AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene030664


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene030664.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030664.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene030664.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030664.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030664.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030664.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene030664.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene030664.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene030664.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene030664.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene030664.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene030664.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene030664.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene030664.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene030664.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene030664.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene030664.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene030664.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene030664.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene030664.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene030664.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene030664.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene030664.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene030664.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.gene030664.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030664.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030664.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030664.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030664.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030664.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030664.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene030664.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene030664.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene030664.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene030664.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene030664.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene030664.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030664.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030664.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030664.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 36 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTTGTGGCGAGCTGCTTC+CGG 0.229871 4.3:-8733180 None:intergenic
CTTTGTGGCGAGCTGCTTCC+GGG 0.231058 4.3:-8733179 None:intergenic
CAGTGCTGTTTCTGCTCTTC+AGG 0.258870 4.3:+8733390 MS.gene030664:CDS
TCTTGCAAGTTGAATGTCCT+TGG 0.320782 4.3:-8733494 None:intergenic
TCTCTCAAAGCAACTGTTCC+AGG 0.333816 4.3:-8733259 None:intergenic
CTTGCAAGTTGAATGTCCTT+GGG 0.355623 4.3:-8733493 None:intergenic
GGAAGCAGCTGAAGCTTACT+TGG 0.369838 4.3:+8733411 MS.gene030664:CDS
GAGCAGAAACAGCACTGCTC+TGG 0.422418 4.3:-8733384 None:intergenic
TGATTTCCGAGCGGCCTTTG+TGG 0.424857 4.3:-8733194 None:intergenic
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 4.3:-8733220 None:intergenic
GACGTTGGAATGGAAGTTTA+CGG 0.458530 4.3:-8733318 None:intergenic
CGGAAATCAGCTCCGGCGAC+CGG 0.461897 4.3:+8733208 MS.gene030664:CDS
GCAGCTGAAGCTTACTTGGT+TGG 0.472209 4.3:+8733415 MS.gene030664:CDS
CCACCGGCGGCAAGGCTCCC+CGG 0.480154 4.3:+8733161 MS.gene030664:CDS
AGCTCGCCACAAAGGCCGCT+CGG 0.491073 4.3:+8733188 MS.gene030664:CDS
GGCCGCTCGGAAATCAGCTC+CGG 0.498921 4.3:+8733201 MS.gene030664:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.499925 4.3:-8733227 None:intergenic
CTTCCGGGGAGCCTTGCCGC+CGG 0.507682 4.3:-8733164 None:intergenic
GGACTTGCGAGCTGTTTGCT+TGG 0.512299 4.3:-8733140 None:intergenic
TCGCAAGTCCACCGGCGGCA+AGG 0.530180 4.3:+8733153 MS.gene030664:CDS
CCGGGGAGCCTTGCCGCCGG+TGG 0.548377 4.3:-8733161 None:intergenic
CAAACAGCTCGCAAGTCCAC+CGG 0.573307 4.3:+8733145 MS.gene030664:CDS
TTTGTGGCGAGCTGCTTCCG+GGG 0.576886 4.3:-8733178 None:intergenic
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.3:+8733513 MS.gene030664:CDS
TCACGAACAAGACGTTGGAA+TGG 0.598115 4.3:-8733328 None:intergenic
AAATCAGCTCCGGCGACCGG+AGG 0.599225 4.3:+8733211 MS.gene030664:CDS
CCGGAAGCAGCTCGCCACAA+AGG 0.611340 4.3:+8733180 MS.gene030664:CDS
CGATTTCACGAACAAGACGT+TGG 0.613448 4.3:-8733333 None:intergenic
GAGAGTTACAATCATGCCCA+AGG 0.637894 4.3:+8733477 MS.gene030664:CDS
TCTTAGCATGAATTGCACAA+AGG 0.643725 4.3:-8733456 None:intergenic
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.3:+8733512 MS.gene030664:CDS
ACAGCTCGCAAGTCCACCGG+CGG 0.655092 4.3:+8733148 MS.gene030664:CDS
CAACTTGCAAGAAGAATCAG+AGG 0.655500 4.3:+8733505 MS.gene030664:CDS
AAGCCACACAGATTCAGACC+TGG 0.672238 4.3:+8733241 MS.gene030664:CDS
GTTCCAGGTCTGAATCTGTG+TGG 0.688220 4.3:-8733244 None:intergenic
CGCCGGAGCTGATTTCCGAG+CGG 0.728257 4.3:-8733203 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TCTTAGCATGAATTGCACAA+AGG - chr4.3:8733459-8733478 None:intergenic 35.0%
CAACTTGCAAGAAGAATCAG+AGG + chr4.3:8733505-8733524 MS.gene030664:CDS 40.0%
GACGTTGGAATGGAAGTTTA+CGG - chr4.3:8733321-8733340 None:intergenic 40.0%
! CTTGCAAGTTGAATGTCCTT+GGG - chr4.3:8733496-8733515 None:intergenic 40.0%
! TCTTGCAAGTTGAATGTCCT+TGG - chr4.3:8733497-8733516 None:intergenic 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.3:8733513-8733532 MS.gene030664:CDS 45.0%
CGATTTCACGAACAAGACGT+TGG - chr4.3:8733336-8733355 None:intergenic 45.0%
GAGAGTTACAATCATGCCCA+AGG + chr4.3:8733477-8733496 MS.gene030664:CDS 45.0%
TCACGAACAAGACGTTGGAA+TGG - chr4.3:8733331-8733350 None:intergenic 45.0%
TCTCTCAAAGCAACTGTTCC+AGG - chr4.3:8733262-8733281 None:intergenic 45.0%
AAGCCACACAGATTCAGACC+TGG + chr4.3:8733241-8733260 MS.gene030664:CDS 50.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.3:8733512-8733531 MS.gene030664:CDS 50.0%
GCAGCTGAAGCTTACTTGGT+TGG + chr4.3:8733415-8733434 MS.gene030664:CDS 50.0%
GGAAGCAGCTGAAGCTTACT+TGG + chr4.3:8733411-8733430 MS.gene030664:CDS 50.0%
GTTCCAGGTCTGAATCTGTG+TGG - chr4.3:8733247-8733266 None:intergenic 50.0%
!! CAGTGCTGTTTCTGCTCTTC+AGG + chr4.3:8733390-8733409 MS.gene030664:CDS 50.0%
CAAACAGCTCGCAAGTCCAC+CGG + chr4.3:8733145-8733164 MS.gene030664:CDS 55.0%
GAGCAGAAACAGCACTGCTC+TGG - chr4.3:8733387-8733406 None:intergenic 55.0%
GGACTTGCGAGCTGTTTGCT+TGG - chr4.3:8733143-8733162 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.3:8733230-8733249 None:intergenic 55.0%
TGATTTCCGAGCGGCCTTTG+TGG - chr4.3:8733197-8733216 None:intergenic 55.0%
CCTTTGTGGCGAGCTGCTTC+CGG - chr4.3:8733183-8733202 None:intergenic 60.0%
CTTTGTGGCGAGCTGCTTCC+GGG - chr4.3:8733182-8733201 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG - chr4.3:8733223-8733242 None:intergenic 60.0%
TTTGTGGCGAGCTGCTTCCG+GGG - chr4.3:8733181-8733200 None:intergenic 60.0%
AAATCAGCTCCGGCGACCGG+AGG + chr4.3:8733211-8733230 MS.gene030664:CDS 65.0%
ACAGCTCGCAAGTCCACCGG+CGG + chr4.3:8733148-8733167 MS.gene030664:CDS 65.0%
AGCTCGCCACAAAGGCCGCT+CGG + chr4.3:8733188-8733207 MS.gene030664:CDS 65.0%
CCGGAAGCAGCTCGCCACAA+AGG + chr4.3:8733180-8733199 MS.gene030664:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+CGG + chr4.3:8733208-8733227 MS.gene030664:CDS 65.0%
GGCCGCTCGGAAATCAGCTC+CGG + chr4.3:8733201-8733220 MS.gene030664:CDS 65.0%
! CGCCGGAGCTGATTTCCGAG+CGG - chr4.3:8733206-8733225 None:intergenic 65.0%
TCGCAAGTCCACCGGCGGCA+AGG + chr4.3:8733153-8733172 MS.gene030664:CDS 70.0%
CTTCCGGGGAGCCTTGCCGC+CGG - chr4.3:8733167-8733186 None:intergenic 75.0%
! CCACCGGCGGCAAGGCTCCC+CGG + chr4.3:8733161-8733180 MS.gene030664:CDS 80.0%
! CCGGGGAGCCTTGCCGCCGG+TGG - chr4.3:8733164-8733183 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 8733130 8733540 8733130 ID=MS.gene030664
chr4.3 mRNA 8733130 8733540 8733130 ID=MS.gene030664.t1;Parent=MS.gene030664
chr4.3 exon 8733130 8733540 8733130 ID=MS.gene030664.t1.exon1;Parent=MS.gene030664.t1
chr4.3 CDS 8733130 8733540 8733130 ID=cds.MS.gene030664.t1;Parent=MS.gene030664.t1
Gene Sequence

>MS.gene030664

ATGGCACGTACCAAGCAAACAGCTCGCAAGTCCACCGGCGGCAAGGCTCCCCGGAAGCAGCTCGCCACAAAGGCCGCTCGGAAATCAGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACAGATTCAGACCTGGAACAGTTGCTTTGAGAGAGATTCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCCGTAAACTTCCATTCCAACGTCTTGTTCGTGAAATCGCTCAAGATTTCAAGACAGATCTTAGATTCCAGAGCAGTGCTGTTTCTGCTCTTCAGGAAGCAGCTGAAGCTTACTTGGTTGGACTCTTTGAAGACACAAACCTTTGTGCAATTCATGCTAAGAGAGTTACAATCATGCCCAAGGACATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene030664.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA