AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055894

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055894.t1 MTR_6g463260 99.487 195 1 0 1 195 200 394 3.29e-141 404
MS.gene055894.t1 MTR_5g011400 62.051 195 74 0 1 195 167 361 6.17e-86 262
MS.gene055894.t1 MTR_8g101750 52.041 196 93 1 1 195 100 295 2.49e-73 228
MS.gene055894.t1 MTR_3g103550 52.000 200 90 2 1 195 98 296 1.84e-72 227
MS.gene055894.t1 MTR_6g091760 50.510 196 96 1 1 195 108 303 2.82e-71 223
MS.gene055894.t1 MTR_4g097540 48.293 205 96 3 1 195 99 303 1.87e-70 221
MS.gene055894.t1 MTR_5g015020 47.783 203 98 3 1 195 99 301 1.30e-69 219
MS.gene055894.t1 MTR_8g098930 48.485 198 99 1 1 195 107 304 1.60e-68 217
MS.gene055894.t1 MTR_8g028600 46.667 195 104 0 1 195 106 300 4.98e-66 210
MS.gene055894.t1 MTR_7g079080 45.408 196 106 1 1 195 1 196 1.39e-65 206
MS.gene055894.t1 MTR_7g079080 45.408 196 106 1 1 195 106 301 2.76e-64 206
MS.gene055894.t1 MTR_8g101820 44.898 196 94 3 1 195 100 282 1.61e-57 186
MS.gene055894.t1 MTR_5g033230 32.168 143 94 3 12 152 129 270 1.51e-18 83.2
MS.gene055894.t1 MTR_5g033230 32.168 143 94 3 12 152 129 270 1.52e-18 82.8
MS.gene055894.t1 MTR_8g023140 25.758 132 96 2 14 144 182 312 6.64e-15 72.4
MS.gene055894.t1 MTR_2g090615 29.670 182 102 5 10 184 105 267 9.70e-14 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055894.t1 AT5G51690 68.718 195 61 0 1 195 42 236 1.15e-101 298
MS.gene055894.t1 AT5G51690 68.718 195 61 0 1 195 165 359 1.18e-99 297
MS.gene055894.t1 AT1G62960 62.437 197 72 2 1 195 223 419 2.45e-84 259
MS.gene055894.t1 AT4G26200 51.759 199 90 2 1 195 114 310 1.12e-71 224
MS.gene055894.t1 AT4G11280 49.490 196 98 1 1 195 110 305 1.77e-70 222
MS.gene055894.t1 AT4G37770 50.754 199 94 1 1 195 99 297 8.89e-70 219
MS.gene055894.t1 AT2G22810 50.000 200 95 2 1 195 99 298 1.76e-68 216
MS.gene055894.t1 AT3G49700 51.256 199 93 1 1 195 99 297 4.64e-67 213
MS.gene055894.t1 AT1G01480 45.960 198 104 1 1 195 1 198 1.60e-65 206
MS.gene055894.t1 AT5G65800 48.744 199 98 1 1 195 99 297 6.08e-65 207
MS.gene055894.t1 AT4G08040 46.939 196 103 1 1 195 97 292 3.57e-64 205
MS.gene055894.t1 AT1G01480 45.960 198 104 1 1 195 107 304 4.38e-64 205
MS.gene055894.t1 AT3G61510 45.918 196 102 2 1 195 106 298 1.62e-62 201
MS.gene055894.t1 AT1G23310 32.168 143 94 3 12 152 129 270 3.78e-20 87.4
MS.gene055894.t1 AT1G23310 32.168 143 94 3 12 152 129 270 5.02e-20 87.4
MS.gene055894.t1 AT1G70580 32.168 143 94 3 12 152 129 270 1.17e-19 86.3
MS.gene055894.t1 AT1G70580 32.168 143 94 3 12 152 129 270 1.17e-19 86.3
MS.gene055894.t1 AT1G70580 32.168 143 94 3 12 152 129 270 1.17e-19 86.3
MS.gene055894.t1 AT1G70580 32.168 143 94 3 12 152 129 270 1.17e-19 86.3
MS.gene055894.t1 AT1G72330 28.402 169 108 5 12 178 196 353 7.64e-19 83.6
MS.gene055894.t1 AT1G72330 28.402 169 108 5 12 178 196 353 1.17e-18 83.6
MS.gene055894.t1 AT1G72330 26.923 182 107 5 12 178 196 366 2.78e-17 79.3
MS.gene055894.t1 AT1G17290 26.627 169 111 5 12 178 199 356 4.82e-17 79.0
MS.gene055894.t1 AT5G36160 29.444 180 101 5 8 180 102 262 1.71e-14 71.2
MS.gene055894.t1 AT2G24850 27.811 169 109 4 15 182 116 272 7.26e-11 60.8

Find 43 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGACTGAAAAGCATTTC+TGG 0.240255 6.2:-64273179 None:intergenic
TTCACACAACAAAACTGTTT+TGG 0.255365 6.2:+64273394 MS.gene055894:CDS
TCAAAAGACCTTTCGATTGC+TGG 0.288659 6.2:+64273350 MS.gene055894:CDS
GTCGATTACCCTGGATAATA+AGG 0.320746 6.2:-64272723 None:intergenic
AGAATTTGACCCGTCAAATA+TGG 0.338798 6.2:+64272617 MS.gene055894:CDS
AACGATAGTATCTCAATTGC+AGG 0.378929 6.2:-64272660 None:intergenic
CTTGACTAAATGCTTGTTCA+AGG 0.411999 6.2:-64273082 None:intergenic
GTCCCTACACCTTATTATCC+AGG 0.416731 6.2:+64272714 MS.gene055894:CDS
ATTGCTGACGAAGTATTTGC+AGG 0.422387 6.2:+64273233 MS.gene055894:CDS
AGTGATTATGCAGCTTTGAC+AGG 0.425900 6.2:+64272979 MS.gene055894:intron
GGTGTCAGAATATTGCCAAC+AGG 0.485404 6.2:-64273158 None:intergenic
TCAGTACTTCGACAGTGAAC+AGG 0.488659 6.2:-64273035 None:intergenic
ATATTGCCAACAGGATTTGA+AGG 0.489937 6.2:-64273149 None:intergenic
AGGGACGTAAGATGGCGTCC+AGG 0.510730 6.2:+64272999 MS.gene055894:CDS
GATGTTAGTACCATATTTGA+CGG 0.511266 6.2:-64272627 None:intergenic
TCAAATATGGTACTAACATC+GGG 0.513697 6.2:+64272630 MS.gene055894:CDS
TGAGATACTATCGTTCTGCT+TGG 0.519831 6.2:+64272668 MS.gene055894:CDS
GTATTTGCAGGCTCCACGTA+CGG 0.524369 6.2:+64273245 MS.gene055894:CDS
GCTTTGACAGGGACGTAAGA+TGG 0.539978 6.2:+64272991 MS.gene055894:intron
TCGATTGCTGGATTTAGAGT+CGG 0.540691 6.2:+64273362 MS.gene055894:CDS
GATAATAAGGTGTAGGGACA+AGG 0.549163 6.2:-64272710 None:intergenic
CTCTAAATCCAGCAATCGAA+AGG 0.554066 6.2:-64273358 None:intergenic
TATTGCCAACAGGATTTGAA+GGG 0.556392 6.2:-64273148 None:intergenic
GTCAAATATGGTACTAACAT+CGG 0.563753 6.2:+64272629 MS.gene055894:CDS
ACAGGTATTAAGTCTATCCC+TGG 0.566102 6.2:-64273017 None:intergenic
TCCCTACACCTTATTATCCA+GGG 0.567075 6.2:+64272715 MS.gene055894:CDS
ATATTCTGAATCGAGAACTT+CGG 0.576552 6.2:-64273291 None:intergenic
GTGATTATGCAGCTTTGACA+GGG 0.578099 6.2:+64272980 MS.gene055894:intron
ATGTTAGTACCATATTTGAC+GGG 0.579929 6.2:-64272626 None:intergenic
AAACTCCTCGCTTCCGTACG+TGG 0.582162 6.2:-64273258 None:intergenic
ACCCTGGATAATAAGGTGTA+GGG 0.583042 6.2:-64272716 None:intergenic
TCGTTCTGCTTGGCAGACCA+TGG 0.585867 6.2:+64272678 MS.gene055894:CDS
AGCCGCGTTCATATAGTGTA+CGG 0.586505 6.2:+64273323 MS.gene055894:CDS
AAACGAGGAGTCAAAGTTCG+CGG 0.587306 6.2:+64273110 MS.gene055894:CDS
TACCCTGGATAATAAGGTGT+AGG 0.592046 6.2:-64272717 None:intergenic
GGGACGTAAGATGGCGTCCA+GGG 0.596829 6.2:+64273000 MS.gene055894:CDS
TTGACTAAATGCTTGTTCAA+GGG 0.597175 6.2:-64273081 None:intergenic
TCGAACCCTTCAAATCCTGT+TGG 0.599882 6.2:+64273143 MS.gene055894:CDS
GGACAAGGAATGCATTTCCA+TGG 0.601989 6.2:-64272695 None:intergenic
TTTATGCATCAGGTTATGGG+AGG 0.621158 6.2:+64272588 None:intergenic
AGGCTCCACGTACGGAAGCG+AGG 0.623216 6.2:+64273253 MS.gene055894:CDS
TTTAGTCAAGCAAGAAAACG+AGG 0.661177 6.2:+64273095 MS.gene055894:CDS
GGCCGTACACTATATGAACG+CGG 0.742883 6.2:-64273325 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTATAAAAACTATTTATA+AGG + chr6.2:64272877-64272896 MS.gene055894:intron 10.0%
!!! TAAACTATTGATTCCTATTT+GGG + chr6.2:64272756-64272775 MS.gene055894:intron 20.0%
!!! TTAAACTATTGATTCCTATT+TGG + chr6.2:64272755-64272774 MS.gene055894:intron 20.0%
! AGATCAAATAAAACCCAAAT+AGG - chr6.2:64272772-64272791 None:intergenic 25.0%
! CATTTCTCTTAAAAGAAGTT+AGG + chr6.2:64272805-64272824 MS.gene055894:intron 25.0%
ATATTCTGAATCGAGAACTT+CGG - chr6.2:64273294-64273313 None:intergenic 30.0%
ATGTTAGTACCATATTTGAC+GGG - chr6.2:64272629-64272648 None:intergenic 30.0%
GATGTTAGTACCATATTTGA+CGG - chr6.2:64272630-64272649 None:intergenic 30.0%
GTCAAATATGGTACTAACAT+CGG + chr6.2:64272629-64272648 MS.gene055894:CDS 30.0%
TCAAATATGGTACTAACATC+GGG + chr6.2:64272630-64272649 MS.gene055894:CDS 30.0%
TTGACTAAATGCTTGTTCAA+GGG - chr6.2:64273084-64273103 None:intergenic 30.0%
! TTCACACAACAAAACTGTTT+TGG + chr6.2:64273394-64273413 MS.gene055894:CDS 30.0%
AACGATAGTATCTCAATTGC+AGG - chr6.2:64272663-64272682 None:intergenic 35.0%
AGAATTTGACCCGTCAAATA+TGG + chr6.2:64272617-64272636 MS.gene055894:CDS 35.0%
ATATTGCCAACAGGATTTGA+AGG - chr6.2:64273152-64273171 None:intergenic 35.0%
CTTGACTAAATGCTTGTTCA+AGG - chr6.2:64273085-64273104 None:intergenic 35.0%
TATTGCCAACAGGATTTGAA+GGG - chr6.2:64273151-64273170 None:intergenic 35.0%
TTATTATCCAGGGTAATCGA+CGG + chr6.2:64272725-64272744 MS.gene055894:intron 35.0%
TTTAGTCAAGCAAGAAAACG+AGG + chr6.2:64273095-64273114 MS.gene055894:CDS 35.0%
! CAATCGAAAGGTCTTTTGAT+AGG - chr6.2:64273349-64273368 None:intergenic 35.0%
!! AGAAGACTGAAAAGCATTTC+TGG - chr6.2:64273182-64273201 None:intergenic 35.0%
ACAGGTATTAAGTCTATCCC+TGG - chr6.2:64273020-64273039 None:intergenic 40.0%
ACCCTGGATAATAAGGTGTA+GGG - chr6.2:64272719-64272738 None:intergenic 40.0%
CTCTAAATCCAGCAATCGAA+AGG - chr6.2:64273361-64273380 None:intergenic 40.0%
GATAATAAGGTGTAGGGACA+AGG - chr6.2:64272713-64272732 None:intergenic 40.0%
GTCGATTACCCTGGATAATA+AGG - chr6.2:64272726-64272745 None:intergenic 40.0%
TACCCTGGATAATAAGGTGT+AGG - chr6.2:64272720-64272739 None:intergenic 40.0%
TCAAAAGACCTTTCGATTGC+TGG + chr6.2:64273350-64273369 MS.gene055894:CDS 40.0%
TCCCTACACCTTATTATCCA+GGG + chr6.2:64272715-64272734 MS.gene055894:CDS 40.0%
TGAGATACTATCGTTCTGCT+TGG + chr6.2:64272668-64272687 MS.gene055894:CDS 40.0%
! AGTGATTATGCAGCTTTGAC+AGG + chr6.2:64272979-64272998 MS.gene055894:intron 40.0%
! ATTGCTGACGAAGTATTTGC+AGG + chr6.2:64273233-64273252 MS.gene055894:CDS 40.0%
! GTGATTATGCAGCTTTGACA+GGG + chr6.2:64272980-64272999 MS.gene055894:intron 40.0%
! TCGATTGCTGGATTTAGAGT+CGG + chr6.2:64273362-64273381 MS.gene055894:CDS 40.0%
AAACGAGGAGTCAAAGTTCG+CGG + chr6.2:64273110-64273129 MS.gene055894:CDS 45.0%
AGCCGCGTTCATATAGTGTA+CGG + chr6.2:64273323-64273342 MS.gene055894:CDS 45.0%
GGACAAGGAATGCATTTCCA+TGG - chr6.2:64272698-64272717 None:intergenic 45.0%
GGTGTCAGAATATTGCCAAC+AGG - chr6.2:64273161-64273180 None:intergenic 45.0%
GTCCCTACACCTTATTATCC+AGG + chr6.2:64272714-64272733 MS.gene055894:CDS 45.0%
TCAGTACTTCGACAGTGAAC+AGG - chr6.2:64273038-64273057 None:intergenic 45.0%
TCGAACCCTTCAAATCCTGT+TGG + chr6.2:64273143-64273162 MS.gene055894:CDS 45.0%
!! TAAAAATATCTTAATTAAAA+AGG + chr6.2:64272842-64272861 MS.gene055894:intron 5.0%
GCTTTGACAGGGACGTAAGA+TGG + chr6.2:64272991-64273010 MS.gene055894:intron 50.0%
GGCCGTACACTATATGAACG+CGG - chr6.2:64273328-64273347 None:intergenic 50.0%
GTATTTGCAGGCTCCACGTA+CGG + chr6.2:64273245-64273264 MS.gene055894:CDS 50.0%
AAACTCCTCGCTTCCGTACG+TGG - chr6.2:64273261-64273280 None:intergenic 55.0%
TCGTTCTGCTTGGCAGACCA+TGG + chr6.2:64272678-64272697 MS.gene055894:CDS 55.0%
!! GAAAGTGCCGTCGATTACCC+TGG - chr6.2:64272735-64272754 None:intergenic 55.0%
AGGGACGTAAGATGGCGTCC+AGG + chr6.2:64272999-64273018 MS.gene055894:CDS 60.0%
GGGACGTAAGATGGCGTCCA+GGG + chr6.2:64273000-64273019 MS.gene055894:CDS 60.0%
AGGCTCCACGTACGGAAGCG+AGG + chr6.2:64273253-64273272 MS.gene055894:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 64272591 64273433 64272591 ID=MS.gene055894
chr6.2 mRNA 64272591 64273433 64272591 ID=MS.gene055894.t1;Parent=MS.gene055894
chr6.2 exon 64272591 64272736 64272591 ID=MS.gene055894.t1.exon1;Parent=MS.gene055894.t1
chr6.2 CDS 64272591 64272736 64272591 ID=cds.MS.gene055894.t1;Parent=MS.gene055894.t1
chr6.2 exon 64272992 64273433 64272992 ID=MS.gene055894.t1.exon2;Parent=MS.gene055894.t1
chr6.2 CDS 64272992 64273433 64272992 ID=cds.MS.gene055894.t1;Parent=MS.gene055894.t1
Gene Sequence

>MS.gene055894

ATGCATCAGGTTATGGGAGGATCAGTAGAATTTGACCCGTCAAATATGGTACTAACATCGGGAGCAACTCCTGCAATTGAGATACTATCGTTCTGCTTGGCAGACCATGGAAATGCATTCCTTGTCCCTACACCTTATTATCCAGGGTAATCGACGGCACTTTCTTAAACTATTGATTCCTATTTGGGTTTTATTTGATCTGACTTGTTTTTGTCATTTCTCTTAAAAGAAGTTAGGCTAAACAATATTTTTAAAAATATCTTAATTAAAAAGGAGATTATCTTTTATGTATAAAAACTATTTATAAGGAGTTTTTTTAAATCTATTTTTTTATTATTTAACTCAAATTCTATCGTTCTATAAAAAAAATTTAAAAGCTAATTAAAAAAGTGATTATGCAGCTTTGACAGGGACGTAAGATGGCGTCCAGGGATAGACTTAATACCTGTTCACTGTCGAAGTACTGACAATTTCAATCTAAACATCACTGCCCTTGAACAAGCATTTAGTCAAGCAAGAAAACGAGGAGTCAAAGTTCGCGGAATTCTCATCTCGAACCCTTCAAATCCTGTTGGCAATATTCTGACACCAGAAATGCTTTTCAGTCTTCTAGACTTTGCTGAAGATAAAAACATTCATATCATTGCTGACGAAGTATTTGCAGGCTCCACGTACGGAAGCGAGGAGTTTGTGAGTATAGCCGAAGTTCTCGATTCAGAATATATAGATAAAAGCCGCGTTCATATAGTGTACGGCCTATCAAAAGACCTTTCGATTGCTGGATTTAGAGTCGGAGTTATACATTCACACAACAAAACTGTTTTGGATGCTGCCAAAAAATGA
Protein sequence

>MS.gene055894.t1

MHQVMGGSVEFDPSNMVLTSGATPAIEILSFCLADHGNAFLVPTPYYPGFDRDVRWRPGIDLIPVHCRSTDNFNLNITALEQAFSQARKRGVKVRGILISNPSNPVGNILTPEMLFSLLDFAEDKNIHIIADEVFAGSTYGSEEFVSIAEVLDSEYIDKSRVHIVYGLSKDLSIAGFRVGVIHSHNKTVLDAAKK