDSSSSKEQDRFLPIANVSRIMKRALPANAKISKEAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFENYVGPLKVYLNNYREIEGEKSNSSATKQDDQYDHNSSSIDVNDVGGGFYAPKRFQEINGGIVDYRVIGNSDETEHAIGSGNRIMPPNLRYRVEW