AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013964.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013964.01.T01 MTR_4g051380 98.421 190 3 0 4 193 113 302 3.54e-135 388
MsG0380013964.01.T01 MTR_0002s0760 80.526 190 37 0 4 193 110 299 3.17e-106 315
MsG0380013964.01.T01 MTR_1g070860 78.488 172 18 1 3 174 71 223 3.02e-88 261
MsG0380013964.01.T01 MTR_3g035680 100.000 68 0 0 192 259 110 177 3.50e-44 147
MsG0380013964.01.T01 MTR_4g051270 100.000 68 0 0 192 259 389 456 1.02e-41 148
MsG0380013964.01.T01 MTR_6g055010 100.000 68 0 0 192 259 408 475 1.28e-41 148
MsG0380013964.01.T01 MTR_7g117930 100.000 68 0 0 192 259 408 475 1.64e-41 148
MsG0380013964.01.T01 MTR_7g021770 98.529 68 1 0 192 259 408 475 1.43e-40 145
MsG0380013964.01.T01 MTR_2176s0010 89.394 66 7 0 192 257 159 224 5.06e-37 131
MsG0380013964.01.T01 MTR_0002s0660 89.706 68 7 0 192 259 408 475 1.57e-35 132
MsG0380013964.01.T01 MTR_5g087240 92.424 66 5 0 194 259 610 675 2.02e-33 128
MsG0380013964.01.T01 MTR_4g059920 67.273 55 3 1 138 192 8 47 4.28e-16 70.9
MsG0380013964.01.T01 MTR_7g084780 84.848 33 5 0 213 245 37 69 5.50e-13 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013964.01.T01 ATCG00740 81.865 193 35 0 1 193 1 193 2.40e-115 334
MsG0380013964.01.T01 ATCG00490 88.235 68 8 0 192 259 408 475 1.65e-35 132

Find 48 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAGTAAGCGTCTTTATTA+TGG 0.244106 3:-48526639 MsG0380013964.01.T01:CDS
AATTCAATACACAAATTAAT+AGG 0.248267 3:+48526282 None:intergenic
CTATGATTTGCATTTCTAAC+AGG 0.303912 3:+48526174 None:intergenic
ACAAATTAATAGGTTCTGTT+AGG 0.324680 3:+48526292 None:intergenic
TCACAAGCAGCAGCTAATTC+AGG 0.373684 3:+48525650 None:intergenic
TGATTCTTGAATACCTACTA+TGG 0.387415 3:+48526479 None:intergenic
TAGCTGCTGCTTGTGAAGTC+TGG 0.391463 3:-48525643 MsG0380013964.01.T01:CDS
AATCAAATAGTATCCATTGC+TGG 0.397304 3:+48525599 None:intergenic
AGCTAATTCAGGACTCCATT+TGG 0.412198 3:+48525661 None:intergenic
TCTATTTGTTTCAAAGGTCC+TGG 0.419595 3:-48526387 MsG0380013964.01.T01:CDS
AGTATTCATTCTTATGTGAA+TGG 0.433240 3:-48526153 MsG0380013964.01.T01:intron
GACTCCATTTGGTAGCTTCA+CGG 0.453939 3:+48525672 None:intergenic
CATGAATATTCTACCATAGT+AGG 0.463006 3:-48526492 MsG0380013964.01.T01:CDS
AAAGGTCAAGCAGATACAAT+AGG 0.466912 3:-48526591 MsG0380013964.01.T01:CDS
AATGGAAGTGTGTTGAATCA+AGG 0.468493 3:-48526665 MsG0380013964.01.T01:CDS
AGGAACTTTAGGACACCCTT+GGG 0.475375 3:-48525795 MsG0380013964.01.T01:intron
ATCAAATAGTATCCATTGCT+GGG 0.485651 3:+48525600 None:intergenic
TCTGCTTGACCTTTCCTAAG+TGG 0.488235 3:+48526600 None:intergenic
GACGCATCTATTTGTTTCAA+AGG 0.491757 3:-48526393 MsG0380013964.01.T01:CDS
GCTTTATTCTGTCTCCACTT+AGG 0.498234 3:-48526614 MsG0380013964.01.T01:CDS
GTATTGAAAAGTAATCTGTA+TGG 0.506577 3:-48526423 MsG0380013964.01.T01:CDS
CAAATTTGAATTCCCAGCAA+TGG 0.508854 3:-48525612 MsG0380013964.01.T01:CDS
CACCCTTGGGGAAATGCACC+TGG 0.521465 3:-48525782 MsG0380013964.01.T01:CDS
GAGGAACTTTAGGACACCCT+TGG 0.524326 3:-48525796 MsG0380013964.01.T01:intron
TCATGAGCAGTTACATATCC+AGG 0.525100 3:+48526369 None:intergenic
ATGGAAGTGTGTTGAATCAA+GGG 0.527151 3:-48526664 MsG0380013964.01.T01:CDS
ACTCGATTCGCTACGGCACC+AGG 0.531789 3:+48525764 None:intergenic
TTATCCGTGAAGCTACCAAA+TGG 0.532937 3:-48525676 MsG0380013964.01.T01:CDS
ACACTAAACAACATTCAAGA+TGG 0.544922 3:-48526225 MsG0380013964.01.T01:CDS
CGTAGCGAATCGAGTAGCTC+TGG 0.549072 3:-48525756 MsG0380013964.01.T01:CDS
CACCAGGTGCATTTCCCCAA+GGG 0.564366 3:+48525780 None:intergenic
ATTCTGTCTCCACTTAGGAA+AGG 0.567244 3:-48526609 MsG0380013964.01.T01:CDS
ATGTGTACAAGCTCGTAATG+AGG 0.569123 3:-48525729 MsG0380013964.01.T01:CDS
AAAGTAATCTGTATGGAACT+CGG 0.573319 3:-48526416 MsG0380013964.01.T01:CDS
AAGTAATCTGTATGGAACTC+GGG 0.575584 3:-48526415 MsG0380013964.01.T01:CDS
TCAACGATTTCCACCGAAGG+TGG 0.581752 3:+48526336 None:intergenic
GCACCAGGTGCATTTCCCCA+AGG 0.582933 3:+48525779 None:intergenic
TATCTACTCGGACACTACAA+TGG 0.600147 3:-48526683 MsG0380013964.01.T01:CDS
TGTGTACAAGCTCGTAATGA+GGG 0.604683 3:-48525728 MsG0380013964.01.T01:CDS
GGGACGTGATCTTGCTCGTG+AGG 0.610459 3:-48525708 MsG0380013964.01.T01:CDS
TGCTGCTTGTGAAGTCTGGA+AGG 0.612336 3:-48525639 MsG0380013964.01.T01:CDS
TTACAAATTGAGAGGAAGCG+TGG 0.616762 3:-48526261 MsG0380013964.01.T01:CDS
GGACGTGATCTTGCTCGTGA+GGG 0.620456 3:-48525707 MsG0380013964.01.T01:CDS
CAGAGCTACTCGATTCGCTA+CGG 0.633558 3:+48525757 None:intergenic
GTATTGAATTACAAATTGAG+AGG 0.647425 3:-48526269 MsG0380013964.01.T01:CDS
TTATCAACGATTTCCACCGA+AGG 0.651558 3:+48526333 None:intergenic
ACTATGGTAGAATATTCATG+TGG 0.711547 3:+48526495 None:intergenic
GGAACTTTAGGACACCCTTG+GGG 0.727359 3:-48525794 MsG0380013964.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCAATACACAAATTAAT+AGG + Chr3:48526027-48526046 None:intergenic 15.0%
!! TAAATAAATCAATCAAATTC+CGG + Chr3:48526260-48526279 None:intergenic 15.0%
!! AAATAAATCAATCAAATTCC+GGG + Chr3:48526259-48526278 None:intergenic 20.0%
!! ATCTATCATGAAAAGTAAAA+AGG + Chr3:48526350-48526369 None:intergenic 20.0%
!! TCTATCATGAAAAGTAAAAA+GGG + Chr3:48526349-48526368 None:intergenic 20.0%
!! TTCTAATTGGTCAATAAAAA+TGG + Chr3:48526421-48526440 None:intergenic 20.0%
!!! AAAAAGTTAAAGTATCTACT+CGG - Chr3:48525611-48525630 MsG0380013964.01.T01:CDS 20.0%
! ACAAATTAATAGGTTCTGTT+AGG + Chr3:48526017-48526036 None:intergenic 25.0%
! AGTATTCATTCTTATGTGAA+TGG - Chr3:48526153-48526172 MsG0380013964.01.T01:intron 25.0%
! CTATCATGAAAAGTAAAAAG+GGG + Chr3:48526348-48526367 None:intergenic 25.0%
! GTATTGAAAAGTAATCTGTA+TGG - Chr3:48525883-48525902 MsG0380013964.01.T01:intron 25.0%
! GTATTGAATTACAAATTGAG+AGG - Chr3:48526037-48526056 MsG0380013964.01.T01:intron 25.0%
! GTCCAATAATGTATGTATAT+TGG + Chr3:48526478-48526497 None:intergenic 25.0%
! GTCCAATATACATACATTAT+TGG - Chr3:48526473-48526492 MsG0380013964.01.T01:CDS 25.0%
! TACATTATTGGACTTCAATT+CGG - Chr3:48526485-48526504 MsG0380013964.01.T01:CDS 25.0%
! TTAAGACAATTATAGATCCT+GGG + Chr3:48526450-48526469 None:intergenic 25.0%
!! TTTAAGACAATTATAGATCC+TGG + Chr3:48526451-48526470 None:intergenic 25.0%
!! TTTTCATGATAGATTGCTTA+AGG - Chr3:48526356-48526375 MsG0380013964.01.T01:CDS 25.0%
AAAGTAATCTGTATGGAACT+CGG - Chr3:48525890-48525909 MsG0380013964.01.T01:intron 30.0%
ACACTAAACAACATTCAAGA+TGG - Chr3:48526081-48526100 MsG0380013964.01.T01:intron 30.0%
ACTATGGTAGAATATTCATG+TGG + Chr3:48525814-48525833 None:intergenic 30.0%
AGATACTCTTTCTCGAAATA+TGG - Chr3:48526190-48526209 MsG0380013964.01.T01:CDS 30.0%
CATGAATATTCTACCATAGT+AGG - Chr3:48525814-48525833 MsG0380013964.01.T01:intron 30.0%
GATTGCTTAAGGATAAACTA+AGG - Chr3:48526367-48526386 MsG0380013964.01.T01:CDS 30.0%
TCTTCTTCTGCATGTAAAAA+AGG + Chr3:48526285-48526304 None:intergenic 30.0%
TGATTCTTGAATACCTACTA+TGG + Chr3:48525830-48525849 None:intergenic 30.0%
TTTCTCGAAATATGGACAAA+TGG - Chr3:48526198-48526217 MsG0380013964.01.T01:CDS 30.0%
! CTATGATTTGCATTTCTAAC+AGG + Chr3:48526135-48526154 None:intergenic 30.0%
AAAGGTCAAGCAGATACAAT+AGG - Chr3:48525715-48525734 MsG0380013964.01.T01:CDS 35.0%
AAGTAATCTGTATGGAACTC+GGG - Chr3:48525891-48525910 MsG0380013964.01.T01:intron 35.0%
ATTATTGGACTTCAATTCGG+TGG - Chr3:48526488-48526507 MsG0380013964.01.T01:CDS 35.0%
CAAATTTGAATTCCCAGCAA+TGG - Chr3:48526694-48526713 MsG0380013964.01.T01:CDS 35.0%
GACAGTAAGCGTCTTTATTA+TGG - Chr3:48525667-48525686 MsG0380013964.01.T01:CDS 35.0%
GACGCATCTATTTGTTTCAA+AGG - Chr3:48525913-48525932 MsG0380013964.01.T01:intron 35.0%
TAAATCAATCAAATTCCGGG+AGG + Chr3:48526256-48526275 None:intergenic 35.0%
TCTATTTGTTTCAAAGGTCC+TGG - Chr3:48525919-48525938 MsG0380013964.01.T01:intron 35.0%
! AATGGAAGTGTGTTGAATCA+AGG - Chr3:48525641-48525660 MsG0380013964.01.T01:CDS 35.0%
! AATTTTGCTCGGAGAAATAG+AGG - Chr3:48525753-48525772 MsG0380013964.01.T01:CDS 35.0%
! ATGGAAGTGTGTTGAATCAA+GGG - Chr3:48525642-48525661 MsG0380013964.01.T01:CDS 35.0%
! ATTTTGCTCGGAGAAATAGA+GGG - Chr3:48525754-48525773 MsG0380013964.01.T01:CDS 35.0%
! GCTTCATAAAGTGCTTCTTT+AGG + Chr3:48526234-48526253 None:intergenic 35.0%
! TGACATCATTTTACCACCTT+CGG - Chr3:48525957-48525976 MsG0380013964.01.T01:intron 35.0%
ACCAATTAGAATTGTCTCCC+AGG - Chr3:48526430-48526449 MsG0380013964.01.T01:CDS 40.0%
AGCTAATTCAGGACTCCATT+TGG + Chr3:48526648-48526667 None:intergenic 40.0%
ATGTGTACAAGCTCGTAATG+AGG - Chr3:48526577-48526596 MsG0380013964.01.T01:CDS 40.0%
ATTCTGTCTCCACTTAGGAA+AGG - Chr3:48525697-48525716 MsG0380013964.01.T01:CDS 40.0%
TATCTACTCGGACACTACAA+TGG - Chr3:48525623-48525642 MsG0380013964.01.T01:CDS 40.0%
TCATGAGCAGTTACATATCC+AGG + Chr3:48525940-48525959 None:intergenic 40.0%
TCCTGGGAGACAATTCTAAT+TGG + Chr3:48526434-48526453 None:intergenic 40.0%
TGTGTACAAGCTCGTAATGA+GGG - Chr3:48526578-48526597 MsG0380013964.01.T01:CDS 40.0%
TTACAAATTGAGAGGAAGCG+TGG - Chr3:48526045-48526064 MsG0380013964.01.T01:intron 40.0%
TTATCAACGATTTCCACCGA+AGG + Chr3:48525976-48525995 None:intergenic 40.0%
TTATCCGTGAAGCTACCAAA+TGG - Chr3:48526630-48526649 MsG0380013964.01.T01:CDS 40.0%
! GCAATGCGAAGAATTTTGCT+CGG - Chr3:48525742-48525761 MsG0380013964.01.T01:CDS 40.0%
! GCTTTATTCTGTCTCCACTT+AGG - Chr3:48525692-48525711 MsG0380013964.01.T01:CDS 40.0%
AAGCACTTTATGAAGCCTCC+CGG - Chr3:48526238-48526257 MsG0380013964.01.T01:CDS 45.0%
TCACAAGCAGCAGCTAATTC+AGG + Chr3:48526659-48526678 None:intergenic 45.0%
TCTGCTTGACCTTTCCTAAG+TGG + Chr3:48525709-48525728 None:intergenic 45.0%
! ATTGGACTTCAATTCGGTGG+AGG - Chr3:48526491-48526510 MsG0380013964.01.T01:CDS 45.0%
! CAATTCGGTGGAGGAACTTT+AGG - Chr3:48526500-48526519 MsG0380013964.01.T01:CDS 45.0%
! CATCATTTTACCACCTTCGG+TGG - Chr3:48525960-48525979 MsG0380013964.01.T01:intron 45.0%
! GACTCCATTTGGTAGCTTCA+CGG + Chr3:48526637-48526656 None:intergenic 45.0%
!! AGGAACTTTAGGACACCCTT+GGG - Chr3:48526511-48526530 MsG0380013964.01.T01:CDS 45.0%
TCAACGATTTCCACCGAAGG+TGG + Chr3:48525973-48525992 None:intergenic 50.0%
! CAGAGCTACTCGATTCGCTA+CGG + Chr3:48526552-48526571 None:intergenic 50.0%
! TAGCTGCTGCTTGTGAAGTC+TGG - Chr3:48526663-48526682 MsG0380013964.01.T01:CDS 50.0%
! TGCTGCTTGTGAAGTCTGGA+AGG - Chr3:48526667-48526686 MsG0380013964.01.T01:CDS 50.0%
!! GAGGAACTTTAGGACACCCT+TGG - Chr3:48526510-48526529 MsG0380013964.01.T01:CDS 50.0%
!! GGAACTTTAGGACACCCTTG+GGG - Chr3:48526512-48526531 MsG0380013964.01.T01:CDS 50.0%
CACCAGGTGCATTTCCCCAA+GGG + Chr3:48526529-48526548 None:intergenic 55.0%
CGTAGCGAATCGAGTAGCTC+TGG - Chr3:48526550-48526569 MsG0380013964.01.T01:CDS 55.0%
GGACGTGATCTTGCTCGTGA+GGG - Chr3:48526599-48526618 MsG0380013964.01.T01:CDS 55.0%
CACCCTTGGGGAAATGCACC+TGG - Chr3:48526524-48526543 MsG0380013964.01.T01:CDS 60.0%
GCACCAGGTGCATTTCCCCA+AGG + Chr3:48526530-48526549 None:intergenic 60.0%
GGGACGTGATCTTGCTCGTG+AGG - Chr3:48526598-48526617 MsG0380013964.01.T01:CDS 60.0%
! ACTCGATTCGCTACGGCACC+AGG + Chr3:48526545-48526564 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48525601 48526727 48525601 ID=MsG0380013964.01;Name=MsG0380013964.01
Chr3 mRNA 48525601 48526727 48525601 ID=MsG0380013964.01.T01;Parent=MsG0380013964.01;Name=MsG0380013964.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|259
Chr3 exon 48526154 48526727 48526154 ID=MsG0380013964.01.T01:exon:9337;Parent=MsG0380013964.01.T01
Chr3 exon 48525601 48525806 48525601 ID=MsG0380013964.01.T01:exon:9336;Parent=MsG0380013964.01.T01
Chr3 CDS 48526154 48526727 48526154 ID=MsG0380013964.01.T01:cds;Parent=MsG0380013964.01.T01
Chr3 CDS 48525601 48525806 48525601 ID=MsG0380013964.01.T01:cds;Parent=MsG0380013964.01.T01
Gene Sequence

>MsG0380013964.01.T01

ATGATTCGAGAAAAAGTTAAAGTATCTACTCGGACACTACAATGGAAGTGTGTTGAATCAAGGGTAGACAGTAAGCGTCTTTATTATGGACGCTTTATTCTGTCTCCACTTAGGAAAGGTCAAGCAGATACAATAGGCATTGCAATGCGAAGAATTTTGCTCGGAGAAATAGAGGGAACATGTATCACACGTGCAAAATCTGAGAAAATACCACATGAATATTCTACCATAGTAGGTATTCAAGAATCAATACATGAGATTTTAATGAATTTGAAAGAAATTGTATTGAAAAGTAATCTGTATGGAACTCGGGACGCATCTATTTGTTTCAAAGGTCCTGGATATGTAACTGCTCATGACATCATTTTACCACCTTCGGTGGAAATCGTTGATAATACACAACATATAGCTAACCTAACAGAACCTATTAATTTGTGTATTGAATTACAAATTGAGAGGAAGCGTGGATATCGTATAAAAACACTAAACAACATTCAAGATGGAAGTTATACTATAGATGCAGTATTTATGCCTGTTAGAAATGCAAATCATAGTATTCATTCTTATGTGAATGGACACCCTTGGGGAAATGCACCTGGTGCCGTAGCGAATCGAGTAGCTCTGGAAGCATGTGTACAAGCTCGTAATGAGGGACGTGATCTTGCTCGTGAGGGTAATGAAATTATCCGTGAAGCTACCAAATGGAGTCCTGAATTAGCTGCTGCTTGTGAAGTCTGGAAGGAGATCAAATTTGAATTCCCAGCAATGGATACTATTTGA

Protein sequence

>MsG0380013964.01.T01

MIREKVKVSTRTLQWKCVESRVDSKRLYYGRFILSPLRKGQADTIGIAMRRILLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNLKEIVLKSNLYGTRDASICFKGPGYVTAHDIILPPSVEIVDNTQHIANLTEPINLCIELQIERKRGYRIKTLNNIQDGSYTIDAVFMPVRNANHSIHSYVNGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNEIIREATKWSPELAAACEVWKEIKFEFPAMDTI*