AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene89203


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89203.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene89203.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene89203.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene89203.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene89203.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene89203.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene89203.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene89203.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene89203.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene89203.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene89203.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene89203.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene89203.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene89203.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene89203.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene89203.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene89203.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene89203.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene89203.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene89203.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene89203.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene89203.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene89203.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene89203.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89203.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene89203.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene89203.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene89203.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene89203.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene89203.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene89203.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene89203.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene89203.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene89203.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene89203.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene89203.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene89203.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene89203.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene89203.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene89203.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTTCTCTAACCAATCTT+TGG 0.237540 5.2:+67198003 None:intergenic
TCACGAAGAGCGACTGTTCC+TGG 0.301860 5.2:+67198077 None:intergenic
GCAGCTGAAGCTTATCTTGT+TGG 0.346066 5.2:-67197921 MS.gene89203:CDS
AGCTGATTTCCGAGCGGCTT+TGG 0.356003 5.2:+67198139 None:intergenic
GAAGCTTCCTTTCCAAAGAT+TGG 0.376805 5.2:-67198015 MS.gene89203:CDS
CGGAAATCAGCTCCGGCGAC+TGG 0.383526 5.2:-67198128 MS.gene89203:CDS
TTGGTGGCGAGCTGTTTCCT+TGG 0.436325 5.2:+67198158 None:intergenic
TTCTTCACTCCTCCAGTCGC+CGG 0.441465 5.2:+67198116 None:intergenic
AAGCCCTCTCGCCTCTGATT+CGG 0.461144 5.2:+67197820 None:intergenic
AGCATGAATAGCACAAAGAT+TGG 0.492949 5.2:+67197884 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 5.2:+67198142 None:intergenic
CGAGCAAGTTGAATATCCTT+AGG 0.498424 5.2:+67197843 None:intergenic
AGCCGCTCGGAAATCAGCTC+CGG 0.498921 5.2:-67198135 MS.gene89203:CDS
GAGCAGAGACAGCACTACTC+TGG 0.505264 5.2:+67197952 None:intergenic
AGACAGCACTACTCTGGAAT+CGG 0.510976 5.2:+67197958 None:intergenic
GAGAGTTACTATTATGCCTA+AGG 0.517685 5.2:-67197859 MS.gene89203:CDS
AGAGCACAGAGCTTCTCATA+AGG 0.533669 5.2:-67198037 MS.gene89203:CDS
CAACTTGCTCGCCGAATCAG+AGG 0.534605 5.2:-67197831 MS.gene89203:CDS
ATTGGTTAGAGAAATTGCTC+AGG 0.542546 5.2:-67197997 MS.gene89203:CDS
TCTCTAACCAATCTTTGGAA+AGG 0.542941 5.2:+67198008 None:intergenic
AGCTCGCCACCAAAGCCGCT+CGG 0.547091 5.2:-67198148 MS.gene89203:CDS
TCGCCGAATCAGAGGCGAGA+GGG 0.598725 5.2:-67197823 MS.gene89203:CDS
CAAACAGCAAGAAAATCCAC+CGG 0.620184 5.2:-67198191 MS.gene89203:CDS
AAATCAGCTCCGGCGACTGG+AGG 0.630058 5.2:-67198125 MS.gene89203:CDS
AAGCCACACAGATTCCGTCC+AGG 0.632383 5.2:-67198095 MS.gene89203:CDS
CTCGCCGAATCAGAGGCGAG+AGG 0.633846 5.2:-67197824 MS.gene89203:CDS
GAAGAGCGACTGTTCCTGGA+CGG 0.668213 5.2:+67198081 None:intergenic
GTTCCTGGACGGAATCTGTG+TGG 0.677012 5.2:+67198092 None:intergenic
CCACCGGAGGAAAAGCACCA+AGG 0.683879 5.2:-67198175 MS.gene89203:CDS
ACAGCAAGAAAATCCACCGG+AGG 0.684797 5.2:-67198188 MS.gene89203:CDS
CGCCGGAGCTGATTTCCGAG+CGG 0.685230 5.2:+67198133 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAATTTCTCTAACCAATCTT+TGG + chr5.2:67198024-67198043 None:intergenic 30.0%
AGCATGAATAGCACAAAGAT+TGG + chr5.2:67198143-67198162 None:intergenic 35.0%
ATTGGTTAGAGAAATTGCTC+AGG - chr5.2:67198027-67198046 MS.gene89203:CDS 35.0%
GAGAGTTACTATTATGCCTA+AGG - chr5.2:67198165-67198184 MS.gene89203:CDS 35.0%
! TCTCTAACCAATCTTTGGAA+AGG + chr5.2:67198019-67198038 None:intergenic 35.0%
!!! GGATTTTCTTGCTGTTTGTT+TGG + chr5.2:67197831-67197850 None:intergenic 35.0%
CAAACAGCAAGAAAATCCAC+CGG - chr5.2:67197833-67197852 MS.gene89203:CDS 40.0%
GAAGCTTCCTTTCCAAAGAT+TGG - chr5.2:67198009-67198028 MS.gene89203:CDS 40.0%
! CGAGCAAGTTGAATATCCTT+AGG + chr5.2:67198184-67198203 None:intergenic 40.0%
AGAGCACAGAGCTTCTCATA+AGG - chr5.2:67197987-67198006 MS.gene89203:CDS 45.0%
GCAGCTGAAGCTTATCTTGT+TGG - chr5.2:67198103-67198122 MS.gene89203:CDS 45.0%
!! AGACAGCACTACTCTGGAAT+CGG + chr5.2:67198069-67198088 None:intergenic 45.0%
!!! TTTCCTTGGTGCTTTTCCTC+CGG + chr5.2:67197855-67197874 None:intergenic 45.0%
ACAGCAAGAAAATCCACCGG+AGG - chr5.2:67197836-67197855 MS.gene89203:CDS 50.0%
AAGCCACACAGATTCCGTCC+AGG - chr5.2:67197929-67197948 MS.gene89203:CDS 55.0%
AAGCCCTCTCGCCTCTGATT+CGG + chr5.2:67198207-67198226 None:intergenic 55.0%
GAAGAGCGACTGTTCCTGGA+CGG + chr5.2:67197946-67197965 None:intergenic 55.0%
GAGCAGAGACAGCACTACTC+TGG + chr5.2:67198075-67198094 None:intergenic 55.0%
GTTCCTGGACGGAATCTGTG+TGG + chr5.2:67197935-67197954 None:intergenic 55.0%
TCACGAAGAGCGACTGTTCC+TGG + chr5.2:67197950-67197969 None:intergenic 55.0%
TTCTTCACTCCTCCAGTCGC+CGG + chr5.2:67197911-67197930 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG + chr5.2:67197888-67197907 None:intergenic 55.0%
! CAACTTGCTCGCCGAATCAG+AGG - chr5.2:67198193-67198212 MS.gene89203:CDS 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG + chr5.2:67197885-67197904 None:intergenic 55.0%
!! TTGGTGGCGAGCTGTTTCCT+TGG + chr5.2:67197869-67197888 None:intergenic 55.0%
AAATCAGCTCCGGCGACTGG+AGG - chr5.2:67197899-67197918 MS.gene89203:CDS 60.0%
AGCCGCTCGGAAATCAGCTC+CGG - chr5.2:67197889-67197908 MS.gene89203:CDS 60.0%
TCGCCGAATCAGAGGCGAGA+GGG - chr5.2:67198201-67198220 MS.gene89203:CDS 60.0%
!! CCACCGGAGGAAAAGCACCA+AGG - chr5.2:67197849-67197868 MS.gene89203:CDS 60.0%
!!! CCTTGGTGCTTTTCCTCCGG+TGG + chr5.2:67197852-67197871 None:intergenic 60.0%
AGCTCGCCACCAAAGCCGCT+CGG - chr5.2:67197876-67197895 MS.gene89203:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+TGG - chr5.2:67197896-67197915 MS.gene89203:CDS 65.0%
CTCGCCGAATCAGAGGCGAG+AGG - chr5.2:67198200-67198219 MS.gene89203:CDS 65.0%
! CGCCGGAGCTGATTTCCGAG+CGG + chr5.2:67197894-67197913 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 67197818 67198228 67197818 ID=MS.gene89203
chr5.2 mRNA 67197818 67198228 67197818 ID=MS.gene89203.t1;Parent=MS.gene89203
chr5.2 exon 67197818 67198228 67197818 ID=MS.gene89203.t1.exon1;Parent=MS.gene89203.t1
chr5.2 CDS 67197818 67198228 67197818 ID=cds.MS.gene89203.t1;Parent=MS.gene89203.t1
Gene Sequence

>MS.gene89203

ATGGCACGTACCAAACAAACAGCAAGAAAATCCACCGGAGGAAAAGCACCAAGGAAACAGCTCGCCACCAAAGCCGCTCGGAAATCAGCTCCGGCGACTGGAGGAGTGAAGAAGCCACACAGATTCCGTCCAGGAACAGTCGCTCTTCGTGAAATCAGAAAGTATCAGAAGAGCACAGAGCTTCTCATAAGGAAGCTTCCTTTCCAAAGATTGGTTAGAGAAATTGCTCAGGATTTCAAAACTGATCTCCGATTCCAGAGTAGTGCTGTCTCTGCTCTTCAAGAAGCAGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAATCTTTGTGCTATTCATGCTAAGAGAGTTACTATTATGCCTAAGGATATTCAACTTGCTCGCCGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene89203.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA