AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056421

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056421.t1 MTR_2g076780 61.957 92 35 0 23 114 21 112 1.51e-33 119
MS.gene056421.t1 MTR_8g069080 45.695 151 67 2 24 162 54 201 1.87e-32 116
MS.gene056421.t1 MTR_5g032600 66.038 53 18 0 37 89 76 128 1.09e-19 83.6
MS.gene056421.t1 MTR_3g100650 69.231 52 16 0 37 88 78 129 7.14e-19 81.3
MS.gene056421.t1 MTR_1g077020 62.264 53 20 0 36 88 6 58 8.11e-19 79.3
MS.gene056421.t1 MTR_5g065440 45.238 84 46 0 5 88 24 107 1.00e-18 80.9
MS.gene056421.t1 MTR_5g020510 59.184 49 20 0 39 87 99 147 3.13e-18 79.7
MS.gene056421.t1 MTR_4g134580 53.448 58 27 0 39 96 113 170 1.05e-17 79.0
MS.gene056421.t1 MTR_8g442330 43.103 116 33 4 48 162 14 97 4.81e-17 73.6
MS.gene056421.t1 MTR_3g039810 53.846 52 24 0 37 88 18 69 2.88e-15 67.4
MS.gene056421.t1 MTR_8g467340 54.237 59 25 1 32 88 57 115 1.11e-14 70.9
MS.gene056421.t1 MTR_6g012280 55.769 52 21 1 39 88 91 142 2.42e-14 69.3
MS.gene056421.t1 MTR_7g010300 51.852 54 24 1 37 88 86 139 8.89e-13 65.1
MS.gene056421.t1 MTR_6g012220 49.231 65 29 2 36 100 18 78 8.58e-12 58.2
MS.gene056421.t1 MTR_6g073013 40.000 65 38 1 39 102 19 83 3.49e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056421.t1 AT4G24660 51.282 78 34 2 37 112 47 122 2.97e-22 89.4
MS.gene056421.t1 AT4G24660 51.282 78 34 2 37 112 47 122 3.66e-22 89.4
MS.gene056421.t1 AT1G74660 62.264 53 20 0 37 89 37 89 2.68e-19 78.2
MS.gene056421.t1 AT1G74660 62.264 53 20 0 37 89 37 89 4.46e-19 77.8
MS.gene056421.t1 AT2G02540 53.704 54 25 0 36 89 84 137 1.75e-18 80.9
MS.gene056421.t1 AT2G02540 53.704 54 25 0 36 89 84 137 1.75e-18 80.9
MS.gene056421.t1 AT1G75240 59.615 52 21 0 37 88 74 125 4.17e-18 79.7
MS.gene056421.t1 AT5G65410 66.667 51 17 0 38 88 74 124 5.05e-18 79.0
MS.gene056421.t1 AT3G50890 57.692 52 22 0 37 88 58 109 2.12e-17 77.0
MS.gene056421.t1 AT1G14440 53.704 54 25 0 36 89 87 140 2.24e-17 77.8
MS.gene056421.t1 AT1G14440 53.704 54 25 0 36 89 87 140 2.24e-17 77.8
MS.gene056421.t1 AT3G28917 52.830 53 24 1 37 88 31 83 9.62e-15 66.6
MS.gene056421.t1 AT5G15210 49.275 69 32 2 22 88 40 107 5.88e-14 67.8
MS.gene056421.t1 AT2G18350 51.923 52 25 0 37 88 80 131 9.59e-14 67.4
MS.gene056421.t1 AT1G69600 51.852 54 24 1 37 88 29 82 2.09e-13 66.2
MS.gene056421.t1 AT1G18835 52.830 53 22 1 37 89 24 73 2.34e-13 62.8
MS.gene056421.t1 AT3G28920 44.048 84 35 2 37 118 50 123 4.02e-13 65.9
MS.gene056421.t1 AT5G60480 50.000 58 27 1 32 87 30 87 6.69e-12 61.6
MS.gene056421.t1 AT5G39760 50.000 56 26 1 35 88 52 107 3.10e-11 60.8

Find 37 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGGTATTGGTGGTGGTGG+TGG 0.379831 8.2:-33682801 MS.gene056421:CDS
TTCTGAAGCAAATAGTTTCC+TGG 0.384443 8.2:-33683174 MS.gene056421:CDS
CAACAATAGTTTCCTTCCTA+TGG 0.387746 8.2:+33683009 None:intergenic
CCACCTCTATCTTTGTATGA+AGG 0.411052 8.2:-33682888 MS.gene056421:CDS
ATTGGAGGTTATGCCCTTGA+TGG 0.419532 8.2:-33683113 MS.gene056421:CDS
CCAATACCACCAATATTGAT+AGG 0.424085 8.2:+33682813 None:intergenic
CCTATCAATATTGGTGGTAT+TGG 0.426127 8.2:-33682813 MS.gene056421:CDS
AAGAACCATGCTTCCAGCAT+TGG 0.428212 8.2:-33683131 MS.gene056421:CDS
CACCTCTATCTTTGTATGAA+GGG 0.435863 8.2:-33682887 MS.gene056421:CDS
ATCAATATTGGTGGTATTGG+TGG 0.443160 8.2:-33682810 MS.gene056421:CDS
GTTGTTGAGCCTATCAATAT+TGG 0.447727 8.2:-33682822 MS.gene056421:CDS
CTTGCTGCTCCAGTCGTAGA+AGG 0.451779 8.2:+33682927 None:intergenic
AATATTGGTGGTATTGGTGG+TGG 0.452356 8.2:-33682807 MS.gene056421:CDS
ATTGGTGGTATTGGTGGTGG+TGG 0.462716 8.2:-33682804 MS.gene056421:CDS
CATGGAGCACTAAACGAGAT+AGG 0.482608 8.2:+33682969 None:intergenic
CATCACTTCGTTGGCTTCAG+TGG 0.483839 8.2:+33683250 None:intergenic
ACCTCTATCTTTGTATGAAG+GGG 0.485817 8.2:-33682886 MS.gene056421:CDS
AAGGGCATAACCTCCAATGC+TGG 0.508828 8.2:+33683118 None:intergenic
TAGAAGGAGTCACTGCTTGA+GGG 0.527054 8.2:+33682943 None:intergenic
AAAACTCACAACAACCATCA+AGG 0.527865 8.2:+33683099 None:intergenic
AACCATGCTTCCAGCATTGG+AGG 0.529576 8.2:-33683128 MS.gene056421:CDS
AACATTCCTTAAAATTTACC+AGG 0.534577 8.2:+33683156 None:intergenic
TGTGTTACTCATCACTTCGT+TGG 0.534717 8.2:+33683241 None:intergenic
TTCTACGACTGGAGCAGCAA+GGG 0.539720 8.2:-33682925 MS.gene056421:CDS
AACCTCCAATGCTGGAAGCA+TGG 0.548110 8.2:+33683126 None:intergenic
GTCACTGCTTGAGGGAGGCA+TGG 0.548178 8.2:+33682951 None:intergenic
GTAGAAGGAGTCACTGCTTG+AGG 0.555326 8.2:+33682942 None:intergenic
GCAGTGACTCCTTCTACGAC+TGG 0.571024 8.2:-33682936 MS.gene056421:CDS
AATGTACCTTCATCTCCAGC+AGG 0.574198 8.2:+33683074 None:intergenic
GTTGAGCCTATCAATATTGG+TGG 0.591055 8.2:-33682819 MS.gene056421:CDS
CTTCTACGACTGGAGCAGCA+AGG 0.595181 8.2:-33682926 MS.gene056421:CDS
AAACTCACAACAACCATCAA+GGG 0.621682 8.2:+33683100 None:intergenic
TCTACGACTGGAGCAGCAAG+GGG 0.642048 8.2:-33682924 MS.gene056421:CDS
CAGCAAAGAAGAGATGGTGA+TGG 0.647827 8.2:-33683273 None:intergenic
CCTTCATACAAAGATAGAGG+TGG 0.648904 8.2:+33682888 None:intergenic
CCTCTATCTTTGTATGAAGG+GGG 0.651375 8.2:-33682885 MS.gene056421:CDS
AAGGAGTCACTGCTTGAGGG+AGG 0.663240 8.2:+33682946 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACATTAGATTTTTTTAAATT+TGG - chr8.2:33682989-33683008 MS.gene056421:CDS 10.0%
! AACATTCCTTAAAATTTACC+AGG + chr8.2:33682892-33682911 None:intergenic 25.0%
! ATTGTCATAAAAACTTCCAT+AGG - chr8.2:33683020-33683039 MS.gene056421:CDS 25.0%
!! TAGTTTCCTGGTAAATTTTA+AGG - chr8.2:33682883-33682902 MS.gene056421:CDS 25.0%
TCATAAAAACTTCCATAGGA+AGG - chr8.2:33683024-33683043 MS.gene056421:CDS 30.0%
AAAACTCACAACAACCATCA+AGG + chr8.2:33682949-33682968 None:intergenic 35.0%
AAACTCACAACAACCATCAA+GGG + chr8.2:33682948-33682967 None:intergenic 35.0%
ACCTCTATCTTTGTATGAAG+GGG - chr8.2:33683159-33683178 MS.gene056421:CDS 35.0%
CAACAATAGTTTCCTTCCTA+TGG + chr8.2:33683039-33683058 None:intergenic 35.0%
CACCTCTATCTTTGTATGAA+GGG - chr8.2:33683158-33683177 MS.gene056421:CDS 35.0%
CCAATACCACCAATATTGAT+AGG + chr8.2:33683235-33683254 None:intergenic 35.0%
GTTGTTGAGCCTATCAATAT+TGG - chr8.2:33683223-33683242 MS.gene056421:CDS 35.0%
! ATCAATATTGGTGGTATTGG+TGG - chr8.2:33683235-33683254 MS.gene056421:CDS 35.0%
! CCTATCAATATTGGTGGTAT+TGG - chr8.2:33683232-33683251 MS.gene056421:CDS 35.0%
!! TTCTGAAGCAAATAGTTTCC+TGG - chr8.2:33682871-33682890 MS.gene056421:CDS 35.0%
CCACCTCTATCTTTGTATGA+AGG - chr8.2:33683157-33683176 MS.gene056421:CDS 40.0%
CCTCTATCTTTGTATGAAGG+GGG - chr8.2:33683160-33683179 MS.gene056421:CDS 40.0%
CCTTCATACAAAGATAGAGG+TGG + chr8.2:33683160-33683179 None:intergenic 40.0%
GTTGAGCCTATCAATATTGG+TGG - chr8.2:33683226-33683245 MS.gene056421:CDS 40.0%
! ATGAAGGGGGCTATATTTTG+AGG - chr8.2:33683173-33683192 MS.gene056421:CDS 40.0%
! TGTGTTACTCATCACTTCGT+TGG + chr8.2:33682807-33682826 None:intergenic 40.0%
! TGTTGTGAGTTTTTACCTGC+TGG - chr8.2:33682956-33682975 MS.gene056421:CDS 40.0%
! TTTTTACCTGCTGGAGATGA+AGG - chr8.2:33682965-33682984 MS.gene056421:CDS 40.0%
!! AATATTGGTGGTATTGGTGG+TGG - chr8.2:33683238-33683257 MS.gene056421:CDS 40.0%
!! TGAAGGGGGCTATATTTTGA+GGG - chr8.2:33683174-33683193 MS.gene056421:CDS 40.0%
AAGAACCATGCTTCCAGCAT+TGG - chr8.2:33682914-33682933 MS.gene056421:CDS 45.0%
AATGTACCTTCATCTCCAGC+AGG + chr8.2:33682974-33682993 None:intergenic 45.0%
ATTGGAGGTTATGCCCTTGA+TGG - chr8.2:33682932-33682951 MS.gene056421:CDS 45.0%
CCCCCTTCATACAAAGATAG+AGG + chr8.2:33683163-33683182 None:intergenic 45.0%
TAGAAGGAGTCACTGCTTGA+GGG + chr8.2:33683105-33683124 None:intergenic 45.0%
! CATGGAGCACTAAACGAGAT+AGG + chr8.2:33683079-33683098 None:intergenic 45.0%
AACCTCCAATGCTGGAAGCA+TGG + chr8.2:33682922-33682941 None:intergenic 50.0%
GTAGAAGGAGTCACTGCTTG+AGG + chr8.2:33683106-33683125 None:intergenic 50.0%
TTCTACGACTGGAGCAGCAA+GGG - chr8.2:33683120-33683139 MS.gene056421:CDS 50.0%
! AACCATGCTTCCAGCATTGG+AGG - chr8.2:33682917-33682936 MS.gene056421:CDS 50.0%
! AAGGGCATAACCTCCAATGC+TGG + chr8.2:33682930-33682949 None:intergenic 50.0%
!! AGGGGGCTATATTTTGAGGG+AGG - chr8.2:33683177-33683196 MS.gene056421:CDS 50.0%
!! ATTGGTGGTATTGGTGGTGG+TGG - chr8.2:33683241-33683260 MS.gene056421:CDS 50.0%
!! CATCACTTCGTTGGCTTCAG+TGG + chr8.2:33682798-33682817 None:intergenic 50.0%
AAGGAGTCACTGCTTGAGGG+AGG + chr8.2:33683102-33683121 None:intergenic 55.0%
CTTCTACGACTGGAGCAGCA+AGG - chr8.2:33683119-33683138 MS.gene056421:CDS 55.0%
CTTGCTGCTCCAGTCGTAGA+AGG + chr8.2:33683121-33683140 None:intergenic 55.0%
GCAGTGACTCCTTCTACGAC+TGG - chr8.2:33683109-33683128 MS.gene056421:CDS 55.0%
TCTACGACTGGAGCAGCAAG+GGG - chr8.2:33683121-33683140 MS.gene056421:CDS 55.0%
GTCACTGCTTGAGGGAGGCA+TGG + chr8.2:33683097-33683116 None:intergenic 60.0%
!! GGTATTGGTGGTGGTGGTGG+TGG - chr8.2:33683247-33683266 MS.gene056421:CDS 60.0%
!! GGTGGTATTGGTGGTGGTGG+TGG - chr8.2:33683244-33683263 MS.gene056421:CDS 60.0%
!! GGTGGTGGTGGTGGTGGAGA+AGG - chr8.2:33683253-33683272 MS.gene056421:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 33682785 33683282 33682785 ID=MS.gene056421
chr8.2 mRNA 33682785 33683282 33682785 ID=MS.gene056421.t1;Parent=MS.gene056421
chr8.2 exon 33682785 33683282 33682785 ID=MS.gene056421.t1.exon1;Parent=MS.gene056421.t1
chr8.2 CDS 33682785 33683282 33682785 ID=cds.MS.gene056421.t1;Parent=MS.gene056421.t1
Gene Sequence

>MS.gene056421

ATGGTGATGGCCACTGAAGCCAACGAAGTGATGAGTAACACATCACAAGAGAAAATATCAACTCGAGTAGAAGAATCTCATATGAATTCTGAAGCAAATAGTTTCCTGGTAAATTTTAAGGAATGTTTGAAGAACCATGCTTCCAGCATTGGAGGTTATGCCCTTGATGGTTGTTGTGAGTTTTTACCTGCTGGAGATGAAGGTACATTAGATTTTTTTAAATTTGGTGCTTGTCATTGTCATAAAAACTTCCATAGGAAGGAAACTATTGTTGTTTCTAGAGATATGACTCCTATCTCGTTTAGTGCTCCATGCCTCCCTCAAGCAGTGACTCCTTCTACGACTGGAGCAGCAAGGGGCACAATCAATTCTCCACCTCTATCTTTGTATGAAGGGGGCTATATTTTGAGGGAGGATCTTGAACAAAATGTTCATCATGTTGTTGAGCCTATCAATATTGGTGGTATTGGTGGTGGTGGTGGTGGAGAAGGATCATGA
Protein sequence

>MS.gene056421.t1

MVMATEANEVMSNTSQEKISTRVEESHMNSEANSFLVNFKECLKNHASSIGGYALDGCCEFLPAGDEGTLDFFKFGACHCHKNFHRKETIVVSRDMTPISFSAPCLPQAVTPSTTGAARGTINSPPLSLYEGGYILREDLEQNVHHVVEPINIGGIGGGGGGEGS