AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62367

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62367.t1 MTR_6g027290 88.636 176 20 0 1 176 1 176 4.17e-116 327
MS.gene62367.t1 MTR_2g030570 43.750 176 98 1 1 176 1 175 3.16e-44 155
MS.gene62367.t1 MTR_2g030600 44.318 176 95 2 1 176 1 173 2.85e-42 149
MS.gene62367.t1 MTR_6g477820 35.882 170 100 3 1 164 1 167 1.10e-27 108
MS.gene62367.t1 MTR_4g047800 33.094 139 92 1 26 164 61 198 3.97e-23 95.5
MS.gene62367.t1 MTR_2g088470 30.189 159 107 2 9 164 48 205 3.28e-22 93.2
MS.gene62367.t1 MTR_0198s0030 35.000 160 92 4 11 164 40 193 9.14e-20 85.9
MS.gene62367.t1 MTR_7g076080 29.885 174 114 3 4 174 74 242 1.20e-19 85.9
MS.gene62367.t1 MTR_1g101280 31.724 145 90 2 24 164 55 194 3.37e-18 81.6
MS.gene62367.t1 MTR_7g027265 35.849 106 67 1 40 145 32 136 2.28e-17 74.7
MS.gene62367.t1 MTR_5g046040 37.931 116 69 2 50 164 59 172 5.23e-17 77.4
MS.gene62367.t1 MTR_8g432540 27.950 161 108 2 11 164 94 253 9.23e-17 77.4
MS.gene62367.t1 MTR_5g029320 31.858 113 77 0 49 161 113 225 1.06e-16 77.0
MS.gene62367.t1 MTR_7g427700 31.746 126 74 1 48 173 39 152 1.94e-15 73.2
MS.gene62367.t1 MTR_2g101720 29.710 138 90 2 29 162 143 277 2.07e-15 73.6
MS.gene62367.t1 MTR_7g427710 32.479 117 67 1 40 156 31 135 2.17e-15 73.6
MS.gene62367.t1 MTR_2g030720 33.333 129 73 3 21 149 14 129 4.79e-14 66.6
MS.gene62367.t1 MTR_5g005600 34.545 110 68 3 40 148 60 166 3.63e-13 67.0
MS.gene62367.t1 MTR_2g030660 32.110 109 65 2 40 147 30 130 5.33e-13 66.6
MS.gene62367.t1 MTR_2g030700 27.692 130 84 2 21 150 14 133 1.75e-11 59.7
MS.gene62367.t1 MTR_2g030680 27.692 130 84 2 21 150 14 133 7.83e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62367.t1 AT1G73360 39.860 143 83 2 23 164 30 170 9.09e-30 114
MS.gene62367.t1 AT1G17920 41.880 117 65 2 49 164 45 159 9.42e-25 100
MS.gene62367.t1 AT1G17920 41.880 117 65 2 49 164 45 159 9.42e-25 100
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.18e-22 94.4
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 1.20e-22 94.4
MS.gene62367.t1 AT4G21750 32.026 153 99 2 13 161 46 197 2.28e-21 90.9
MS.gene62367.t1 AT4G21750 32.026 153 99 2 13 161 46 197 2.28e-21 90.9
MS.gene62367.t1 AT4G21750 32.026 153 99 2 13 161 46 197 2.28e-21 90.9
MS.gene62367.t1 AT4G21750 32.026 153 99 2 13 161 46 197 2.28e-21 90.9
MS.gene62367.t1 AT1G05230 32.051 156 102 2 9 164 51 202 8.97e-21 89.0
MS.gene62367.t1 AT3G03260 36.364 121 77 0 40 160 38 158 2.45e-20 87.8
MS.gene62367.t1 AT3G03260 31.818 154 105 0 7 160 5 158 2.61e-20 87.4
MS.gene62367.t1 AT4G04890 32.450 151 100 2 11 161 49 197 3.75e-20 87.0
MS.gene62367.t1 AT4G04890 32.450 151 100 2 11 161 49 197 3.75e-20 87.0
MS.gene62367.t1 AT3G61150 30.137 146 100 2 11 156 97 240 1.89e-17 79.3
MS.gene62367.t1 AT5G46880 27.273 154 96 3 12 156 93 239 8.39e-17 77.4
MS.gene62367.t1 AT5G46880 27.273 154 96 3 12 156 93 239 8.39e-17 77.4
MS.gene62367.t1 AT5G46880 27.273 154 96 3 12 156 93 239 8.39e-17 77.4
MS.gene62367.t1 AT5G17320 31.915 141 96 0 16 156 17 157 9.47e-17 77.4
MS.gene62367.t1 AT5G52170 33.582 134 88 1 29 162 61 193 1.99e-16 76.6
MS.gene62367.t1 AT5G52170 33.582 134 88 1 29 162 61 193 2.10e-16 76.3
MS.gene62367.t1 AT5G52170 33.582 134 88 1 29 162 61 193 2.10e-16 76.3
MS.gene62367.t1 AT4G00730 28.966 145 93 3 17 156 125 264 3.60e-16 75.9
MS.gene62367.t1 AT4G00730 28.966 145 93 3 17 156 125 264 6.65e-16 74.7
MS.gene62367.t1 AT1G79840 29.371 143 89 2 15 155 120 252 7.35e-16 74.7
MS.gene62367.t1 AT1G79840 29.371 143 89 2 15 155 33 165 8.40e-16 74.7
MS.gene62367.t1 AT1G79840 29.371 143 89 2 15 155 33 165 8.40e-16 74.7
MS.gene62367.t1 AT1G79840 29.371 143 89 2 15 155 91 223 1.08e-15 74.3
MS.gene62367.t1 AT1G34650 32.331 133 89 1 33 165 24 155 1.89e-15 73.6
MS.gene62367.t1 AT1G79840 28.859 149 89 3 9 155 90 223 2.58e-14 70.1
MS.gene62367.t1 AT1G79840 28.859 149 89 3 9 155 90 223 2.61e-14 70.5
MS.gene62367.t1 AT4G17710 27.559 127 79 1 28 154 91 204 6.21e-14 69.3
MS.gene62367.t1 AT2G32370 26.797 153 103 2 10 158 53 200 7.24e-11 60.5

Find 34 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATTTCGTTGGGCTTCATT+TGG 0.279004 6.4:+1793087 None:intergenic
GAACCAAGATTTGATTTGTT+TGG 0.287062 6.4:+1793038 None:intergenic
AACCAAGATTTGATTTGTTT+GGG 0.304941 6.4:+1793039 None:intergenic
ATGGGAGGCGTCGGTGGGTC+TGG 0.334236 6.4:-1793654 MS.gene62367:CDS
AGCCCAAACAAATCAAATCT+TGG 0.386306 6.4:-1793041 MS.gene62367:CDS
GATTTCGTTGGGCTTCATTT+GGG 0.397275 6.4:+1793088 None:intergenic
CTTAGCTAATTGATTTCGTT+GGG 0.409743 6.4:+1793077 None:intergenic
ATCAATTAGCTAAGGAGGTT+GGG 0.412482 6.4:-1793068 MS.gene62367:CDS
AATCTTGGTTCGATAATAAG+AGG 0.416511 6.4:-1793026 MS.gene62367:CDS
CCTTAGCTAATTGATTTCGT+TGG 0.420498 6.4:+1793076 None:intergenic
AACGTTCATGCTCATGCATT+GGG 0.431887 6.4:+1792756 None:intergenic
TCTGTTCGTACTTTGCTAGC+AGG 0.432332 6.4:+1792562 None:intergenic
CTGTTCGTACTTTGCTAGCA+GGG 0.445221 6.4:+1792563 None:intergenic
TATTCGATGGGAGGCGTCGG+TGG 0.460383 6.4:-1793660 MS.gene62367:CDS
ATCTGAGACTGAGTTATCAA+TGG 0.465187 6.4:+1793623 None:intergenic
AATCAATTAGCTAAGGAGGT+TGG 0.482913 6.4:-1793069 MS.gene62367:CDS
TTTGAATAAAGATTCATGGC+AGG 0.493133 6.4:-1793120 MS.gene62367:intron
AAACGTTCATGCTCATGCAT+TGG 0.496436 6.4:+1792755 None:intergenic
TTTCATGCAAAAGATGAGAA+TGG 0.506914 6.4:-1792735 MS.gene62367:CDS
TTGAATAAAGATTCATGGCA+GGG 0.511003 6.4:-1793119 MS.gene62367:intron
CCACTAAAACCTTTGTATTG+TGG 0.519309 6.4:+1793588 None:intergenic
ATTCGATGGGAGGCGTCGGT+GGG 0.547865 6.4:-1793659 MS.gene62367:CDS
TGCTCATGCATTGGGAAAGG+AGG 0.551665 6.4:+1792764 None:intergenic
TAATAAGAGGGCTACACTGA+AGG 0.581057 6.4:-1793013 MS.gene62367:intron
ACGAAATCAATTAGCTAAGG+AGG 0.581875 6.4:-1793073 MS.gene62367:CDS
GAATGACATGCTGAAAGAGA+AGG 0.584443 6.4:-1792711 MS.gene62367:intron
TCATGCTCATGCATTGGGAA+AGG 0.590182 6.4:+1792761 None:intergenic
GTTTATTCGATGGGAGGCGT+CGG 0.591995 6.4:-1793663 MS.gene62367:CDS
CCAACGAAATCAATTAGCTA+AGG 0.600046 6.4:-1793076 MS.gene62367:CDS
GCTAGCAAAGTACGAACAGA+AGG 0.603167 6.4:-1792559 MS.gene62367:CDS
AAAATGGTTTATTCGATGGG+AGG 0.608024 6.4:-1793669 MS.gene62367:CDS
ATCTTGGTTCGATAATAAGA+GGG 0.641146 6.4:-1793025 MS.gene62367:CDS
TTCGTACTTTGCTAGCAGGG+TGG 0.642156 6.4:+1792566 None:intergenic
CAAAGCAGACCACAATACAA+AGG 0.659814 6.4:-1793597 MS.gene62367:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAATACTTAGTTATTTTTT+AGG + chr6.4:1793543-1793562 None:intergenic 10.0%
!!! TAATACTTAGTTATTTTTTA+GGG + chr6.4:1793542-1793561 None:intergenic 10.0%
!!! TCTTTTATTACTTGATTTAT+TGG - chr6.4:1792721-1792740 MS.gene62367:CDS 15.0%
!!! TTATTTTGAATAAAGATTCA+TGG - chr6.4:1793048-1793067 MS.gene62367:CDS 15.0%
!!! ACTTGATTTATTGGTTTTAT+GGG - chr6.4:1792730-1792749 MS.gene62367:CDS 20.0%
!!! CAATCATATTTTTTTTTTGG+TGG - chr6.4:1792992-1793011 MS.gene62367:intron 20.0%
!!! GCTCAATCATATTTTTTTTT+TGG - chr6.4:1792989-1793008 MS.gene62367:intron 20.0%
!!! TACTTGATTTATTGGTTTTA+TGG - chr6.4:1792729-1792748 MS.gene62367:CDS 20.0%
!!! TATGTGTTGTTTCAATTTAT+TGG - chr6.4:1792697-1792716 MS.gene62367:intron 20.0%
! ATTGAAACAACACATACAAA+TGG + chr6.4:1792693-1792712 None:intergenic 25.0%
! GCTTAAGTAACAATAAATCA+TGG + chr6.4:1792971-1792990 None:intergenic 25.0%
! TTTCCTACAAAATTGATGTA+TGG + chr6.4:1792757-1792776 None:intergenic 25.0%
!!! AACCAAGATTTGATTTGTTT+GGG + chr6.4:1793136-1793155 None:intergenic 25.0%
!!! TATATTTTAAACCACCAAAC+TGG - chr6.4:1792793-1792812 MS.gene62367:CDS 25.0%
!!! TTTATTTTTTCAGATCGAGA+AGG - chr6.4:1793580-1793599 MS.gene62367:CDS 25.0%
ACAATAAATCATGGCTTCAA+AGG + chr6.4:1792962-1792981 None:intergenic 30.0%
CAATAAATCATGGCTTCAAA+GGG + chr6.4:1792961-1792980 None:intergenic 30.0%
TTGAATAAAGATTCATGGCA+GGG - chr6.4:1793053-1793072 MS.gene62367:CDS 30.0%
TTTCATGCAAAAGATGAGAA+TGG - chr6.4:1793437-1793456 MS.gene62367:intron 30.0%
TTTGAATAAAGATTCATGGC+AGG - chr6.4:1793052-1793071 MS.gene62367:CDS 30.0%
! AATCTTGGTTCGATAATAAG+AGG - chr6.4:1793146-1793165 MS.gene62367:intron 30.0%
! ATCTTGGTTCGATAATAAGA+GGG - chr6.4:1793147-1793166 MS.gene62367:intron 30.0%
! CTTAGCTAATTGATTTCGTT+GGG + chr6.4:1793098-1793117 None:intergenic 30.0%
!! GAACCAAGATTTGATTTGTT+TGG + chr6.4:1793137-1793156 None:intergenic 30.0%
!!! ACTTTTGAAGTATACTTCTC+TGG + chr6.4:1792613-1792632 None:intergenic 30.0%
AATCAATTAGCTAAGGAGGT+TGG - chr6.4:1793103-1793122 MS.gene62367:CDS 35.0%
ACGAAATCAATTAGCTAAGG+AGG - chr6.4:1793099-1793118 MS.gene62367:CDS 35.0%
AGCCCAAACAAATCAAATCT+TGG - chr6.4:1793131-1793150 MS.gene62367:intron 35.0%
ATCAATTAGCTAAGGAGGTT+GGG - chr6.4:1793104-1793123 MS.gene62367:CDS 35.0%
CCAACGAAATCAATTAGCTA+AGG - chr6.4:1793096-1793115 MS.gene62367:CDS 35.0%
CCACTAAAACCTTTGTATTG+TGG + chr6.4:1792587-1792606 None:intergenic 35.0%
! ATCTGAGACTGAGTTATCAA+TGG + chr6.4:1792552-1792571 None:intergenic 35.0%
! ATGACATTTTGCGAAAGTTG+TGG - chr6.4:1793381-1793400 MS.gene62367:intron 35.0%
! CCTTAGCTAATTGATTTCGT+TGG + chr6.4:1793099-1793118 None:intergenic 35.0%
! GGACCATACATCAATTTTGT+AGG - chr6.4:1792751-1792770 MS.gene62367:CDS 35.0%
! TGACATTTTGCGAAAGTTGT+GGG - chr6.4:1793382-1793401 MS.gene62367:intron 35.0%
! TGTTATCGATTAGACCAGTT+TGG + chr6.4:1792810-1792829 None:intergenic 35.0%
!! CCACAATACAAAGGTTTTAG+TGG - chr6.4:1792584-1792603 MS.gene62367:intron 35.0%
AAACGTTCATGCTCATGCAT+TGG + chr6.4:1793420-1793439 None:intergenic 40.0%
AAATCATGGCTTCAAAGGGA+TGG + chr6.4:1792957-1792976 None:intergenic 40.0%
AACGTTCATGCTCATGCATT+GGG + chr6.4:1793419-1793438 None:intergenic 40.0%
CAAAGCAGACCACAATACAA+AGG - chr6.4:1792575-1792594 MS.gene62367:CDS 40.0%
GAATGACATGCTGAAAGAGA+AGG - chr6.4:1793461-1793480 MS.gene62367:intron 40.0%
GATTTCGTTGGGCTTCATTT+GGG + chr6.4:1793087-1793106 None:intergenic 40.0%
TAATAAGAGGGCTACACTGA+AGG - chr6.4:1793159-1793178 MS.gene62367:intron 40.0%
TGATTTCGTTGGGCTTCATT+TGG + chr6.4:1793088-1793107 None:intergenic 40.0%
! ACATTTTGCGAAAGTTGTGG+GGG - chr6.4:1793384-1793403 MS.gene62367:intron 40.0%
! GACATTTTGCGAAAGTTGTG+GGG - chr6.4:1793383-1793402 MS.gene62367:intron 40.0%
! TATCGATTAGACCAGTTTGG+TGG + chr6.4:1792807-1792826 None:intergenic 40.0%
CTGTTCGTACTTTGCTAGCA+GGG + chr6.4:1793612-1793631 None:intergenic 45.0%
GCTAGCAAAGTACGAACAGA+AGG - chr6.4:1793613-1793632 MS.gene62367:CDS 45.0%
TCATGCTCATGCATTGGGAA+AGG + chr6.4:1793414-1793433 None:intergenic 45.0%
TCTGTTCGTACTTTGCTAGC+AGG + chr6.4:1793613-1793632 None:intergenic 45.0%
TGCTCATGCATTGGGAAAGG+AGG + chr6.4:1793411-1793430 None:intergenic 50.0%
TTCGTACTTTGCTAGCAGGG+TGG + chr6.4:1793609-1793628 None:intergenic 50.0%
! GTTTATTCGATGGGAGGCGT+CGG - chr6.4:1792509-1792528 MS.gene62367:CDS 50.0%
!! ATTCGATGGGAGGCGTCGGT+GGG - chr6.4:1792513-1792532 MS.gene62367:CDS 60.0%
!! TATTCGATGGGAGGCGTCGG+TGG - chr6.4:1792512-1792531 MS.gene62367:CDS 60.0%
!! ATGGGAGGCGTCGGTGGGTC+TGG - chr6.4:1792518-1792537 MS.gene62367:CDS 70.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 1792506 1793688 1792506 ID=MS.gene62367
chr6.4 mRNA 1792506 1793688 1792506 ID=MS.gene62367.t1;Parent=MS.gene62367
chr6.4 exon 1793564 1793688 1793564 ID=MS.gene62367.t1.exon1;Parent=MS.gene62367.t1
chr6.4 CDS 1793564 1793688 1793564 ID=cds.MS.gene62367.t1;Parent=MS.gene62367.t1
chr6.4 exon 1793014 1793131 1793014 ID=MS.gene62367.t1.exon2;Parent=MS.gene62367.t1
chr6.4 CDS 1793014 1793131 1793014 ID=cds.MS.gene62367.t1;Parent=MS.gene62367.t1
chr6.4 exon 1792712 1792903 1792712 ID=MS.gene62367.t1.exon3;Parent=MS.gene62367.t1
chr6.4 CDS 1792712 1792903 1792712 ID=cds.MS.gene62367.t1;Parent=MS.gene62367.t1
chr6.4 exon 1792506 1792601 1792506 ID=MS.gene62367.t1.exon4;Parent=MS.gene62367.t1
chr6.4 CDS 1792506 1792601 1792506 ID=cds.MS.gene62367.t1;Parent=MS.gene62367.t1
Gene Sequence

>MS.gene62367

ATGGTTTATTCGATGGGAGGCGTCGGTGGGTCTGGAGATAAAGCCATTGATAACTCAGTCTCAGATAATCAAAGCAGACCACAATACAAAGGTTTTAGTGGTTACCAGAGAAGTATACTTCAAAAGTAAGATGAACTTTTTTTTTTTGTTAAGAATATTTTCTTTTCATTTTTATTATTTGTAACCATTTGTATGTGTTGTTTCAATTTATTGGTTCTTTTATTACTTGATTTATTGGTTTTATGGGACCATACATCAATTTTGTAGGAAAGCATACAAAAAATGTTTATATTTTAAACCACCAAACTGGTCTAATCGATAACAGACACACATGATTACAAAACTTTCTGTGTCTAATTAAGTTTTTTTAGATGTTATGTTTAATTAAGTTATACACATATCTTTTCATTGATTATGAATCAAGTATCTTAGTTTTTGTTTGTTTTGACCATCCCTTTGAAGCCATGATTTATTGTTACTTAAGCTCAATCATATTTTTTTTTTGGTGGTGTTAAGCTCAATCATTTGATTACTTAATTAATTTATTTTGAATAAAGATTCATGGCAGGGAACTCTAACCCAAATGAAGCCCAACGAAATCAATTAGCTAAGGAGGTTGGGCTTGAGCCCAAACAAATCAAATCTTGGTTCGATAATAAGAGGGCTACACTGAAGGTAATTGTCTTCAAAATATCACTGCTCTTTTTCTTTTCACTAACTCATATCACATGCTTTCATATAACTAGTACTAATTATTTATATATATATTTTACATTATTATTAAGAAAAAACACATGAGAGAAGATAACAAAGCTCTTCATGCTGCAAGAAAAGAGCTCATTACTGAAAATATCGTTGTGAAAAAGATATTCAAGATGACATTTTGCGAAAGTTGTGGGGGTCCTCCTTTCCCAATGCATGAGCATGAACGTTTCATGCAAAAGATGAGAATGGAGAATGACATGCTGAAAGAGAAGGTTAGTGAATATTTTAATTTTATCAAATATCGATGATAATTTTTTAATTAAATATTCCCTAAAAAATAACTAAGTATTATTTATTCATGAATCAAGTTTTATTTTTTCAGATCGAGAAGGTGTCCACCCTGCTAGCAAAGTACGAACAGAAGGAAATCTCACAGTTTGATTTTGAATACACTTTTGCTCGTTTAAATGCATTTTGA
Protein sequence

>MS.gene62367.t1

MVYSMGGVGGSGDKAIDNSVSDNQSRPQYKGFSGYQRSILQKFMAGNSNPNEAQRNQLAKEVGLEPKQIKSWFDNKRATLKKKHMREDNKALHAARKELITENIVVKKIFKMTFCESCGGPPFPMHEHERFMQKMRMENDMLKEKIEKVSTLLAKYEQKEISQFDFEYTFARLNAF