AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene84322

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene84322.t1 MTR_2g086510 96.129 155 6 0 1 155 1 155 9.10e-110 308
MS.gene84322.t1 MTR_4g053120 73.548 155 41 0 1 155 1 155 3.65e-83 241
MS.gene84322.t1 MTR_1g112030 71.970 132 36 1 24 155 26 156 1.20e-66 200
MS.gene84322.t1 MTR_1g112030 71.970 132 36 1 24 155 30 160 1.21e-66 200
MS.gene84322.t1 MTR_1g112050 71.756 131 36 1 24 154 24 153 3.46e-64 193
MS.gene84322.t1 MTR_8g088720 60.976 123 46 2 33 154 25 146 2.21e-48 153
MS.gene84322.t1 MTR_2g006290 59.504 121 45 2 37 154 29 148 1.15e-47 151
MS.gene84322.t1 MTR_5g006320 40.404 99 57 2 56 154 47 143 1.80e-21 85.1
MS.gene84322.t1 MTR_4g098490 28.571 147 100 3 13 155 14 159 4.15e-16 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene84322.t1 AT2G27510 73.171 123 32 1 34 155 33 155 1.01e-63 192
MS.gene84322.t1 AT1G60950 66.667 117 36 2 40 154 32 147 2.16e-50 158
MS.gene84322.t1 AT1G10960 67.544 114 34 2 40 151 32 144 9.90e-48 152
MS.gene84322.t1 AT5G10000 57.143 112 46 1 45 154 36 147 6.71e-44 142
MS.gene84322.t1 AT4G14890 45.263 95 50 2 60 154 52 144 2.45e-22 87.4
MS.gene84322.t1 AT1G32550 39.535 86 52 0 70 155 69 154 6.11e-18 76.6
MS.gene84322.t1 AT1G32550 37.255 102 45 3 70 155 69 167 2.97e-13 64.7

Find 32 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGCTGGGAAGGTTGTTTC+TGG 0.160515 2.2:-12102944 MS.gene84322:CDS
TCTCGATGACAATCAATTAA+AGG 0.218310 2.2:-12102894 MS.gene84322:CDS
CGGCAGTAGTGAATTGATTT+TGG 0.237516 2.2:+12103203 None:intergenic
AAGAATGTTTCACGATCTTT+TGG 0.297059 2.2:-12103145 MS.gene84322:CDS
GGAGCATGCTCTACCTGTGC+TGG 0.371691 2.2:-12102959 MS.gene84322:CDS
TAGATGAAGCAGATGACTTC+AGG 0.402843 2.2:+12103122 None:intergenic
CAAAATTAAGCTGATTGGTC+CGG 0.411846 2.2:-12103077 MS.gene84322:CDS
TGAAGTCATCTGCTTCATCT+AGG 0.420369 2.2:-12103120 MS.gene84322:CDS
GCTTACAAAATTAAGCTGAT+TGG 0.422819 2.2:-12103082 MS.gene84322:CDS
CTTCCGTATTCATGCCGTGC+TGG 0.464676 2.2:-12102980 MS.gene84322:CDS
TGAATAACACAGTCTGAAGT+TGG 0.477269 2.2:+12102842 None:intergenic
GCTCCAGCACGGCATGAATA+CGG 0.486288 2.2:+12102977 None:intergenic
GTCAAGTGCCCTTCCACTCT+AGG 0.511274 2.2:-12103175 MS.gene84322:CDS
ATGCTCTACCTGTGCTGGGA+AGG 0.518844 2.2:-12102954 MS.gene84322:CDS
GAGCATGCTCTACCTGTGCT+GGG 0.533531 2.2:-12102958 MS.gene84322:CDS
GAAGTCATCTGCTTCATCTA+GGG 0.543475 2.2:-12103119 MS.gene84322:CDS
GTCAGCCTTGTCAACTGTGA+AGG 0.544738 2.2:-12103257 MS.gene84322:CDS
TTCGCAGATCCTAGAGTGGA+AGG 0.547384 2.2:+12103166 None:intergenic
TTCATCTAGGGTTACTGCAG+TGG 0.553859 2.2:-12103107 MS.gene84322:CDS
GGTTCTGTCGATCAGTCAGA+TGG 0.558348 2.2:-12102923 MS.gene84322:CDS
GTTATTCATACGCACAAAGA+AGG 0.560127 2.2:-12102827 MS.gene84322:CDS
ATTAAGCTGATTGGTCCGGA+TGG 0.560404 2.2:-12103073 MS.gene84322:CDS
AGAAACAACCTTCCCAGCAC+AGG 0.578473 2.2:+12102946 None:intergenic
TTAGATGCAGCAGAGAATGC+CGG 0.589828 2.2:-12103010 MS.gene84322:CDS
GATGACAATCAATTAAAGGA+AGG 0.602977 2.2:-12102890 MS.gene84322:CDS
GGAAGGGCACTTGACTGTTG+CGG 0.612607 2.2:+12103183 None:intergenic
AGGTAGAGCATGCTCCAGCA+CGG 0.616285 2.2:+12102966 None:intergenic
TGAAGTTGGATAAGCTACAC+AGG 0.630428 2.2:+12102856 None:intergenic
TGAATACGGAAGTTCAACTC+CGG 0.648667 2.2:+12102991 None:intergenic
GTAAACCTTCACAGTTGACA+AGG 0.652422 2.2:+12103252 None:intergenic
TCGCAGATCCTAGAGTGGAA+GGG 0.653095 2.2:+12103167 None:intergenic
ATTCTTCGCAGATCCTAGAG+TGG 0.678656 2.2:+12103162 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCATTTTCTTTTCCATC+CGG + chr2.2:12103018-12103037 None:intergenic 25.0%
GATGACAATCAATTAAAGGA+AGG - chr2.2:12103183-12103202 MS.gene84322:CDS 30.0%
GCTTACAAAATTAAGCTGAT+TGG - chr2.2:12102991-12103010 MS.gene84322:CDS 30.0%
TCTCGATGACAATCAATTAA+AGG - chr2.2:12103179-12103198 MS.gene84322:CDS 30.0%
! AAGAATGTTTCACGATCTTT+TGG - chr2.2:12102928-12102947 MS.gene84322:CDS 30.0%
GTTATTCATACGCACAAAGA+AGG - chr2.2:12103246-12103265 MS.gene84322:CDS 35.0%
! CAAAATTAAGCTGATTGGTC+CGG - chr2.2:12102996-12103015 MS.gene84322:CDS 35.0%
! TGAATAACACAGTCTGAAGT+TGG + chr2.2:12103234-12103253 None:intergenic 35.0%
GAAGTCATCTGCTTCATCTA+GGG - chr2.2:12102954-12102973 MS.gene84322:CDS 40.0%
GTAAACCTTCACAGTTGACA+AGG + chr2.2:12102824-12102843 None:intergenic 40.0%
TAGATGAAGCAGATGACTTC+AGG + chr2.2:12102954-12102973 None:intergenic 40.0%
TGAAGTCATCTGCTTCATCT+AGG - chr2.2:12102953-12102972 MS.gene84322:CDS 40.0%
TGAAGTTGGATAAGCTACAC+AGG + chr2.2:12103220-12103239 None:intergenic 40.0%
TGAATACGGAAGTTCAACTC+CGG + chr2.2:12103085-12103104 None:intergenic 40.0%
!! CGGCAGTAGTGAATTGATTT+TGG + chr2.2:12102873-12102892 None:intergenic 40.0%
!!! CAGTTTTAAGCGTGCAATAG+CGG + chr2.2:12102846-12102865 None:intergenic 40.0%
ATTCTTCGCAGATCCTAGAG+TGG + chr2.2:12102914-12102933 None:intergenic 45.0%
TTAGATGCAGCAGAGAATGC+CGG - chr2.2:12103063-12103082 MS.gene84322:CDS 45.0%
! ATTAAGCTGATTGGTCCGGA+TGG - chr2.2:12103000-12103019 MS.gene84322:CDS 45.0%
! TTCATCTAGGGTTACTGCAG+TGG - chr2.2:12102966-12102985 MS.gene84322:CDS 45.0%
AGAAACAACCTTCCCAGCAC+AGG + chr2.2:12103130-12103149 None:intergenic 50.0%
GGTTCTGTCGATCAGTCAGA+TGG - chr2.2:12103150-12103169 MS.gene84322:CDS 50.0%
TCGCAGATCCTAGAGTGGAA+GGG + chr2.2:12102909-12102928 None:intergenic 50.0%
TTCGCAGATCCTAGAGTGGA+AGG + chr2.2:12102910-12102929 None:intergenic 50.0%
! GTCAGCCTTGTCAACTGTGA+AGG - chr2.2:12102816-12102835 MS.gene84322:CDS 50.0%
! TGTGCTGGGAAGGTTGTTTC+TGG - chr2.2:12103129-12103148 MS.gene84322:CDS 50.0%
AGGTAGAGCATGCTCCAGCA+CGG + chr2.2:12103110-12103129 None:intergenic 55.0%
ATGCTCTACCTGTGCTGGGA+AGG - chr2.2:12103119-12103138 MS.gene84322:CDS 55.0%
CTTCCGTATTCATGCCGTGC+TGG - chr2.2:12103093-12103112 MS.gene84322:CDS 55.0%
GAGCATGCTCTACCTGTGCT+GGG - chr2.2:12103115-12103134 MS.gene84322:CDS 55.0%
GCTCCAGCACGGCATGAATA+CGG + chr2.2:12103099-12103118 None:intergenic 55.0%
GTCAAGTGCCCTTCCACTCT+AGG - chr2.2:12102898-12102917 MS.gene84322:CDS 55.0%
!! GGAAGGGCACTTGACTGTTG+CGG + chr2.2:12102893-12102912 None:intergenic 55.0%
GGAGCATGCTCTACCTGTGC+TGG - chr2.2:12103114-12103133 MS.gene84322:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 12102814 12103281 12102814 ID=MS.gene84322
chr2.2 mRNA 12102814 12103281 12102814 ID=MS.gene84322.t1;Parent=MS.gene84322
chr2.2 exon 12102814 12103281 12102814 ID=MS.gene84322.t1.exon1;Parent=MS.gene84322.t1
chr2.2 CDS 12102814 12103281 12102814 ID=cds.MS.gene84322.t1;Parent=MS.gene84322.t1
Gene Sequence

>MS.gene84322

ATGTCAGCCTTGTCAACTGTGAAGGTTTACCGCTATTGCACGCTTAAAACTGCTAACCAAAATCAATTCACTACTGCCGCAACAGTCAAGTGCCCTTCCACTCTAGGATCTGCGAAGAATGTTTCACGATCTTTTGGCCTGAAGTCATCTGCTTCATCTAGGGTTACTGCAGTGGCTGCTTACAAAATTAAGCTGATTGGTCCGGATGGAAAAGAAAATGAATTTGAAGCAACTGATGACACTTACATCTTAGATGCAGCAGAGAATGCCGGAGTTGAACTTCCGTATTCATGCCGTGCTGGAGCATGCTCTACCTGTGCTGGGAAGGTTGTTTCTGGTTCTGTCGATCAGTCAGATGGCTCATTTCTCGATGACAATCAATTAAAGGAAGGTTATGTTCTAACCTGTGTAGCTTATCCAACTTCAGACTGTGTTATTCATACGCACAAAGAAGGTGACCTCTATTGA
Protein sequence

>MS.gene84322.t1

MSALSTVKVYRYCTLKTANQNQFTTAATVKCPSTLGSAKNVSRSFGLKSSASSRVTAVAAYKIKLIGPDGKENEFEATDDTYILDAAENAGVELPYSCRAGACSTCAGKVVSGSVDQSDGSFLDDNQLKEGYVLTCVAYPTSDCVIHTHKEGDLY