AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64164


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64164.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene64164.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene64164.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene64164.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene64164.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene64164.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene64164.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene64164.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene64164.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene64164.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene64164.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene64164.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene64164.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene64164.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene64164.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene64164.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene64164.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene64164.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene64164.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene64164.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene64164.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene64164.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene64164.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene64164.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.gene64164.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene64164.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene64164.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene64164.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene64164.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene64164.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene64164.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene64164.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene64164.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene64164.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene64164.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene64164.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene64164.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene64164.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene64164.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene64164.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 33 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTGACTCCACCCGTTGC+CGG 0.305872 5.2:+18725422 None:intergenic
TGAGAAGCTCGGTGCTCTTC+TGG 0.307615 5.2:+18725348 None:intergenic
AGCAGATTTGCGAGCAGCTT+TGG 0.335283 5.2:+18725445 None:intergenic
CGCAAATCTGCTCCGGCAAC+GGG 0.354795 5.2:-18725434 MS.gene64164:CDS
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 5.2:-18725227 MS.gene64164:CDS
TCACGAAGTGCAACAGTTCC+AGG 0.377831 5.2:+18725383 None:intergenic
TCGCAAATCTGCTCCGGCAA+CGG 0.410102 5.2:-18725435 MS.gene64164:CDS
TTGGTGGCTAGCTGCTTCCT+TGG 0.412728 5.2:+18725464 None:intergenic
GAGCGGAAACAGCACTGCTT+TGG 0.422995 5.2:+18725258 None:intergenic
TTATCTTGTTGGTTTGTTTG+AGG 0.428809 5.2:-18725216 MS.gene64164:CDS
CGATTTCACGAACAAGTCTC+TGG 0.432729 5.2:+18725309 None:intergenic
AAACAGCACTGCTTTGGAAT+CGG 0.472990 5.2:+18725264 None:intergenic
CGAGCGAGTTGAATATCCTT+AGG 0.499677 5.2:+18725149 None:intergenic
AGATTTGCGAGCAGCTTTGG+TGG 0.517744 5.2:+18725448 None:intergenic
AGCTGCTCGCAAATCTGCTC+CGG 0.521796 5.2:-18725441 MS.gene64164:CDS
AGAGCACCGAGCTTCTCATA+AGG 0.522726 5.2:-18725343 MS.gene64164:CDS
GGATTTGCGAGCAGTTTGCT+TGG 0.522741 5.2:+18725502 None:intergenic
AGTTTGCTTGGTACGAGCCA+TGG 0.544971 5.2:+18725514 None:intergenic
GAGAGTTACTATCATGCCTA+AGG 0.550012 5.2:-18725165 MS.gene64164:CDS
ACTTGTTCGTGAAATCGCTC+AGG 0.551065 5.2:-18725303 MS.gene64164:CDS
CAACTCGCTCGCAGAATCAG+AGG 0.556058 5.2:-18725137 MS.gene64164:CDS
CGGTGCTCTTCTGGTACTTG+CGG 0.565845 5.2:+18725357 None:intergenic
CAAACTGCTCGCAAATCCAC+CGG 0.571388 5.2:-18725497 MS.gene64164:CDS
TTCAGCAGCTTCTTGAAGAG+CGG 0.576635 5.2:+18725241 None:intergenic
TCACGAACAAGTCTCTGGAA+TGG 0.590006 5.2:+18725314 None:intergenic
AAGTTTCCTTATGAGAAGCT+CGG 0.601334 5.2:+18725337 None:intergenic
AAATCTGCTCCGGCAACGGG+TGG 0.604476 5.2:-18725431 MS.gene64164:CDS
AAGCCACACAGATTCCGTCC+TGG 0.622196 5.2:-18725401 MS.gene64164:CDS
TCTTAGCATGAATAGCGCAA+AGG 0.644849 5.2:+18725186 None:intergenic
CCACCGGCGGAAAAGCACCA+AGG 0.683879 5.2:-18725481 MS.gene64164:CDS
ACTGCTCGCAAATCCACCGG+CGG 0.685762 5.2:-18725494 MS.gene64164:CDS
GAAGTGCAACAGTTCCAGGA+CGG 0.690156 5.2:+18725387 None:intergenic
GTTCCAGGACGGAATCTGTG+TGG 0.699556 5.2:+18725398 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCTTGTTGGTTTGTTTG+AGG - chr5.2:18725420-18725439 MS.gene64164:CDS 30.0%
AAGTTTCCTTATGAGAAGCT+CGG + chr5.2:18725302-18725321 None:intergenic 35.0%
GAGAGTTACTATCATGCCTA+AGG - chr5.2:18725471-18725490 MS.gene64164:CDS 40.0%
TCTTAGCATGAATAGCGCAA+AGG + chr5.2:18725453-18725472 None:intergenic 40.0%
!! AAACAGCACTGCTTTGGAAT+CGG + chr5.2:18725375-18725394 None:intergenic 40.0%
ACTTGTTCGTGAAATCGCTC+AGG - chr5.2:18725333-18725352 MS.gene64164:CDS 45.0%
CGATTTCACGAACAAGTCTC+TGG + chr5.2:18725330-18725349 None:intergenic 45.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr5.2:18725409-18725428 MS.gene64164:CDS 45.0%
TTCAGCAGCTTCTTGAAGAG+CGG + chr5.2:18725398-18725417 None:intergenic 45.0%
! CGAGCGAGTTGAATATCCTT+AGG + chr5.2:18725490-18725509 None:intergenic 45.0%
! TCACGAACAAGTCTCTGGAA+TGG + chr5.2:18725325-18725344 None:intergenic 45.0%
AGCAGATTTGCGAGCAGCTT+TGG + chr5.2:18725194-18725213 None:intergenic 50.0%
CAAACTGCTCGCAAATCCAC+CGG - chr5.2:18725139-18725158 MS.gene64164:CDS 50.0%
GAAGTGCAACAGTTCCAGGA+CGG + chr5.2:18725252-18725271 None:intergenic 50.0%
TCACGAAGTGCAACAGTTCC+AGG + chr5.2:18725256-18725275 None:intergenic 50.0%
! AGATTTGCGAGCAGCTTTGG+TGG + chr5.2:18725191-18725210 None:intergenic 50.0%
! GGATTTGCGAGCAGTTTGCT+TGG + chr5.2:18725137-18725156 None:intergenic 50.0%
!! AGAGCACCGAGCTTCTCATA+AGG - chr5.2:18725293-18725312 MS.gene64164:CDS 50.0%
AAGCCACACAGATTCCGTCC+TGG - chr5.2:18725235-18725254 MS.gene64164:CDS 55.0%
AGCTGCTCGCAAATCTGCTC+CGG - chr5.2:18725195-18725214 MS.gene64164:CDS 55.0%
CAACTCGCTCGCAGAATCAG+AGG - chr5.2:18725499-18725518 MS.gene64164:CDS 55.0%
CGGTGCTCTTCTGGTACTTG+CGG + chr5.2:18725282-18725301 None:intergenic 55.0%
GAGCGGAAACAGCACTGCTT+TGG + chr5.2:18725381-18725400 None:intergenic 55.0%
GTTCCAGGACGGAATCTGTG+TGG + chr5.2:18725241-18725260 None:intergenic 55.0%
TCGCAAATCTGCTCCGGCAA+CGG - chr5.2:18725201-18725220 MS.gene64164:CDS 55.0%
TTCTTGACTCCACCCGTTGC+CGG + chr5.2:18725217-18725236 None:intergenic 55.0%
! TTGGTGGCTAGCTGCTTCCT+TGG + chr5.2:18725175-18725194 None:intergenic 55.0%
!! TGAGAAGCTCGGTGCTCTTC+TGG + chr5.2:18725291-18725310 None:intergenic 55.0%
!!! CTTCCTTGGTGCTTTTCCGC+CGG + chr5.2:18725161-18725180 None:intergenic 55.0%
AAATCTGCTCCGGCAACGGG+TGG - chr5.2:18725205-18725224 MS.gene64164:CDS 60.0%
ACTGCTCGCAAATCCACCGG+CGG - chr5.2:18725142-18725161 MS.gene64164:CDS 60.0%
CGCAAATCTGCTCCGGCAAC+GGG - chr5.2:18725202-18725221 MS.gene64164:CDS 60.0%
!! CCACCGGCGGAAAAGCACCA+AGG - chr5.2:18725155-18725174 MS.gene64164:CDS 65.0%
!!! CCTTGGTGCTTTTCCGCCGG+TGG + chr5.2:18725158-18725177 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 18725124 18725534 18725124 ID=MS.gene64164
chr5.2 mRNA 18725124 18725534 18725124 ID=MS.gene64164.t1;Parent=MS.gene64164
chr5.2 exon 18725124 18725534 18725124 ID=MS.gene64164.t1.exon1;Parent=MS.gene64164.t1
chr5.2 CDS 18725124 18725534 18725124 ID=cds.MS.gene64164.t1;Parent=MS.gene64164.t1
Gene Sequence

>MS.gene64164

ATGGCTCGTACCAAGCAAACTGCTCGCAAATCCACCGGCGGAAAAGCACCAAGGAAGCAGCTAGCCACCAAAGCTGCTCGCAAATCTGCTCCGGCAACGGGTGGAGTCAAGAAGCCACACAGATTCCGTCCTGGAACTGTTGCACTTCGTGAGATCCGCAAGTACCAGAAGAGCACCGAGCTTCTCATAAGGAAACTTCCATTCCAGAGACTTGTTCGTGAAATCGCTCAGGATTTCAAAACAGATCTCCGATTCCAAAGCAGTGCTGTTTCCGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAGGATACTAACCTTTGCGCTATTCATGCTAAGAGAGTTACTATCATGCCTAAGGATATTCAACTCGCTCGCAGAATCAGAGGCGAGAGAGCTTAG

Protein sequence

>MS.gene64164.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA