AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20713

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20713.t1 MTR_1g088840 92.056 214 17 0 1 214 1 214 2.99e-149 413
MS.gene20713.t1 MTR_1g088825 92.056 214 17 0 1 214 1 214 2.99e-149 413
MS.gene20713.t1 MTR_1g088845 86.449 214 29 0 1 214 1 214 2.51e-139 388
MS.gene20713.t1 MTR_1g088840 90.964 166 15 0 49 214 2 167 7.08e-112 317
MS.gene20713.t1 MTR_1g088840 91.525 118 10 0 97 214 1 118 5.79e-77 227
MS.gene20713.t1 MTR_3g064700 46.117 206 110 1 4 208 3 208 1.72e-60 189
MS.gene20713.t1 MTR_3g450930 44.498 209 114 2 4 211 3 210 3.01e-59 186
MS.gene20713.t1 MTR_3g450790 44.019 209 115 2 4 211 3 210 2.25e-58 183
MS.gene20713.t1 MTR_1g088850 39.713 209 125 1 3 210 2 210 1.45e-56 179
MS.gene20713.t1 MTR_5g090920 44.019 209 112 4 4 209 3 209 7.08e-56 177
MS.gene20713.t1 MTR_1g026140 42.130 216 119 3 4 213 5 220 1.11e-55 177
MS.gene20713.t1 MTR_5g090910 41.905 210 119 3 4 211 3 211 9.11e-55 174
MS.gene20713.t1 MTR_1g492670 86.765 68 9 0 147 214 2 69 6.32e-39 129
MS.gene20713.t1 MTR_5g090910 40.136 147 86 2 67 211 8 154 3.26e-32 114
MS.gene20713.t1 MTR_3g088635 23.013 239 152 5 4 210 1 239 2.03e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20713.t1 AT1G02920 63.158 209 77 0 1 209 1 209 2.98e-89 261
MS.gene20713.t1 AT1G02930 61.722 209 79 1 1 209 1 208 4.69e-88 258
MS.gene20713.t1 AT1G02930 61.722 209 79 1 1 209 1 208 4.69e-88 258
MS.gene20713.t1 AT2G47730 58.049 205 85 1 6 209 54 258 3.32e-86 256
MS.gene20713.t1 AT2G47730 58.049 205 85 1 6 209 54 258 3.32e-86 256
MS.gene20713.t1 AT4G02520 59.242 211 83 1 1 208 1 211 4.47e-85 251
MS.gene20713.t1 AT2G02930 58.962 212 84 1 1 209 1 212 3.04e-83 246
MS.gene20713.t1 AT1G02950 54.369 206 93 1 1 205 24 229 4.41e-78 234
MS.gene20713.t1 AT1G02950 54.950 202 90 1 5 205 26 227 1.78e-77 233
MS.gene20713.t1 AT1G02950 54.950 202 90 1 5 205 26 227 1.78e-77 233
MS.gene20713.t1 AT1G02950 54.950 202 90 1 5 205 38 239 2.08e-77 233
MS.gene20713.t1 AT1G02940 47.087 206 108 1 5 209 40 245 2.11e-66 205
MS.gene20713.t1 AT1G02940 47.087 206 108 1 5 209 40 245 2.11e-66 205
MS.gene20713.t1 AT1G02940 47.087 206 108 1 5 209 65 270 3.35e-66 205
MS.gene20713.t1 AT1G02940 47.087 206 108 1 5 209 53 258 3.73e-66 205
MS.gene20713.t1 AT3G62760 47.826 207 107 1 3 208 2 208 1.81e-63 196
MS.gene20713.t1 AT1G49860 47.692 195 98 2 21 211 22 216 5.34e-58 184
MS.gene20713.t1 AT3G03190 44.498 209 115 1 4 211 3 211 5.13e-57 180
MS.gene20713.t1 AT5G17220 39.234 209 126 1 4 211 3 211 5.95e-52 167
MS.gene20713.t1 AT2G30860 40.385 208 122 2 4 210 3 209 4.81e-50 162
MS.gene20713.t1 AT2G30870 38.424 203 124 1 9 210 7 209 2.52e-46 152
MS.gene20713.t1 AT1G02950 50.704 142 69 1 65 205 60 201 3.33e-44 147
MS.gene20713.t1 AT2G30860 37.500 152 94 1 4 155 3 153 3.81e-31 112
MS.gene20713.t1 AT5G41210 25.490 204 146 2 1 198 1 204 2.68e-11 61.6
MS.gene20713.t1 AT5G41240 28.713 202 132 5 4 196 3 201 5.75e-11 61.6

Find 54 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCCATTATTGCTATCTTCT+TGG 0.169803 1.2:+66474801 None:intergenic
TTGGGGATAAAGAGTTTATT+TGG 0.186179 1.2:-66474718 MS.gene20713:CDS
ATCAAGAATGCTATCCAATT+TGG 0.237155 1.2:+66474657 None:intergenic
AGAGTCACCTCCCAAGTATT+TGG 0.266829 1.2:+66474609 None:intergenic
CTCCAAGAAGATAGCAATAA+TGG 0.269830 1.2:-66474803 MS.gene20713:CDS
TCAAAACTTGTTCGGGAATT+GGG 0.278093 1.2:-66474736 MS.gene20713:CDS
ATCAAAACTTGTTCGGGAAT+TGG 0.285433 1.2:-66474737 MS.gene20713:CDS
GATGGAGATTTAAAGCTCTT+TGG 0.296201 1.2:-66475166 MS.gene20713:intron
TGAAGAGAATGAAGCCAAAT+TGG 0.299438 1.2:-66474671 MS.gene20713:CDS
TCGTGATTCAAACAATTTCT+TGG 0.300130 1.2:+66474528 None:intergenic
GAAGAATGGAGAACACAAAA+AGG 0.349354 1.2:-66475416 MS.gene20713:CDS
GGAGTCATTGCTTGTTAACT+TGG 0.352335 1.2:+66474822 None:intergenic
CGCATGGTGGCCGTTGAGTA+GGG 0.361457 1.2:+66475496 None:intergenic
AACAATGAGTATGCTGATAA+GGG 0.368137 1.2:-66474847 MS.gene20713:CDS
TTCTTTATGTTGCAGCCATT+TGG 0.379956 1.2:-66475208 MS.gene20713:intron
TAACAATGAGTATGCTGATA+AGG 0.387390 1.2:-66474848 MS.gene20713:CDS
AGTAGCATCAAAACTTGTTC+GGG 0.393847 1.2:-66474743 MS.gene20713:CDS
AAGTAGCATCAAAACTTGTT+CGG 0.398448 1.2:-66474744 MS.gene20713:CDS
CCGCATGGTGGCCGTTGAGT+AGG 0.403862 1.2:+66475495 None:intergenic
TCCAAGAAGATAGCAATAAT+GGG 0.404293 1.2:-66474802 MS.gene20713:CDS
GTTAACATTAACTTGAAGAA+TGG 0.418899 1.2:-66475430 MS.gene20713:CDS
GAGTTTATTTGGAATTCCTA+TGG 0.441295 1.2:-66474707 MS.gene20713:CDS
AGGTGACTCTTTCACCTTGG+TGG 0.445525 1.2:-66474596 MS.gene20713:CDS
AAATCTCCATCTTCAAAAGC+TGG 0.446504 1.2:+66475178 None:intergenic
ACTGTCTTAATTAGGTATCA+TGG 0.449391 1.2:+66474444 None:intergenic
GCTTACATTGAGTGATATGA+AGG 0.454820 1.2:+66475390 None:intergenic
CACGATCTCATGTTAGTGCT+TGG 0.456189 1.2:-66474510 MS.gene20713:CDS
AAAATTGAAATGCAGAATCA+AGG 0.457301 1.2:-66474888 MS.gene20713:intron
ATTGTCTGAGTCCAAATACT+TGG 0.458455 1.2:-66474620 MS.gene20713:CDS
AAAGCTGGAACTTGACCAAA+TGG 0.480424 1.2:+66475193 None:intergenic
ACGATCTCATGTTAGTGCTT+GGG 0.482947 1.2:-66474509 MS.gene20713:CDS
ATGCTACTTGATCGAAGTGT+TGG 0.510802 1.2:+66474758 None:intergenic
GGGAGGTGACTCTTTCACCT+TGG 0.520363 1.2:-66474599 MS.gene20713:CDS
TTCATCAAGTAATGAAAAGT+AGG 0.527654 1.2:+66474559 None:intergenic
CTACTCAACGGCCACCATGC+GGG 0.529590 1.2:-66475494 MS.gene20713:CDS
CAAAACTTGTTCGGGAATTG+GGG 0.535983 1.2:-66474735 MS.gene20713:CDS
CTTAATTAGGTATCATGGCA+AGG 0.566951 1.2:+66474449 None:intergenic
AAATTGAAATGCAGAATCAA+GGG 0.575285 1.2:-66474887 MS.gene20713:intron
GCAAGGACTTTAGACCAAGC+TGG 0.580505 1.2:+66474466 None:intergenic
GCATGGTGGCCGTTGAGTAG+GGG 0.589594 1.2:+66475497 None:intergenic
ATATCACTGCAAGACCAGCT+TGG 0.601324 1.2:-66474480 MS.gene20713:CDS
TTGTCTGAGTCCAAATACTT+GGG 0.601763 1.2:-66474619 MS.gene20713:CDS
ATCTCATGTTAGTGCTTGGG+TGG 0.606175 1.2:-66474506 MS.gene20713:CDS
CCAAGAAGATAGCAATAATG+GGG 0.612634 1.2:-66474801 MS.gene20713:CDS
CTTACATTGAGTGATATGAA+GGG 0.613061 1.2:+66475391 None:intergenic
GCACGGAAGCCCCTACTCAA+CGG 0.627204 1.2:-66475506 MS.gene20713:CDS
ACAATGAGTATGCTGATAAG+GGG 0.629847 1.2:-66474846 MS.gene20713:CDS
ATGGCATCAATAAAAGTGCA+CGG 0.642318 1.2:-66475523 MS.gene20713:CDS
CAGAGTTGCAGTAACCCGCA+TGG 0.653094 1.2:+66475480 None:intergenic
CCTACTCAACGGCCACCATG+CGG 0.660998 1.2:-66475495 MS.gene20713:CDS
TCTGAGTCCAAATACTTGGG+AGG 0.681272 1.2:-66474616 MS.gene20713:CDS
CAAGAAGATAGCAATAATGG+GGG 0.701769 1.2:-66474800 MS.gene20713:CDS
TAAATGATGCAAATCCACCA+AGG 0.702241 1.2:+66474582 None:intergenic
AGTTGCAGTAACCCGCATGG+TGG 0.707787 1.2:+66475483 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATACATTGATAATTTAACAT+TGG + chr1.2:66474956-66474975 None:intergenic 15.0%
! AAAATTGAAATGCAGAATCA+AGG - chr1.2:66475085-66475104 MS.gene20713:intron 25.0%
! AAATTGAAATGCAGAATCAA+GGG - chr1.2:66475086-66475105 MS.gene20713:intron 25.0%
! TTCATCAAGTAATGAAAAGT+AGG + chr1.2:66475417-66475436 None:intergenic 25.0%
!! ATCAATTAGTTTGATCAATG+TGG + chr1.2:66474742-66474761 None:intergenic 25.0%
!! GTTAACATTAACTTGAAGAA+TGG - chr1.2:66474543-66474562 MS.gene20713:CDS 25.0%
!! TCATTCTCTTCAACAATTTT+TGG + chr1.2:66475294-66475313 None:intergenic 25.0%
AACAATGAGTATGCTGATAA+GGG - chr1.2:66475126-66475145 MS.gene20713:intron 30.0%
ATCAAGAATGCTATCCAATT+TGG + chr1.2:66475319-66475338 None:intergenic 30.0%
CTTACATTGAGTGATATGAA+GGG + chr1.2:66474585-66474604 None:intergenic 30.0%
TAACAATGAGTATGCTGATA+AGG - chr1.2:66475125-66475144 MS.gene20713:intron 30.0%
TCCAAGAAGATAGCAATAAT+GGG - chr1.2:66475171-66475190 MS.gene20713:CDS 30.0%
TCGTGATTCAAACAATTTCT+TGG + chr1.2:66475448-66475467 None:intergenic 30.0%
TTGGGGATAAAGAGTTTATT+TGG - chr1.2:66475255-66475274 MS.gene20713:intron 30.0%
! AAGTAGCATCAAAACTTGTT+CGG - chr1.2:66475229-66475248 MS.gene20713:intron 30.0%
! ATTAGTTTGATCAATGTGGT+TGG + chr1.2:66474738-66474757 None:intergenic 30.0%
! GAGTTTATTTGGAATTCCTA+TGG - chr1.2:66475266-66475285 MS.gene20713:intron 30.0%
!! TCAACAATTTTTGGATCCAT+AGG + chr1.2:66475285-66475304 None:intergenic 30.0%
!!! GTTTCTTTTCATTTTTTGCG+AGG + chr1.2:66474913-66474932 None:intergenic 30.0%
AAATCTCCATCTTCAAAAGC+TGG + chr1.2:66474798-66474817 None:intergenic 35.0%
ACAATGAGTATGCTGATAAG+GGG - chr1.2:66475127-66475146 MS.gene20713:intron 35.0%
ATTGTCTGAGTCCAAATACT+TGG - chr1.2:66475353-66475372 MS.gene20713:intron 35.0%
CAAGAAGATAGCAATAATGG+GGG - chr1.2:66475173-66475192 MS.gene20713:CDS 35.0%
CCAAGAAGATAGCAATAATG+GGG - chr1.2:66475172-66475191 MS.gene20713:CDS 35.0%
CTCCAAGAAGATAGCAATAA+TGG - chr1.2:66475170-66475189 MS.gene20713:CDS 35.0%
GAAGAATGGAGAACACAAAA+AGG - chr1.2:66474557-66474576 MS.gene20713:CDS 35.0%
GCTTACATTGAGTGATATGA+AGG + chr1.2:66474586-66474605 None:intergenic 35.0%
TAAATGATGCAAATCCACCA+AGG + chr1.2:66475394-66475413 None:intergenic 35.0%
TGAAGAGAATGAAGCCAAAT+TGG - chr1.2:66475302-66475321 MS.gene20713:intron 35.0%
TGTCATGTGCTAAGTAAATC+AGG + chr1.2:66474848-66474867 None:intergenic 35.0%
TTCTTTATGTTGCAGCCATT+TGG - chr1.2:66474765-66474784 MS.gene20713:CDS 35.0%
TTGTCTGAGTCCAAATACTT+GGG - chr1.2:66475354-66475373 MS.gene20713:intron 35.0%
! AGTAGCATCAAAACTTGTTC+GGG - chr1.2:66475230-66475249 MS.gene20713:intron 35.0%
! ATCAAAACTTGTTCGGGAAT+TGG - chr1.2:66475236-66475255 MS.gene20713:intron 35.0%
! ATGGCATCAATAAAAGTGCA+CGG - chr1.2:66474450-66474469 MS.gene20713:CDS 35.0%
! GATGGAGATTTAAAGCTCTT+TGG - chr1.2:66474807-66474826 MS.gene20713:CDS 35.0%
! TCAAAACTTGTTCGGGAATT+GGG - chr1.2:66475237-66475256 MS.gene20713:intron 35.0%
! TTTTTGCGAGGAGTGAAATT+AGG + chr1.2:66474901-66474920 None:intergenic 35.0%
AAAGCTGGAACTTGACCAAA+TGG + chr1.2:66474783-66474802 None:intergenic 40.0%
ACGATCTCATGTTAGTGCTT+GGG - chr1.2:66475464-66475483 MS.gene20713:CDS 40.0%
CCCCATTATTGCTATCTTCT+TGG + chr1.2:66475175-66475194 None:intergenic 40.0%
TCAATGTGGTTGGAACAAGA+AGG + chr1.2:66474728-66474747 None:intergenic 40.0%
! AGATAGCAATAATGGGGGTA+TGG - chr1.2:66475178-66475197 MS.gene20713:CDS 40.0%
! ATGCTACTTGATCGAAGTGT+TGG + chr1.2:66475218-66475237 None:intergenic 40.0%
! CAAAACTTGTTCGGGAATTG+GGG - chr1.2:66475238-66475257 MS.gene20713:intron 40.0%
! GGAGTCATTGCTTGTTAACT+TGG + chr1.2:66475154-66475173 None:intergenic 40.0%
!! CAAGTTCCAGCTTTTGAAGA+TGG - chr1.2:66474789-66474808 MS.gene20713:CDS 40.0%
AGAGTCACCTCCCAAGTATT+TGG + chr1.2:66475367-66475386 None:intergenic 45.0%
ATATCACTGCAAGACCAGCT+TGG - chr1.2:66475493-66475512 MS.gene20713:CDS 45.0%
ATCTCATGTTAGTGCTTGGG+TGG - chr1.2:66475467-66475486 MS.gene20713:CDS 45.0%
CACGATCTCATGTTAGTGCT+TGG - chr1.2:66475463-66475482 MS.gene20713:CDS 45.0%
CTAATATTTGTGCGAGCGCT+TGG - chr1.2:66475033-66475052 MS.gene20713:intron 45.0%
TCTGAGTCCAAATACTTGGG+AGG - chr1.2:66475357-66475376 MS.gene20713:intron 45.0%
AGGTGACTCTTTCACCTTGG+TGG - chr1.2:66475377-66475396 MS.gene20713:intron 50.0%
GCAAGGACTTTAGACCAAGC+TGG + chr1.2:66475510-66475529 None:intergenic 50.0%
! AATGGGGGTATGGTCTGAAG+TGG - chr1.2:66475188-66475207 MS.gene20713:CDS 50.0%
AGTTGCAGTAACCCGCATGG+TGG + chr1.2:66474493-66474512 None:intergenic 55.0%
CAGAGTTGCAGTAACCCGCA+TGG + chr1.2:66474496-66474515 None:intergenic 55.0%
GGGAGGTGACTCTTTCACCT+TGG - chr1.2:66475374-66475393 MS.gene20713:intron 55.0%
CCTACTCAACGGCCACCATG+CGG - chr1.2:66474478-66474497 MS.gene20713:CDS 60.0%
CGCATGGTGGCCGTTGAGTA+GGG + chr1.2:66474480-66474499 None:intergenic 60.0%
CTACTCAACGGCCACCATGC+GGG - chr1.2:66474479-66474498 MS.gene20713:CDS 60.0%
GCACGGAAGCCCCTACTCAA+CGG - chr1.2:66474467-66474486 MS.gene20713:CDS 60.0%
GCATGGTGGCCGTTGAGTAG+GGG + chr1.2:66474479-66474498 None:intergenic 60.0%
CCGCATGGTGGCCGTTGAGT+AGG + chr1.2:66474481-66474500 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 66474450 66475545 66474450 ID=MS.gene20713
chr1.2 mRNA 66474450 66475545 66474450 ID=MS.gene20713.t1;Parent=MS.gene20713
chr1.2 exon 66475396 66475545 66475396 ID=MS.gene20713.t1.exon1;Parent=MS.gene20713.t1
chr1.2 CDS 66475396 66475545 66475396 ID=cds.MS.gene20713.t1;Parent=MS.gene20713.t1
chr1.2 exon 66475167 66475215 66475167 ID=MS.gene20713.t1.exon2;Parent=MS.gene20713.t1
chr1.2 CDS 66475167 66475215 66475167 ID=cds.MS.gene20713.t1;Parent=MS.gene20713.t1
chr1.2 exon 66474450 66474895 66474450 ID=MS.gene20713.t1.exon3;Parent=MS.gene20713.t1
chr1.2 CDS 66474450 66474895 66474450 ID=cds.MS.gene20713.t1;Parent=MS.gene20713.t1
Gene Sequence

>MS.gene20713

ATGGCATCAATAAAAGTGCACGGAAGCCCCTACTCAACGGCCACCATGCGGGTTACTGCAACTCTGTATGAAAAACAGATTGAGTTTGAGTTTGTTAACATTAACTTGAAGAATGGAGAACACAAAAAGGAACCCTTCATATCACTCAATGTAAGCAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATCGTTCTGCTAGTTCACTTCAATTATGAATTGAAATTTTCCTTCTTGTTCCAACCACATTGATCAAACTAATTGATTAATTCTTTATGTTGCAGCCATTTGGTCAAGTTCCAGCTTTTGAAGATGGAGATTTAAAGCTCTTTGGTAAAATTTATATGAACCTGATTTACTTAGCACATGACACTTTAGATTAAACATTAATTATGTGTATTTCCTAATTTCACTCCTCGCAAAAAATGAAAAGAAACAAAAAAAAAAACATTTTTTACCAATGTTAAATTATCAATGTATGTATCGATATGTCAATATGTGTATGTATCGATATGTCAATGTATGTATCGTGTCTCTCTAATATTTGTGCGAGCGCTTGGTAGAATATGATGTAGATATAAACTAATTAAAAATTGAAATGCAGAATCAAGGGCGATAACACAATATATTAACAATGAGTATGCTGATAAGGGGACCAAGTTAACAAGCAATGACTCCAAGAAGATAGCAATAATGGGGGTATGGTCTGAAGTGGAGAGCCAACACTTCGATCAAGTAGCATCAAAACTTGTTCGGGAATTGGGGATAAAGAGTTTATTTGGAATTCCTATGGATCCAAAAATTGTTGAAGAGAATGAAGCCAAATTGGATAGCATTCTTGATGTGTATGAGAAAAGATTGTCTGAGTCCAAATACTTGGGAGGTGACTCTTTCACCTTGGTGGATTTGCATCATTTACCTACTTTTCATTACTTGATGAAGTCACAGACCAAGAAATTGTTTGAATCACGATCTCATGTTAGTGCTTGGGTGGCTGATATCACTGCAAGACCAGCTTGGTCTAAAGTCCTTGCCATGATACCTAATTAA
Protein sequence

>MS.gene20713.t1

MASIKVHGSPYSTATMRVTATLYEKQIEFEFVNINLKNGEHKKEPFISLNPFGQVPAFEDGDLKLFESRAITQYINNEYADKGTKLTSNDSKKIAIMGVWSEVESQHFDQVASKLVRELGIKSLFGIPMDPKIVEENEAKLDSILDVYEKRLSESKYLGGDSFTLVDLHHLPTFHYLMKSQTKKLFESRSHVSAWVADITARPAWSKVLAMIPN