AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017708


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017708.t1 MTR_7g089400 87.200 125 15 1 1 125 1 124 1.51e-74 223
MS.gene017708.t1 MTR_1g093750 49.215 191 90 3 59 243 141 330 1.22e-47 161
MS.gene017708.t1 MTR_3g070970 35.317 252 137 6 14 243 7 254 4.06e-42 144
MS.gene017708.t1 MTR_2g091190 46.369 179 89 3 71 243 54 231 4.00e-34 123
MS.gene017708.t1 MTR_2g015890 38.636 176 99 3 71 241 62 233 5.76e-31 115
MS.gene017708.t1 MTR_4g079760 42.021 188 92 5 68 243 60 242 3.08e-28 108
MS.gene017708.t1 MTR_2g015890 41.880 117 64 1 71 187 62 174 9.66e-25 98.2
MS.gene017708.t1 MTR_5g066080 39.080 174 78 3 59 206 19 190 1.22e-23 96.3
MS.gene017708.t1 MTR_5g032375 32.093 215 118 6 32 233 7 206 5.24e-22 90.9
MS.gene017708.t1 MTR_4g087920 37.805 164 97 4 70 230 69 230 9.58e-22 91.7
MS.gene017708.t1 MTR_2g015890 34.058 138 82 3 109 241 2 135 1.77e-15 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017708.t1 AT2G41130 62.100 219 77 5 18 233 10 225 4.93e-81 244
MS.gene017708.t1 AT3G56770 61.140 193 61 4 70 250 39 229 5.85e-73 222
MS.gene017708.t1 AT1G68810 45.729 199 96 3 57 243 151 349 2.10e-46 159
MS.gene017708.t1 AT3G25710 57.857 140 57 1 72 211 128 265 6.49e-44 151
MS.gene017708.t1 AT2G40200 41.579 190 94 4 71 245 58 245 7.88e-35 125
MS.gene017708.t1 AT4G38070 34.807 181 102 5 26 206 50 214 2.18e-22 92.8

Find 48 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTGTTATTTCGTCGGTTT+CGG 0.235930 7.4:-19456082 None:intergenic
TTTCGATTAGGTCGGGAATT+AGG 0.256589 7.4:-19456182 None:intergenic
CAACAGATTCAGAATAATAT+TGG 0.265015 7.4:+19454684 MS.gene017708:CDS
GTAATAGTTATTGTTGTTAT+CGG 0.378138 7.4:-19454817 None:intergenic
GAATTCACTCAGGTCTTTGT+TGG 0.378871 7.4:+19456332 MS.gene017708:CDS
GAGACTTGAGGATTTCGATT+AGG 0.380801 7.4:-19456194 None:intergenic
AACAGATTCAGAATAATATT+GGG 0.426141 7.4:+19454685 MS.gene017708:CDS
TGTTGCATCATAGTGCTACT+AGG 0.431842 7.4:-19454777 None:intergenic
GTCGAAAAGGCGTCGAGGGT+TGG 0.453710 7.4:+19456380 MS.gene017708:CDS
GTTGAGTATTCAAAGAATGA+AGG 0.456323 7.4:-19454753 None:intergenic
GCTGAAATGGCCACACTTGG+TGG 0.460387 7.4:+19456237 MS.gene017708:CDS
CACTCAGGTCTTTGTTGGAT+AGG 0.462227 7.4:+19456337 MS.gene017708:CDS
AGGAAGCTGAGAAGAGAAGA+AGG 0.471315 7.4:+19454916 MS.gene017708:CDS
GGCAATGACATCTCCGACGA+AGG 0.483297 7.4:+19456114 MS.gene017708:CDS
GTTATTTCGTCGGTTTCGGA+TGG 0.483862 7.4:-19456078 None:intergenic
GTAATTTCAGAAACTTCAAA+GGG 0.483898 7.4:-19454843 None:intergenic
TTGAGGATTTCGATTAGGTC+GGG 0.493776 7.4:-19456189 None:intergenic
AGTAATTTCAGAAACTTCAA+AGG 0.496460 7.4:-19454844 None:intergenic
CTTGAGGATTTCGATTAGGT+CGG 0.504746 7.4:-19456190 None:intergenic
CCTTGGAGTTGCAAGGGAGA+AGG 0.512266 7.4:-19454974 None:intergenic
CTTGGAGTTGCAAGGGAGAA+GGG 0.521866 7.4:-19454973 None:intergenic
TTCGTCGGAGATGTCATTGC+CGG 0.522101 7.4:-19456112 None:intergenic
TTGAGTATTCAAAGAATGAA+GGG 0.546799 7.4:-19454752 None:intergenic
CCTTCTCCCTTGCAACTCCA+AGG 0.549041 7.4:+19454974 MS.gene017708:CDS
ATAATAACCTTGGAGTTGCA+AGG 0.549750 7.4:-19454981 None:intergenic
AGAGCTGAAATGGCCACACT+TGG 0.551920 7.4:+19456234 MS.gene017708:CDS
TCTTTGTTGGATAGGTCTAG+TGG 0.556474 7.4:+19456345 MS.gene017708:CDS
AGATATGACTGTTATTTCGT+CGG 0.558305 7.4:-19456088 None:intergenic
GGTCTAGTGGTTGTAACGAT+AGG 0.565435 7.4:+19456358 MS.gene017708:CDS
TAATAACCTTGGAGTTGCAA+GGG 0.573577 7.4:-19454980 None:intergenic
AAGGGAGAAGGGTACGAAGA+TGG 0.575464 7.4:-19454962 None:intergenic
ACGTGTTCTTCCACCAAGTG+TGG 0.575747 7.4:-19456247 None:intergenic
GAATATGAGTCTGCCTTCGT+CGG 0.576237 7.4:-19456127 None:intergenic
ATAGGTCGAAAAGGCGTCGA+GGG 0.576982 7.4:+19456376 MS.gene017708:CDS
AGAGCTCTATCTTGCTGAGA+GGG 0.579252 7.4:-19454873 None:intergenic
GTTGTAACGATAGGTCGAAA+AGG 0.580273 7.4:+19456367 MS.gene017708:CDS
TTTCAGAAACTTCAAAGGGG+TGG 0.587837 7.4:-19454839 None:intergenic
GAAATAACAGTCATATCTGC+CGG 0.595239 7.4:+19456093 MS.gene017708:CDS
GATTCAGAATAATATTGGGA+TGG 0.603750 7.4:+19454689 MS.gene017708:CDS
GGAAGCTGAGAAGAGAAGAA+GGG 0.604105 7.4:+19454917 MS.gene017708:CDS
GATTAGGTCGGGAATTAGGT+CGG 0.607145 7.4:-19456178 None:intergenic
GAAGGGTACGAAGATGGTCA+AGG 0.633890 7.4:-19454956 None:intergenic
AGCTGCTTTGAAGAATCACA+AGG 0.645458 7.4:+19454896 MS.gene017708:CDS
TAGAGCTCTATCTTGCTGAG+AGG 0.647696 7.4:-19454874 None:intergenic
GATAGGTCGAAAAGGCGTCG+AGG 0.658588 7.4:+19456375 MS.gene017708:CDS
TGATTGATTTCAGACAGACA+AGG 0.674472 7.4:+19455975 MS.gene017708:intron
TAATTTCAGAAACTTCAAAG+GGG 0.757536 7.4:-19454842 None:intergenic
ATGAAGGGTTGTTAGCAACG+AGG 0.773094 7.4:-19454737 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAGATTCAGAATAATATT+GGG + chr7.4:19454685-19454704 MS.gene017708:CDS 20.0%
!! AATGATGAAAATAATAACCT+TGG - chr7.4:19454994-19455013 None:intergenic 20.0%
!! AATTATTTGCAAATTAAGCT+AGG + chr7.4:19455562-19455581 MS.gene017708:intron 20.0%
!! ATTATTTGCAAATTAAGCTA+GGG + chr7.4:19455563-19455582 MS.gene017708:intron 20.0%
!! GATGTTCCAAAAAATAATTA+AGG - chr7.4:19455343-19455362 None:intergenic 20.0%
!! TCATTCTTAATTATTTGTCT+TGG + chr7.4:19455009-19455028 MS.gene017708:intron 20.0%
!!! CTAGATCCTTAATTATTTTT+TGG + chr7.4:19455334-19455353 MS.gene017708:intron 20.0%
!!! GCTTAATTTGCAAATAATTT+TGG - chr7.4:19455561-19455580 None:intergenic 20.0%
!!! GTAATAGTTATTGTTGTTAT+CGG - chr7.4:19454820-19454839 None:intergenic 20.0%
!!! TTGGATTACATATTTTTTGT+AGG - chr7.4:19455492-19455511 None:intergenic 20.0%
! AGTAATTTCAGAAACTTCAA+AGG - chr7.4:19454847-19454866 None:intergenic 25.0%
! CAACAGATTCAGAATAATAT+TGG + chr7.4:19454684-19454703 MS.gene017708:CDS 25.0%
! CTTAATTACTAAAGTGAGAA+AGG - chr7.4:19455232-19455251 None:intergenic 25.0%
! GTAATTTCAGAAACTTCAAA+GGG - chr7.4:19454846-19454865 None:intergenic 25.0%
! TAATTTCAGAAACTTCAAAG+GGG - chr7.4:19454845-19454864 None:intergenic 25.0%
! TAGTCATGTATAAAACTTGA+TGG - chr7.4:19455652-19455671 None:intergenic 25.0%
! TTGAGTATTCAAAGAATGAA+GGG - chr7.4:19454755-19454774 None:intergenic 25.0%
!! ACATGTTTTCACTCTTTTTT+TGG - chr7.4:19455177-19455196 None:intergenic 25.0%
!! TCAATTTTACAAAACCTACA+AGG + chr7.4:19455770-19455789 MS.gene017708:intron 25.0%
!! TTTTGTTCTTTTGTTCTCAA+AGG + chr7.4:19455075-19455094 MS.gene017708:intron 25.0%
!!! TTGTAGGTTTTGTAAAATTG+AGG - chr7.4:19455771-19455790 None:intergenic 25.0%
AAACCATTGTGATTTAGAAG+AGG - chr7.4:19455798-19455817 None:intergenic 30.0%
GATTCAGAATAATATTGGGA+TGG + chr7.4:19454689-19454708 MS.gene017708:CDS 30.0%
GTTGAGTATTCAAAGAATGA+AGG - chr7.4:19454756-19454775 None:intergenic 30.0%
TGATGAGTGATTAAGTTCAT+TGG - chr7.4:19455511-19455530 None:intergenic 30.0%
! ATTTTCTTCAGAATTCACTC+AGG + chr7.4:19456322-19456341 MS.gene017708:CDS 30.0%
! CTTTAGTAATTAAGTTGCCA+TGG + chr7.4:19455238-19455257 MS.gene017708:intron 30.0%
!! AGATATGACTGTTATTTCGT+CGG - chr7.4:19456091-19456110 None:intergenic 30.0%
!! TCATTTTTGTCTCAAAACCT+AGG - chr7.4:19455875-19455894 None:intergenic 30.0%
!!! GTTTTCACTCTTTTTTTGGA+TGG - chr7.4:19455173-19455192 None:intergenic 30.0%
AAAAACTCTCAGAGCTGAAA+TGG + chr7.4:19456224-19456243 MS.gene017708:CDS 35.0%
ACACACACAATTATCTTTGC+TGG - chr7.4:19455116-19455135 None:intergenic 35.0%
ATAATAACCTTGGAGTTGCA+AGG - chr7.4:19454984-19455003 None:intergenic 35.0%
CTAGTACATGTTTGCATATG+TGG - chr7.4:19455833-19455852 None:intergenic 35.0%
GAAATAACAGTCATATCTGC+CGG + chr7.4:19456093-19456112 MS.gene017708:CDS 35.0%
TAATAACCTTGGAGTTGCAA+GGG - chr7.4:19454983-19455002 None:intergenic 35.0%
TCAATCTTGTCACAAAACCT+AGG - chr7.4:19455912-19455931 None:intergenic 35.0%
TCTTATGAGTTTAGCACAAG+TGG + chr7.4:19455407-19455426 MS.gene017708:intron 35.0%
TGATGAAGAAAGCAAAACCT+AGG + chr7.4:19455892-19455911 MS.gene017708:intron 35.0%
! AGGCATATTTTCACTCATTC+TGG - chr7.4:19455212-19455231 None:intergenic 35.0%
! AGTATCGAACTCAAAACATC+CGG - chr7.4:19455467-19455486 None:intergenic 35.0%
! GTAAAGTACTACATGTTCCA+TGG - chr7.4:19455258-19455277 None:intergenic 35.0%
! TGATTGATTTCAGACAGACA+AGG + chr7.4:19455975-19455994 MS.gene017708:intron 35.0%
!!! TTTCAGCTCTGAGAGTTTTT+AGG - chr7.4:19456224-19456243 None:intergenic 35.0%
!!! TTTTTAGGTGAAGAGACTTG+AGG - chr7.4:19456209-19456228 None:intergenic 35.0%
ATGAGTTTAGCACAAGTGGT+CGG + chr7.4:19455411-19455430 MS.gene017708:intron 40.0%
ATTTAGAAGAGGCTCCTTGT+AGG - chr7.4:19455787-19455806 None:intergenic 40.0%
CTTGAGGATTTCGATTAGGT+CGG - chr7.4:19456193-19456212 None:intergenic 40.0%
GAATTCACTCAGGTCTTTGT+TGG + chr7.4:19456332-19456351 MS.gene017708:CDS 40.0%
GAGACTTGAGGATTTCGATT+AGG - chr7.4:19456197-19456216 None:intergenic 40.0%
GAGCCTCTTCTAAATCACAA+TGG + chr7.4:19455792-19455811 MS.gene017708:intron 40.0%
GTTGTAACGATAGGTCGAAA+AGG + chr7.4:19456367-19456386 MS.gene017708:CDS 40.0%
TCTTTGTTGGATAGGTCTAG+TGG + chr7.4:19456345-19456364 MS.gene017708:CDS 40.0%
TGATGAAGAAAGCAAAGCCT+AGG + chr7.4:19455855-19455874 MS.gene017708:intron 40.0%
TTAAGCTAGGGAAGTCACTT+AGG + chr7.4:19455575-19455594 MS.gene017708:intron 40.0%
TTGAGGATTTCGATTAGGTC+GGG - chr7.4:19456192-19456211 None:intergenic 40.0%
TTTCAGAAACTTCAAAGGGG+TGG - chr7.4:19454842-19454861 None:intergenic 40.0%
TTTCGATTAGGTCGGGAATT+AGG - chr7.4:19456185-19456204 None:intergenic 40.0%
! AGGGAAGTCACTTAGGTTTT+AGG + chr7.4:19455582-19455601 MS.gene017708:intron 40.0%
! TAGCTTTTGCAAAATCGTGG+TGG - chr7.4:19455743-19455762 None:intergenic 40.0%
! TCGTAGCTTTTGCAAAATCG+TGG - chr7.4:19455746-19455765 None:intergenic 40.0%
! TGTCTGAAGTGGTGTATATC+CGG + chr7.4:19455445-19455464 MS.gene017708:intron 40.0%
! TGTTGCATCATAGTGCTACT+AGG - chr7.4:19454780-19454799 None:intergenic 40.0%
!! AGCTGCTTTGAAGAATCACA+AGG + chr7.4:19454896-19454915 MS.gene017708:CDS 40.0%
!! GACTGTTATTTCGTCGGTTT+CGG - chr7.4:19456085-19456104 None:intergenic 40.0%
AGAGCTCTATCTTGCTGAGA+GGG - chr7.4:19454876-19454895 None:intergenic 45.0%
AGGAAGCTGAGAAGAGAAGA+AGG + chr7.4:19454916-19454935 MS.gene017708:CDS 45.0%
ATGAAGGGTTGTTAGCAACG+AGG - chr7.4:19454740-19454759 None:intergenic 45.0%
CACTCAGGTCTTTGTTGGAT+AGG + chr7.4:19456337-19456356 MS.gene017708:CDS 45.0%
GAATATGAGTCTGCCTTCGT+CGG - chr7.4:19456130-19456149 None:intergenic 45.0%
GATTAGGTCGGGAATTAGGT+CGG - chr7.4:19456181-19456200 None:intergenic 45.0%
GGAAGCTGAGAAGAGAAGAA+GGG + chr7.4:19454917-19454936 MS.gene017708:CDS 45.0%
GGTCTAGTGGTTGTAACGAT+AGG + chr7.4:19456358-19456377 MS.gene017708:CDS 45.0%
TAGAGCTCTATCTTGCTGAG+AGG - chr7.4:19454877-19454896 None:intergenic 45.0%
TGCGTAATGTGTGTCTGAAG+TGG + chr7.4:19455434-19455453 MS.gene017708:intron 45.0%
!! GTTATTTCGTCGGTTTCGGA+TGG - chr7.4:19456081-19456100 None:intergenic 45.0%
!!! TTTTATTTTTTTACTATTTA+AGG - chr7.4:19455538-19455557 None:intergenic 5.0%
ACGTGTTCTTCCACCAAGTG+TGG - chr7.4:19456250-19456269 None:intergenic 50.0%
AGAGCTGAAATGGCCACACT+TGG + chr7.4:19456234-19456253 MS.gene017708:CDS 50.0%
CTTGGAGTTGCAAGGGAGAA+GGG - chr7.4:19454976-19454995 None:intergenic 50.0%
TTCGTCGGAGATGTCATTGC+CGG - chr7.4:19456115-19456134 None:intergenic 50.0%
! AAGGGAGAAGGGTACGAAGA+TGG - chr7.4:19454965-19454984 None:intergenic 50.0%
! GAAGGGTACGAAGATGGTCA+AGG - chr7.4:19454959-19454978 None:intergenic 50.0%
!! ATAGGTCGAAAAGGCGTCGA+GGG + chr7.4:19456376-19456395 MS.gene017708:CDS 50.0%
CCTTCTCCCTTGCAACTCCA+AGG + chr7.4:19454974-19454993 MS.gene017708:CDS 55.0%
CCTTGGAGTTGCAAGGGAGA+AGG - chr7.4:19454977-19454996 None:intergenic 55.0%
GCTGAAATGGCCACACTTGG+TGG + chr7.4:19456237-19456256 MS.gene017708:CDS 55.0%
GGCAATGACATCTCCGACGA+AGG + chr7.4:19456114-19456133 MS.gene017708:CDS 55.0%
!! GATAGGTCGAAAAGGCGTCG+AGG + chr7.4:19456375-19456394 MS.gene017708:CDS 55.0%
!! GTCGAAAAGGCGTCGAGGGT+TGG + chr7.4:19456380-19456399 MS.gene017708:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 19454675 19456422 19454675 ID=MS.gene017708
chr7.4 mRNA 19454675 19456422 19454675 ID=MS.gene017708.t1;Parent=MS.gene017708
chr7.4 exon 19454675 19454995 19454675 ID=MS.gene017708.t1.exon1;Parent=MS.gene017708.t1
chr7.4 CDS 19454675 19454995 19454675 ID=cds.MS.gene017708.t1;Parent=MS.gene017708.t1
chr7.4 exon 19455988 19456422 19455988 ID=MS.gene017708.t1.exon2;Parent=MS.gene017708.t1
chr7.4 CDS 19455988 19456422 19455988 ID=cds.MS.gene017708.t1;Parent=MS.gene017708.t1
Gene Sequence

>MS.gene017708

ATGCTTCAGCAACAGATTCAGAATAATATTGGGATGGAAAACAACTCTGAACTCTTTCAATTCCTCGTTGCTAACAACCCTTCATTCTTTGAATACTCAACACCTAGTAGCACTATGATGCAACAAAGTTTCTGCAGTTCTTCCGATAACAACAATAACTATTACCACCCCTTTGAAGTTTCTGAAATTACTGATACACCCTCTCAGCAAGATAGAGCTCTAGCTGCTTTGAAGAATCACAAGGAAGCTGAGAAGAGAAGAAGGGAAAGAATTAACTCTCACCTTGACCATCTTCGTACCCTTCTCCCTTGCAACTCCAAGGTTATTATTTTCATCATTCTTAATTATTTGTCTTGGACAAATTATCTTAAAGCATATTTCTTTTTCTTTAGATTTTCTTTTTTGTTCTTTTGTTCTCAAAGGTTAACTACTTTTTGACCAGCAAAGATAATTGTGTGTGTTTTAGTTGACTAAATAATTATGATTTACTTCATTCCATCCAAAAAAAGAGTGAAAACATGTAGTACTTTTCTACCAGAATGAGTGAAAATATGCCTTTCTCACTTTAGTAATTAAGTTGCCATGGAACATGTAGTACTTTACAATAGTAGAATGAGTGAAAATGAAAAAGAAAATAGTAAATAAAAATTAAAGAAACTCTAGATCCTTAATTATTTTTTGGAACATCAACAAAATTGAAAGAAATATTAACTGATGTATTTATAAAAAAAATCTTATGAGTTTAGCACAAGTGGTCGGTGCGTAATGTGTGTCTGAAGTGGTGTATATCCGGATGTTTTGAGTTCGATACTTACCTACAAAAAATATGTAATCCAATGAACTTAATCACTCATCAAAATCCTTAAATAGTAAAAAAATAAAACCAAAATTATTTGCAAATTAAGCTAGGGAAGTCACTTAGGTTTTAGGAGACTACTTTCTTCACTCAAACATCACTTTTGCATAAAAAATAACCATCAAGTTTTATACATGACTATACATATTTTCTAGATAATTTGAGTTGTTAAGATGAGATTCATGACGAGTCTCTCAGAATTACATTCACCACCACGATTTTGCAAAAGCTACGACACCTCAATTTTACAAAACCTACAAGGAGCCTCTTCTAAATCACAATGGTTTACTTTGAACTCACCACATATGCAAACATGTACTAGAATGATGAAGAAAGCAAAGCCTAGGTTTTGAGACAAAAATGATGAAGAAAGCAAAACCTAGGTTTTGTGACAAGATTGATTCTACATGTTAATAGTTAATTCTTTATTTTAATATTTGCGTTTGATTGATTTCAGACAGACAAGGCTTCACTTCTAGCAAAAGTAGTAGAACGTGTGAAAGAATTAAAGCAACAAACATCTCAAATCACACAACTCGAAACTGTTCCATCCGAAACCGACGAAATAACAGTCATATCTGCCGGCAATGACATCTCCGACGAAGGCAGACTCATATTCAAAGCTTCATTATGCTGCGAAGATCGCTCCGACCTAATTCCCGACCTAATCGAAATCCTCAAGTCTCTTCACCTAAAAACTCTCAGAGCTGAAATGGCCACACTTGGTGGAAGAACACGTAACGTTCTTGTTGTTGCTGCTGAGAAAGAACATAATAGCATTGAATCTATTCATTTTCTTCAGAATTCACTCAGGTCTTTGTTGGATAGGTCTAGTGGTTGTAACGATAGGTCGAAAAGGCGTCGAGGGTTGGATAGAAGAATGATGCCTTAA

Protein sequence

>MS.gene017708.t1

MLQQQIQNNIGMENNSELFQFLVANNPSFFEYSTPSSTMMQQSFCSSSDNNNNYYHPFEVSEITDTPSQQDRALAALKNHKEAEKRRRERINSHLDHLRTLLPCNSKTDKASLLAKVVERVKELKQQTSQITQLETVPSETDEITVISAGNDISDEGRLIFKASLCCEDRSDLIPDLIEILKSLHLKTLRAEMATLGGRTRNVLVVAAEKEHNSIESIHFLQNSLRSLLDRSSGCNDRSKRRRGLDRRMMP