AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71033

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71033.t1 MTR_1g045470 92.529 174 13 0 1 174 1 174 1.60e-119 341
MS.gene71033.t1 MTR_7g116460 69.620 158 48 0 1 158 1 158 3.18e-81 239
MS.gene71033.t1 MTR_1g053575 65.909 176 41 5 1 173 1 160 1.43e-68 211
MS.gene71033.t1 MTR_1g019820 61.111 72 27 1 95 166 2 72 2.58e-21 87.0
MS.gene71033.t1 MTR_7g100990 32.903 155 85 6 13 157 19 164 3.51e-16 74.7
MS.gene71033.t1 MTR_7g005280 32.414 145 86 4 13 155 23 157 4.68e-16 73.6
MS.gene71033.t1 MTR_4g036030 31.126 151 95 6 13 160 15 159 7.45e-13 65.5
MS.gene71033.t1 MTR_2g093810 31.169 154 87 6 13 156 22 166 2.19e-12 64.3
MS.gene71033.t1 MTR_3g096140 32.544 169 95 10 13 174 15 171 2.46e-12 63.9
MS.gene71033.t1 MTR_3g096140 32.544 169 95 10 13 174 15 171 4.17e-12 63.5
MS.gene71033.t1 MTR_7g097090 29.861 144 90 5 13 154 18 152 7.00e-12 62.8
MS.gene71033.t1 MTR_4g101680 31.373 153 96 6 13 162 15 161 1.50e-11 62.0
MS.gene71033.t1 MTR_4g089135 33.071 127 76 4 13 137 23 142 1.97e-11 61.6
MS.gene71033.t1 MTR_3g064580 32.075 159 91 8 13 163 14 163 3.61e-11 61.2
MS.gene71033.t1 MTR_8g094580 33.775 151 82 6 13 155 15 155 3.86e-11 60.5
MS.gene71033.t1 MTR_1g069805 29.167 144 91 5 13 154 18 152 4.01e-11 60.5
MS.gene71033.t1 MTR_5g012080 32.432 148 92 6 13 157 15 157 4.12e-11 60.8
MS.gene71033.t1 MTR_2g080010 29.697 165 93 7 13 161 23 180 5.05e-11 60.5
MS.gene71033.t1 MTR_5g041940 30.065 153 90 6 13 157 11 154 8.80e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71033.t1 AT2G33480 32.639 144 83 5 13 154 23 154 3.68e-14 68.6
MS.gene71033.t1 AT5G13180 32.877 146 85 5 13 155 22 157 3.76e-14 68.6
MS.gene71033.t1 AT5G62380 32.450 151 93 6 13 160 15 159 1.01e-13 68.2
MS.gene71033.t1 AT5G62380 32.450 151 93 6 13 160 15 159 1.01e-13 68.2
MS.gene71033.t1 AT3G10480 32.484 157 92 8 13 163 35 183 3.54e-13 67.0
MS.gene71033.t1 AT4G36160 30.405 148 94 6 13 157 22 163 6.88e-13 65.9
MS.gene71033.t1 AT4G36160 30.405 148 94 6 13 157 18 159 7.37e-13 65.9
MS.gene71033.t1 AT4G36160 30.405 148 94 6 13 157 18 159 7.37e-13 65.9
MS.gene71033.t1 AT2G24430 29.730 148 94 5 13 157 24 164 1.34e-12 64.7
MS.gene71033.t1 AT2G24430 29.730 148 94 5 13 157 24 164 1.34e-12 64.7
MS.gene71033.t1 AT3G10480 32.278 158 92 8 13 163 35 184 1.88e-12 64.7
MS.gene71033.t1 AT5G63790 32.919 161 89 6 3 154 48 198 3.67e-12 63.5
MS.gene71033.t1 AT5G63790 32.919 161 89 6 3 154 58 208 4.32e-12 63.5
MS.gene71033.t1 AT5G66300 29.936 157 101 6 13 166 20 170 1.05e-11 62.0
MS.gene71033.t1 AT1G77450 32.000 150 85 7 13 155 18 157 1.53e-11 61.2
MS.gene71033.t1 AT1G33060 31.081 148 89 6 13 155 32 171 2.12e-11 62.0
MS.gene71033.t1 AT1G33060 31.081 148 89 6 13 155 32 171 2.22e-11 61.6
MS.gene71033.t1 AT3G15510 30.000 160 90 6 13 157 25 177 2.31e-11 61.6
MS.gene71033.t1 AT5G08790 31.868 182 101 8 3 174 5 173 2.86e-11 60.8
MS.gene71033.t1 AT3G10490 30.380 158 95 8 13 163 35 184 3.92e-11 60.1
MS.gene71033.t1 AT1G56010 30.120 166 96 9 13 168 27 182 4.82e-11 60.5
MS.gene71033.t1 AT3G17730 28.834 163 102 8 13 168 14 169 5.59e-11 59.7
MS.gene71033.t1 AT1G32770 32.500 160 87 8 13 157 24 177 6.28e-11 60.1
MS.gene71033.t1 AT3G10490 30.380 158 95 8 13 163 35 184 9.44e-11 59.7

Find 40 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGGCAGATTTCTTCTTTA+AGG 0.216337 1.4:+29649535 None:intergenic
CCTCAATTCTTCTTCCAATA+AGG 0.222490 1.4:-29649747 MS.gene71033:CDS
CAAAGAATCCATGGGAGATT+TGG 0.252767 1.4:-29649613 MS.gene71033:CDS
TCTGCATAGAACATAATTAT+TGG 0.253885 1.4:+29649224 None:intergenic
GCACGATTGGACTTGGTAGA+TGG 0.297751 1.4:-29649496 MS.gene71033:CDS
AGTGGGTGCGATAACCTTAT+TGG 0.366373 1.4:+29649733 None:intergenic
AAAGAATCCATGGGAGATTT+GGG 0.379921 1.4:-29649612 MS.gene71033:CDS
TTCAAGAATGGTGATATGAT+TGG 0.399692 1.4:+29649655 None:intergenic
TTCTTTGATGAGCAATCCTT+TGG 0.402852 1.4:-29649336 MS.gene71033:intron
TTAAGGTTGTAAAGAAGTAT+AGG 0.426160 1.4:+29649552 None:intergenic
GCAAGATCCATCCACCATCT+TGG 0.430936 1.4:+29649378 None:intergenic
CAAGATCCATCCACCATCTT+GGG 0.431083 1.4:+29649379 None:intergenic
ATTCTTGAATATGATTTGTT+CGG 0.434843 1.4:-29649641 MS.gene71033:CDS
AGATGGGAAGGTGAAGATGC+TGG 0.438944 1.4:-29649479 MS.gene71033:CDS
CTTATTGGAAGAAGAATTGA+GGG 0.451784 1.4:+29649748 None:intergenic
TCAAGAATGGTGATATGATT+GGG 0.471621 1.4:+29649656 None:intergenic
TGGGAGATTTGGGAAGAGTT+CGG 0.477611 1.4:-29649602 MS.gene71033:CDS
AATCTCCCATGGATTCTTTG+CGG 0.489258 1.4:+29649616 None:intergenic
CACGATTGGACTTGGTAGAT+GGG 0.503218 1.4:-29649495 MS.gene71033:CDS
GAACAAATCATATTCAAGAA+TGG 0.524428 1.4:+29649643 None:intergenic
GTAGTTCGCACGATTGGACT+TGG 0.524941 1.4:-29649503 MS.gene71033:CDS
CCTTATTGGAAGAAGAATTG+AGG 0.526520 1.4:+29649747 None:intergenic
AACTCTTCCCAAATCTCCCA+TGG 0.530624 1.4:+29649605 None:intergenic
GATGGGAAGGTGAAGATGCT+GGG 0.538585 1.4:-29649478 MS.gene71033:CDS
TCGGCACCGCAAAGAATCCA+TGG 0.544845 1.4:-29649622 MS.gene71033:CDS
AAGAGTGACACTTCCCAAGA+TGG 0.562341 1.4:-29649392 MS.gene71033:CDS
TTGTAGAAGTTCATCATCAG+TGG 0.566028 1.4:+29649715 None:intergenic
GATTGCTCATCAAAGAATTG+TGG 0.568139 1.4:+29649342 None:intergenic
GCGAACTACGCGTGAGCTAG+TGG 0.571047 1.4:+29649517 None:intergenic
ACACTTCCCAAGATGGTGGA+TGG 0.575047 1.4:-29649385 MS.gene71033:CDS
TCACGCGTAGTTCGCACGAT+TGG 0.582348 1.4:-29649509 MS.gene71033:CDS
ATGGTGATATGATTGGGCAA+AGG 0.612759 1.4:+29649662 None:intergenic
ATTGGACTTGGTAGATGGGA+AGG 0.613480 1.4:-29649491 MS.gene71033:CDS
TGTAGAAGTTCATCATCAGT+GGG 0.615614 1.4:+29649716 None:intergenic
AAAGACAAGAAACAAATCCT+CGG 0.617591 1.4:-29649440 MS.gene71033:CDS
CGGCACCGCAAAGAATCCAT+GGG 0.621679 1.4:-29649621 MS.gene71033:CDS
TGCTCATCAAAGAATTGTGG+AGG 0.628029 1.4:+29649345 None:intergenic
AGTGACACTTCCCAAGATGG+TGG 0.639769 1.4:-29649389 MS.gene71033:CDS
GGCAGGTCCTGGAACTACGG+TGG 0.665496 1.4:+29649144 None:intergenic
GGAACTTCCTACTCGTATCG+AGG 0.686922 1.4:-29649581 MS.gene71033:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTCTTGAATATGATTTGTT+CGG - chr1.4:29649269-29649288 MS.gene71033:intron 20.0%
! GAACAAATCATATTCAAGAA+TGG + chr1.4:29649270-29649289 None:intergenic 25.0%
! TCTGCATAGAACATAATTAT+TGG + chr1.4:29649689-29649708 None:intergenic 25.0%
!! TTAAGGTTGTAAAGAAGTAT+AGG + chr1.4:29649361-29649380 None:intergenic 25.0%
!!! TTTTGTATCTTGTTTTTTGC+AGG - chr1.4:29649663-29649682 MS.gene71033:CDS 25.0%
AAAGACAAGAAACAAATCCT+CGG - chr1.4:29649470-29649489 MS.gene71033:CDS 30.0%
AAATCATGCACCAAATAACT+AGG + chr1.4:29649641-29649660 None:intergenic 30.0%
AATCATGCACCAAATAACTA+GGG + chr1.4:29649640-29649659 None:intergenic 30.0%
CTTATTGGAAGAAGAATTGA+GGG + chr1.4:29649165-29649184 None:intergenic 30.0%
TCAAGAATGGTGATATGATT+GGG + chr1.4:29649257-29649276 None:intergenic 30.0%
TTCAAGAATGGTGATATGAT+TGG + chr1.4:29649258-29649277 None:intergenic 30.0%
!! GCAACAATATTTTTGCTTAC+AGG + chr1.4:29649736-29649755 None:intergenic 30.0%
!! TGTTGTGAATTTTGTTGTAG+AGG + chr1.4:29649226-29649245 None:intergenic 30.0%
AAAGAATCCATGGGAGATTT+GGG - chr1.4:29649298-29649317 MS.gene71033:intron 35.0%
AGTGGCAGATTTCTTCTTTA+AGG + chr1.4:29649378-29649397 None:intergenic 35.0%
CCTCAATTCTTCTTCCAATA+AGG - chr1.4:29649163-29649182 MS.gene71033:CDS 35.0%
CCTTATTGGAAGAAGAATTG+AGG + chr1.4:29649166-29649185 None:intergenic 35.0%
GAATCAAACGCTACAGATAT+TGG + chr1.4:29649613-29649632 None:intergenic 35.0%
GATTCTTAGCCCTAGTTATT+TGG - chr1.4:29649628-29649647 MS.gene71033:CDS 35.0%
GATTGCTCATCAAAGAATTG+TGG + chr1.4:29649571-29649590 None:intergenic 35.0%
TGTAGAAGTTCATCATCAGT+GGG + chr1.4:29649197-29649216 None:intergenic 35.0%
TTCTTTGATGAGCAATCCTT+TGG - chr1.4:29649574-29649593 MS.gene71033:CDS 35.0%
TTGTAGAAGTTCATCATCAG+TGG + chr1.4:29649198-29649217 None:intergenic 35.0%
AATCTCCCATGGATTCTTTG+CGG + chr1.4:29649297-29649316 None:intergenic 40.0%
ATGGTGATATGATTGGGCAA+AGG + chr1.4:29649251-29649270 None:intergenic 40.0%
CAAAGAATCCATGGGAGATT+TGG - chr1.4:29649297-29649316 MS.gene71033:intron 40.0%
GCTACAGATATTGGAACCTA+GGG + chr1.4:29649604-29649623 None:intergenic 40.0%
TGCTCATCAAAGAATTGTGG+AGG + chr1.4:29649568-29649587 None:intergenic 40.0%
!!! GAAAACGTTTTTTCATGCCG+AGG + chr1.4:29649490-29649509 None:intergenic 40.0%
AACTCTTCCCAAATCTCCCA+TGG + chr1.4:29649308-29649327 None:intergenic 45.0%
AAGAGTGACACTTCCCAAGA+TGG - chr1.4:29649518-29649537 MS.gene71033:CDS 45.0%
AGTGGGTGCGATAACCTTAT+TGG + chr1.4:29649180-29649199 None:intergenic 45.0%
CAAGATCCATCCACCATCTT+GGG + chr1.4:29649534-29649553 None:intergenic 45.0%
CGCTACAGATATTGGAACCT+AGG + chr1.4:29649605-29649624 None:intergenic 45.0%
TGGGAGATTTGGGAAGAGTT+CGG - chr1.4:29649308-29649327 MS.gene71033:intron 45.0%
! ATTGGACTTGGTAGATGGGA+AGG - chr1.4:29649419-29649438 MS.gene71033:CDS 45.0%
! CACGATTGGACTTGGTAGAT+GGG - chr1.4:29649415-29649434 MS.gene71033:CDS 45.0%
! GTCTTTTCCTCGATACGAGT+AGG + chr1.4:29649339-29649358 None:intergenic 45.0%
AGATGGGAAGGTGAAGATGC+TGG - chr1.4:29649431-29649450 MS.gene71033:CDS 50.0%
AGTGACACTTCCCAAGATGG+TGG - chr1.4:29649521-29649540 MS.gene71033:CDS 50.0%
GATGGGAAGGTGAAGATGCT+GGG - chr1.4:29649432-29649451 MS.gene71033:CDS 50.0%
GCAAGATCCATCCACCATCT+TGG + chr1.4:29649535-29649554 None:intergenic 50.0%
GCAATCCTTTGGTAAGCCCT+AGG - chr1.4:29649585-29649604 MS.gene71033:CDS 50.0%
GGAACTTCCTACTCGTATCG+AGG - chr1.4:29649329-29649348 MS.gene71033:intron 50.0%
GTAGTTCGCACGATTGGACT+TGG - chr1.4:29649407-29649426 MS.gene71033:CDS 50.0%
TGGAACCTAGGGCTTACCAA+AGG + chr1.4:29649593-29649612 None:intergenic 50.0%
! GCACGATTGGACTTGGTAGA+TGG - chr1.4:29649414-29649433 MS.gene71033:CDS 50.0%
!! ACACTTCCCAAGATGGTGGA+TGG - chr1.4:29649525-29649544 MS.gene71033:CDS 50.0%
CGGCACCGCAAAGAATCCAT+GGG - chr1.4:29649289-29649308 MS.gene71033:intron 55.0%
TCACGCGTAGTTCGCACGAT+TGG - chr1.4:29649401-29649420 MS.gene71033:CDS 55.0%
TCGGCACCGCAAAGAATCCA+TGG - chr1.4:29649288-29649307 MS.gene71033:intron 55.0%
GCGAACTACGCGTGAGCTAG+TGG + chr1.4:29649396-29649415 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 29649158 29649774 29649158 ID=MS.gene71033
chr1.4 mRNA 29649158 29649774 29649158 ID=MS.gene71033.t1;Parent=MS.gene71033
chr1.4 exon 29649337 29649774 29649337 ID=MS.gene71033.t1.exon1;Parent=MS.gene71033.t1
chr1.4 CDS 29649337 29649774 29649337 ID=cds.MS.gene71033.t1;Parent=MS.gene71033.t1
chr1.4 exon 29649158 29649247 29649158 ID=MS.gene71033.t1.exon2;Parent=MS.gene71033.t1
chr1.4 CDS 29649158 29649247 29649158 ID=cds.MS.gene71033.t1;Parent=MS.gene71033.t1
Gene Sequence

>MS.gene71033

ATGGCCCTCAATTCTTCTTCCAATAAGGTTATCGCACCCACTGATGATGAACTTCTACAACAATTCCTCTACAACAAAATTCACAACAAACCTTTGCCCAATCATATCACCATTCTTGAATATGATTTGTTCGGCACCGCAAAGAATCCATGGGAGATTTGGGAAGAGTTCGGAACTTCCTACTCGTATCGAGGAAAAGACCTATACTTCTTTACAACCTTAAAGAAGAAATCTGCCACTAGCTCACGCGTAGTTCGCACGATTGGACTTGGTAGATGGGAAGGTGAAGATGCTGGGAAAAATATATTGAGCAAAGACAAGAAACAAATCCTCGGCATGAAAAAACGTTTTCGCTTTGAGAAGAGTGACACTTCCCAAGATGGTGGATGGATCTTGCATGAACATAGCCTCCACAATTCTTTGATGAGCAATCCTTTGGTAAGCCCTAGGTTCCAATATCTGTAGCGTTTGATTCTTAGCCCTAGTTATTTGGTGCATGATTTGATTTTGTATCTTGTTTTTTGCAGGCCAATAATTATGTTCTATGCAGATTTAGAAAGAATTGCACTCACGTACCTGTAAGCAAAAATATTGTTGCACAAGATAAACCACCGTAG
Protein sequence

>MS.gene71033.t1

MALNSSSNKVIAPTDDELLQQFLYNKIHNKPLPNHITILEYDLFGTAKNPWEIWEEFGTSYSYRGKDLYFFTTLKKKSATSSRVVRTIGLGRWEGEDAGKNILSKDKKQILGMKKRFRFEKSDTSQDGGWILHEHSLHNSLMSNPLANNYVLCRFRKNCTHVPVSKNIVAQDKPP