AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene30192

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30192.t1 MTR_7g105170 29.655 145 93 4 1 138 1 143 1.40e-15 72.0
MS.gene30192.t1 MTR_4g089135 34.014 147 81 6 4 141 15 154 2.85e-14 69.3
MS.gene30192.t1 MTR_8g094580 36.029 136 72 7 4 133 7 133 4.60e-14 68.6
MS.gene30192.t1 MTR_4g094302 33.858 127 74 6 4 129 11 128 5.73e-14 66.2
MS.gene30192.t1 MTR_5g041940 33.333 132 74 5 4 129 3 126 5.96e-14 67.8
MS.gene30192.t1 MTR_2g064090 31.757 148 88 6 4 144 6 147 6.83e-14 68.6
MS.gene30192.t1 MTR_5g012080 29.412 153 92 4 4 147 7 152 7.62e-14 68.2
MS.gene30192.t1 MTR_6g011860 32.353 136 77 5 1 129 12 139 1.08e-13 68.2
MS.gene30192.t1 MTR_4g094302 33.858 127 74 6 4 129 11 128 1.65e-13 65.5
MS.gene30192.t1 MTR_2g093810 31.469 143 84 5 4 139 14 149 2.46e-13 66.6
MS.gene30192.t1 MTR_8g059170 34.586 133 71 6 4 129 14 137 2.88e-13 66.6
MS.gene30192.t1 MTR_4g052620 29.530 149 91 4 2 141 3 146 5.62e-13 65.1
MS.gene30192.t1 MTR_7g100990 32.258 155 87 6 4 147 11 158 5.70e-13 65.9
MS.gene30192.t1 MTR_4g081870 32.576 132 75 5 4 129 9 132 6.21e-13 65.1
MS.gene30192.t1 MTR_2g079990 31.757 148 85 6 4 144 16 154 7.27e-13 65.5
MS.gene30192.t1 MTR_2g079990 33.835 133 72 6 4 129 16 139 1.41e-12 64.7
MS.gene30192.t1 MTR_7g085220 30.137 146 79 6 4 134 8 145 3.21e-12 63.5
MS.gene30192.t1 MTR_5g076850 32.576 132 77 5 4 129 6 131 4.16e-12 63.5
MS.gene30192.t1 MTR_1g097300 30.667 150 92 5 6 149 21 164 9.52e-12 62.4
MS.gene30192.t1 MTR_8g076110 31.818 132 79 4 4 129 6 132 9.92e-12 62.0
MS.gene30192.t1 MTR_2g086880 30.827 133 73 7 6 129 20 142 1.08e-11 62.4
MS.gene30192.t1 MTR_4g098630 34.074 135 74 7 4 129 6 134 1.26e-11 62.0
MS.gene30192.t1 MTR_2g086880 30.827 133 73 7 6 129 20 142 1.31e-11 62.0
MS.gene30192.t1 MTR_8g023900 31.206 141 79 6 2 132 10 142 1.54e-11 62.0
MS.gene30192.t1 MTR_5g040420 30.882 136 78 5 2 129 12 139 2.45e-11 61.2
MS.gene30192.t1 MTR_5g014300 30.065 153 87 7 4 142 6 152 6.68e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30192.t1 AT1G61110 34.848 132 73 4 4 129 16 140 1.48e-14 70.1
MS.gene30192.t1 AT4G27410 29.282 181 100 8 4 162 14 188 7.63e-14 68.2
MS.gene30192.t1 AT5G63790 33.566 143 80 6 4 140 60 193 3.91e-13 66.2
MS.gene30192.t1 AT5G63790 33.566 143 80 6 4 140 50 183 4.14e-13 65.9
MS.gene30192.t1 AT5G08790 34.559 136 74 6 4 133 7 133 4.21e-13 65.9
MS.gene30192.t1 AT2G24430 34.815 135 74 6 2 129 14 141 4.31e-13 65.9
MS.gene30192.t1 AT2G24430 34.815 135 74 6 2 129 14 141 4.31e-13 65.9
MS.gene30192.t1 AT3G03200 33.083 133 75 6 4 129 6 131 5.37e-13 66.2
MS.gene30192.t1 AT5G04395 32.237 152 81 6 4 137 28 175 8.40e-13 63.5
MS.gene30192.t1 AT1G76420 28.824 170 101 6 4 163 22 181 1.09e-12 65.1
MS.gene30192.t1 AT2G18060 31.579 133 78 5 4 129 9 135 1.88e-12 64.3
MS.gene30192.t1 AT2G18060 31.579 133 78 5 4 129 9 135 1.88e-12 64.3
MS.gene30192.t1 AT5G46590 31.579 133 78 5 4 129 6 132 2.71e-12 63.5
MS.gene30192.t1 AT5G46590 31.579 133 78 5 4 129 6 132 2.91e-12 63.5
MS.gene30192.t1 AT1G62700 32.576 132 78 4 4 129 7 133 6.33e-12 63.2
MS.gene30192.t1 AT1G62700 32.576 132 78 4 4 129 7 133 6.33e-12 63.2
MS.gene30192.t1 AT3G44290 28.030 132 86 4 6 133 16 142 6.68e-12 62.0
MS.gene30192.t1 AT3G15510 31.061 132 77 5 10 134 23 147 8.26e-12 62.4
MS.gene30192.t1 AT5G22290 29.688 128 81 4 6 129 23 145 9.07e-12 62.4
MS.gene30192.t1 AT3G44290 28.244 131 85 4 6 132 16 141 1.08e-11 62.0
MS.gene30192.t1 AT1G32510 31.034 145 81 6 3 134 5 143 1.33e-11 61.6
MS.gene30192.t1 AT3G29035 31.818 132 76 5 4 129 24 147 1.78e-11 61.6
MS.gene30192.t1 AT1G77450 34.351 131 71 5 5 129 11 132 2.10e-11 60.8
MS.gene30192.t1 AT1G65910 31.061 132 79 5 4 129 6 131 2.36e-11 61.6
MS.gene30192.t1 AT2G27300 27.407 135 89 4 6 136 16 145 2.41e-11 61.2
MS.gene30192.t1 AT4G17980 32.593 135 77 6 3 129 5 133 3.94e-11 60.1
MS.gene30192.t1 AT5G64530 34.375 128 70 6 4 130 3 117 5.99e-11 58.2
MS.gene30192.t1 AT4G17980 32.593 135 77 6 3 129 5 133 6.25e-11 59.7

Find 36 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCATTGTAAGACTGGATTT+TGG 0.240614 6.3:+13527146 MS.gene30192:CDS
CCATGGTTCTGACCTGATTA+AGG 0.246294 6.3:+13527012 MS.gene30192:CDS
CCTCCTCGGCTCATCAGTTT+TGG 0.286371 6.3:-13527125 None:intergenic
TGGATGCAGAAGGGAGTTGC+CGG 0.400199 6.3:+13527166 MS.gene30192:CDS
GATTTGCTTCCACCTGGTGC+TGG 0.403266 6.3:+13526917 MS.gene30192:CDS
GCAATTCAAACGGATCATAT+TGG 0.403266 6.3:-13527048 None:intergenic
CCTTGTGTGAGGGAACAAAA+AGG 0.407725 6.3:-13527083 None:intergenic
ACAGGCTCAGCTCCTTAATC+AGG 0.409826 6.3:-13527024 None:intergenic
CCGAGGAGGCATTGTAAGAC+TGG 0.478926 6.3:+13527139 MS.gene30192:CDS
GGAGTTGCCGGAGATATTGT+TGG 0.483972 6.3:+13527178 MS.gene30192:CDS
TGACTATGTTGTCTCCTACA+TGG 0.488176 6.3:+13527790 MS.gene30192:CDS
TGGAGCTGATGATGTGTTGG+TGG 0.508683 6.3:+13527198 MS.gene30192:CDS
ATCAGCTCCAACAATATCTC+CGG 0.518483 6.3:-13527185 None:intergenic
AGAACGCAATCAAAACTAGT+TGG 0.520035 6.3:+13527263 MS.gene30192:CDS
CAAACGGATCATATTGGTAC+AGG 0.526309 6.3:-13527042 None:intergenic
TGTTGGAGCTGATGATGTGT+TGG 0.526360 6.3:+13527195 MS.gene30192:CDS
CTACATGGAAACTATGACGC+CGG 0.526642 6.3:+13527805 MS.gene30192:CDS
GAAGAGGTTCAGAATTTCCA+TGG 0.526667 6.3:+13526995 MS.gene30192:CDS
GCAATGGATTTGCTTCCACC+TGG 0.532019 6.3:+13526911 None:intergenic
CCAGTCTTACAATGCCTCCT+CGG 0.543084 6.3:-13527139 None:intergenic
AGTGCATGCTTAAGTTGCTC+CGG 0.554035 6.3:-13527824 None:intergenic
TGAGCAAGATGCAATTCAAA+CGG 0.561766 6.3:-13527058 None:intergenic
GAAGGGACGAAGCCAGCACC+AGG 0.569334 6.3:-13526929 None:intergenic
CAGTAAAACTCCCTTGTGTG+AGG 0.577220 6.3:-13527094 None:intergenic
CACTCAGGTTAACAACCCTC+AGG 0.577476 6.3:+13527300 MS.gene30192:CDS
CGGCGTCATAGTTTCCATGT+AGG 0.599569 6.3:-13527804 None:intergenic
GGAGCTGATGATGTGTTGGT+GGG 0.610668 6.3:+13527199 MS.gene30192:CDS
AGTAAAACTCCCTTGTGTGA+GGG 0.618109 6.3:-13527093 None:intergenic
CCTTAATCAGGTCAGAACCA+TGG 0.626777 6.3:-13527012 None:intergenic
TGGCAAGGTAGTAGCTAACA+AGG 0.628366 6.3:-13526961 None:intergenic
TAACAAGGAGTTCATCAGAA+GGG 0.633655 6.3:-13526946 None:intergenic
CCAAAACTGATGAGCCGAGG+AGG 0.639982 6.3:+13527125 MS.gene30192:CDS
GGGACGAAGCCAGCACCAGG+TGG 0.645386 6.3:-13526926 None:intergenic
CTGCCAAAACTGATGAGCCG+AGG 0.655541 6.3:+13527122 MS.gene30192:CDS
CTAACAAGGAGTTCATCAGA+AGG 0.675712 6.3:-13526947 None:intergenic
GACTATGTACGAATACACTC+AGG 0.677311 6.3:+13527285 MS.gene30192:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTAAAGAAAAATAAAA+AGG - chr6.3:13527609-13527628 None:intergenic 10.0%
!!! TATTTTTTCATGTAATTTTA+TGG + chr6.3:13527686-13527705 MS.gene30192:intron 10.0%
!!! ATTTTTCTTTAAGTTTTGTG+TGG + chr6.3:13527613-13527632 MS.gene30192:intron 20.0%
!!! CATAATTTTTTACACAATTG+TGG - chr6.3:13527383-13527402 None:intergenic 20.0%
!!! TTTTTCATGTAATTTTATGG+TGG + chr6.3:13527689-13527708 MS.gene30192:intron 20.0%
! GTTTGATATTGATGTTTATC+AGG + chr6.3:13527748-13527767 MS.gene30192:intron 25.0%
!! AATAAAAAGGACATGTTTTG+AGG - chr6.3:13527596-13527615 None:intergenic 25.0%
!! TCTCTCTTCTTTTTCTATAT+AGG + chr6.3:13527229-13527248 MS.gene30192:CDS 25.0%
ACAATTGTGGATGTAGAATT+CGG - chr6.3:13527370-13527389 None:intergenic 30.0%
TGTAAAATTCAGTTGCAAAG+AGG - chr6.3:13527455-13527474 None:intergenic 30.0%
!!! AACCTCTTCATTGTTTTTGT+TGG - chr6.3:13526984-13527003 None:intergenic 30.0%
AGAACGCAATCAAAACTAGT+TGG + chr6.3:13527263-13527282 MS.gene30192:CDS 35.0%
GCAATTCAAACGGATCATAT+TGG - chr6.3:13527051-13527070 None:intergenic 35.0%
TAACAAGGAGTTCATCAGAA+GGG - chr6.3:13526949-13526968 None:intergenic 35.0%
TCGGTGAAATAACGAACATA+GGG - chr6.3:13527351-13527370 None:intergenic 35.0%
TGAGCAAGATGCAATTCAAA+CGG - chr6.3:13527061-13527080 None:intergenic 35.0%
TGCCAACAAAAACAATGAAG+AGG + chr6.3:13526979-13526998 MS.gene30192:CDS 35.0%
TTCGGTGAAATAACGAACAT+AGG - chr6.3:13527352-13527371 None:intergenic 35.0%
!!! CTTCATTGTTTTTGTTGGCA+AGG - chr6.3:13526979-13526998 None:intergenic 35.0%
!!! TAGTTTTGATTGCGTTCTGA+GGG - chr6.3:13527261-13527280 None:intergenic 35.0%
AGTAAAACTCCCTTGTGTGA+GGG - chr6.3:13527096-13527115 None:intergenic 40.0%
ATCAGCTCCAACAATATCTC+CGG - chr6.3:13527188-13527207 None:intergenic 40.0%
CAAACGGATCATATTGGTAC+AGG - chr6.3:13527045-13527064 None:intergenic 40.0%
CTAACAAGGAGTTCATCAGA+AGG - chr6.3:13526950-13526969 None:intergenic 40.0%
GAAGAGGTTCAGAATTTCCA+TGG + chr6.3:13526995-13527014 MS.gene30192:CDS 40.0%
GACTATGTACGAATACACTC+AGG + chr6.3:13527285-13527304 MS.gene30192:CDS 40.0%
TGACTATGTTGTCTCCTACA+TGG + chr6.3:13527790-13527809 MS.gene30192:CDS 40.0%
TTCCCAAATGACATACCTGA+GGG - chr6.3:13527318-13527337 None:intergenic 40.0%
TTTCCCAAATGACATACCTG+AGG - chr6.3:13527319-13527338 None:intergenic 40.0%
! AACCCTCAGGTATGTCATTT+GGG + chr6.3:13527313-13527332 MS.gene30192:intron 40.0%
! ACTGGATTTTGGATGCAGAA+GGG + chr6.3:13527157-13527176 MS.gene30192:CDS 40.0%
! CTTTTTGTTCCCTCACACAA+GGG + chr6.3:13527084-13527103 MS.gene30192:CDS 40.0%
! GGCATTGTAAGACTGGATTT+TGG + chr6.3:13527146-13527165 MS.gene30192:CDS 40.0%
!!! AGTTTTGATTGCGTTCTGAG+GGG - chr6.3:13527260-13527279 None:intergenic 40.0%
!!! CTAGTTTTGATTGCGTTCTG+AGG - chr6.3:13527262-13527281 None:intergenic 40.0%
CAACCCTCAGGTATGTCATT+TGG + chr6.3:13527312-13527331 MS.gene30192:intron 45.0%
CAGTAAAACTCCCTTGTGTG+AGG - chr6.3:13527097-13527116 None:intergenic 45.0%
CCTTAATCAGGTCAGAACCA+TGG - chr6.3:13527015-13527034 None:intergenic 45.0%
CCTTGTGTGAGGGAACAAAA+AGG - chr6.3:13527086-13527105 None:intergenic 45.0%
CTACATGGAAACTATGACGC+CGG + chr6.3:13527805-13527824 MS.gene30192:CDS 45.0%
TGGCAAGGTAGTAGCTAACA+AGG - chr6.3:13526964-13526983 None:intergenic 45.0%
! AGTGCATGCTTAAGTTGCTC+CGG - chr6.3:13527827-13527846 None:intergenic 45.0%
! CCTTTTTGTTCCCTCACACA+AGG + chr6.3:13527083-13527102 MS.gene30192:CDS 45.0%
! GACTGGATTTTGGATGCAGA+AGG + chr6.3:13527156-13527175 MS.gene30192:CDS 45.0%
! TGTTGGAGCTGATGATGTGT+TGG + chr6.3:13527195-13527214 MS.gene30192:CDS 45.0%
!! CCATGGTTCTGACCTGATTA+AGG + chr6.3:13527012-13527031 MS.gene30192:CDS 45.0%
!! TAAAAAATTATGTTTAATTA+CGG + chr6.3:13527391-13527410 MS.gene30192:intron 5.0%
ACAGGCTCAGCTCCTTAATC+AGG - chr6.3:13527027-13527046 None:intergenic 50.0%
CACTCAGGTTAACAACCCTC+AGG + chr6.3:13527300-13527319 MS.gene30192:CDS 50.0%
CCAGTCTTACAATGCCTCCT+CGG - chr6.3:13527142-13527161 None:intergenic 50.0%
CGGCGTCATAGTTTCCATGT+AGG - chr6.3:13527807-13527826 None:intergenic 50.0%
GGAGTTGCCGGAGATATTGT+TGG + chr6.3:13527178-13527197 MS.gene30192:CDS 50.0%
! GGAGCTGATGATGTGTTGGT+GGG + chr6.3:13527199-13527218 MS.gene30192:CDS 50.0%
! TGGAGCTGATGATGTGTTGG+TGG + chr6.3:13527198-13527217 MS.gene30192:CDS 50.0%
CCAAAACTGATGAGCCGAGG+AGG + chr6.3:13527125-13527144 MS.gene30192:CDS 55.0%
CTGCCAAAACTGATGAGCCG+AGG + chr6.3:13527122-13527141 MS.gene30192:CDS 55.0%
TGGATGCAGAAGGGAGTTGC+CGG + chr6.3:13527166-13527185 MS.gene30192:CDS 55.0%
! CCTCCTCGGCTCATCAGTTT+TGG - chr6.3:13527128-13527147 None:intergenic 55.0%
! GATTTGCTTCCACCTGGTGC+TGG + chr6.3:13526917-13526936 MS.gene30192:CDS 55.0%
!! CCGAGGAGGCATTGTAAGAC+TGG + chr6.3:13527139-13527158 MS.gene30192:CDS 55.0%
GAAGGGACGAAGCCAGCACC+AGG - chr6.3:13526932-13526951 None:intergenic 65.0%
GGGACGAAGCCAGCACCAGG+TGG - chr6.3:13526929-13526948 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 13526914 13527868 13526914 ID=MS.gene30192
chr6.3 mRNA 13526914 13527868 13526914 ID=MS.gene30192.t1;Parent=MS.gene30192
chr6.3 exon 13526914 13527321 13526914 ID=MS.gene30192.t1.exon1;Parent=MS.gene30192.t1
chr6.3 CDS 13526914 13527321 13526914 ID=cds.MS.gene30192.t1;Parent=MS.gene30192.t1
chr6.3 exon 13527770 13527868 13527770 ID=MS.gene30192.t1.exon2;Parent=MS.gene30192.t1
chr6.3 CDS 13527770 13527868 13527770 ID=cds.MS.gene30192.t1;Parent=MS.gene30192.t1
Gene Sequence

>MS.gene30192

ATGGATTTGCTTCCACCTGGTGCTGGCTTCGTCCCTTCTGATGAACTCCTTGTTAGCTACTACCTTGCCAACAAAAACAATGAAGAGGTTCAGAATTTCCATGGTTCTGACCTGATTAAGGAGCTGAGCCTGTACCAATATGATCCGTTTGAATTGCATCTTGCTCAGTCCTTTTTGTTCCCTCACACAAGGGAGTTTTACTGCTTCACTGCCAAAACTGATGAGCCGAGGAGGCATTGTAAGACTGGATTTTGGATGCAGAAGGGAGTTGCCGGAGATATTGTTGGAGCTGATGATGTGTTGGTGGGAAAGAAGTCTCTCTTCTTTTTCTATATAGGAAATTCCCCTCAGAACGCAATCAAAACTAGTTGGACTATGTACGAATACACTCAGGTTAACAACCCTCAGGTATGTCATTTGGGAAAACTAACTTTCCCTATGTTCGTTATTTCACCGAATTCTACATCCACAATTGTGTAAAAAATTATGTTTAATTACGGAAGTCAACATTGACAGTTAACTAGTTAATGTTGTTGATCCTCTTTGCAACTGAATTTTACAACTCAATTCATTCATGTGATGCTTTTTTTTTTATTTTGATCAATTTTATTGAATGTATCACTCTGCACATATTTTTTTTTCTTTTTTTCTTTTTTGTGTGTAGAAATTAAGTGATGATCCTCAAAACATGTCCTTTTTATTTTTCTTTAAGTTTTGTGTGGTATTAAATTCATTATCATTGTTATAATATCATCATCACTTTTTGACAAAGTATTTTTTCATGTAATTTTATGGTGGAGAAAAGAAAGTTTTGCTGAAATATTGAATTTCTTTGTTTGATATTGATGTTTATCAGGCGAGTTATACTGCATTTCTTGACTATGTTGTCTCCTACATGGAAACTATGACGCCGGAGCAACTTAAGCATGCACTTCTAGCTGAAGATTTTATTTAA
Protein sequence

>MS.gene30192.t1

MDLLPPGAGFVPSDELLVSYYLANKNNEEVQNFHGSDLIKELSLYQYDPFELHLAQSFLFPHTREFYCFTAKTDEPRRHCKTGFWMQKGVAGDIVGADDVLVGKKSLFFFYIGNSPQNAIKTSWTMYEYTQVNNPQASYTAFLDYVVSYMETMTPEQLKHALLAEDFI