AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02185

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02185.t1 MTR_2g009390 99.107 112 1 0 1 112 1 112 2.57e-79 228
MS.gene02185.t1 MTR_8g080980 45.455 110 54 4 2 110 38 142 1.05e-19 83.2
MS.gene02185.t1 MTR_8g080980 36.036 111 65 3 3 110 272 379 6.62e-14 66.6
MS.gene02185.t1 MTR_5g080300 40.000 110 63 3 2 110 12 119 1.25e-19 79.7
MS.gene02185.t1 MTR_8g038785 41.905 105 50 3 11 111 180 277 5.74e-18 78.2
MS.gene02185.t1 MTR_7g053470 45.263 95 47 3 16 110 49 138 3.39e-17 75.9
MS.gene02185.t1 MTR_8g012340 46.316 95 46 3 16 110 55 144 7.23e-17 75.1
MS.gene02185.t1 MTR_4g094785 36.364 110 56 4 11 110 133 238 3.46e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02185.t1 AT5G64350 85.714 112 16 0 1 112 1 112 1.32e-70 206
MS.gene02185.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02185.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02185.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02185.t1 AT5G48570 40.000 110 60 4 2 110 47 151 9.66e-16 72.0
MS.gene02185.t1 AT3G25230 40.367 109 59 4 2 109 39 142 4.69e-15 70.1
MS.gene02185.t1 AT3G25230 40.367 109 59 4 2 109 39 142 6.03e-15 69.7
MS.gene02185.t1 AT4G25340 41.176 102 53 4 12 112 382 477 5.41e-14 67.0
MS.gene02185.t1 AT5G45680 40.367 109 51 4 11 109 101 205 4.06e-13 63.2
MS.gene02185.t1 AT5G05420 40.196 102 53 4 12 112 49 143 9.03e-13 60.8

Find 31 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTAGTGGCTTTCCTGCTT+GGG 0.208113 2.1:+73650967 MS.gene02185:CDS
TGCTCTCCTGATTATGCTTA+TGG 0.301017 2.1:+73650944 MS.gene02185:CDS
GTGACCTTTCTCAGAAGTTC+TGG 0.322760 2.1:+73649841 MS.gene02185:CDS
TCGGAGAAGTTGCTCGTCTT+CGG 0.329775 2.1:+73650364 MS.gene02185:CDS
AATACAACCCAACTCTGTTT+TGG 0.332199 2.1:+73650991 MS.gene02185:CDS
GCGCTAGTGGCTTTCCTGCT+TGG 0.337892 2.1:+73650966 MS.gene02185:CDS
CGGAGAAGTTGCTCGTCTTC+GGG 0.345948 2.1:+73650365 MS.gene02185:CDS
AATCCATTCACTTTCAAAAT+CGG 0.376739 2.1:+73649971 MS.gene02185:CDS
GAGAGAGTGCTCACCGTAAC+CGG 0.423839 2.1:-73649653 None:intergenic
GTTGGCTTAGGACCGTTTCC+AGG 0.437240 2.1:-73649601 None:intergenic
CTAGCGCCATAAGCATAATC+AGG 0.449393 2.1:-73650950 None:intergenic
TCAAACTCCAAAACAGAGTT+GGG 0.461799 2.1:-73650998 None:intergenic
CTCAAACTCCAAAACAGAGT+TGG 0.473985 2.1:-73650999 None:intergenic
GGTGTCATTGGCATGCAAAT+CGG 0.478078 2.1:+73650345 MS.gene02185:CDS
AAAGTGAATGGATTCTGGCC+AGG 0.495829 2.1:-73649962 None:intergenic
ACTGTCCACTGCACCGGTTA+CGG 0.501294 2.1:+73649640 MS.gene02185:CDS
ACCTTTCTCAGAAGTTCTGG+AGG 0.508162 2.1:+73649844 MS.gene02185:CDS
CAAATCGTTCGACCTGGAAA+CGG 0.515678 2.1:+73649589 MS.gene02185:CDS
ACCTCCAGAACTTCTGAGAA+AGG 0.525297 2.1:-73649845 None:intergenic
TTCACTTTCAAAATCGGCAA+AGG 0.528436 2.1:+73649977 MS.gene02185:CDS
GGATGGGATGAAGGTGTCAT+TGG 0.529844 2.1:+73650333 MS.gene02185:intron
AACGTCACTGTCCACTGCAC+CGG 0.542566 2.1:+73649634 MS.gene02185:CDS
TATTACAGTACAAAAGATCC+TGG 0.543772 2.1:+73649944 MS.gene02185:intron
GATTATGCTTATGGCGCTAG+TGG 0.545830 2.1:+73650953 MS.gene02185:CDS
AACGGTCCTAAGCCAACTCC+TGG 0.550713 2.1:+73649607 MS.gene02185:CDS
TTGTGTGTAGGATGGGATGA+AGG 0.556041 2.1:+73650324 MS.gene02185:intron
TTGGGTTGTATTCCCCAAGC+AGG 0.558631 2.1:-73650980 None:intergenic
GCTAGTGGCTTTCCTGCTTG+GGG 0.575669 2.1:+73650968 MS.gene02185:CDS
GGCAAAGGTTCTGTCATCAA+AGG 0.586910 2.1:+73649992 MS.gene02185:CDS
GCTCACCGTAACCGGTGCAG+TGG 0.611429 2.1:-73649645 None:intergenic
GAGAAGCAAATCGTTCGACC+TGG 0.621651 2.1:+73649583 MS.gene02185:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTAATTCAAATTATAAG+GGG - chr2.1:73649726-73649745 None:intergenic 10.0%
!! ACAATATTAAAAACAAAAAA+TGG - chr2.1:73649902-73649921 None:intergenic 10.0%
!! CTAATTTAATTCAAATTATA+AGG - chr2.1:73649728-73649747 None:intergenic 10.0%
!! TAAAATGAAAGATAAGAAAT+GGG - chr2.1:73649699-73649718 None:intergenic 15.0%
!! TTAAAATGAAAGATAAGAAA+TGG - chr2.1:73649700-73649719 None:intergenic 15.0%
!! AAAATGAAAGATAAGAAATG+GGG - chr2.1:73649698-73649717 None:intergenic 20.0%
!! AATGGAAATTCAACATATTA+AGG - chr2.1:73650710-73650729 None:intergenic 20.0%
!! ATTTCTATGATAAGTGTTTA+TGG + chr2.1:73650648-73650667 MS.gene02185:intron 20.0%
!! GTTGATACTTTGTTAAATAA+TGG + chr2.1:73650875-73650894 MS.gene02185:intron 20.0%
!!! TACTACTTTTACTTTATTTC+TGG + chr2.1:73650219-73650238 MS.gene02185:intron 20.0%
! AAACAAAAAATGGAATGACA+AGG - chr2.1:73649892-73649911 None:intergenic 25.0%
! AACAAAAAATGGAATGACAA+GGG - chr2.1:73649891-73649910 None:intergenic 25.0%
! AATCCATTCACTTTCAAAAT+CGG + chr2.1:73649971-73649990 MS.gene02185:CDS 25.0%
!!! AAATGGGGTTTTTAGTTTTA+GGG - chr2.1:73649683-73649702 None:intergenic 25.0%
!!! TTATAACTTGTTACCACTTT+GGG + chr2.1:73650416-73650435 MS.gene02185:intron 25.0%
!!! TTTATAACTTGTTACCACTT+TGG + chr2.1:73650415-73650434 MS.gene02185:intron 25.0%
CAACATATTAAGGTCATGTT+TGG - chr2.1:73650700-73650719 None:intergenic 30.0%
TATTACAGTACAAAAGATCC+TGG + chr2.1:73649944-73649963 MS.gene02185:intron 30.0%
! GTGTAGAGTTTTTACACTAT+CGG + chr2.1:73650037-73650056 MS.gene02185:intron 30.0%
!! TTTTGAAAGTGAATGGATTC+TGG - chr2.1:73649970-73649989 None:intergenic 30.0%
!!! GAAATGGGGTTTTTAGTTTT+AGG - chr2.1:73649684-73649703 None:intergenic 30.0%
AGATCTACTCGTTCTTTGTT+TGG + chr2.1:73649746-73649765 MS.gene02185:intron 35.0%
CAATGTACATTCAGATGTGT+TGG + chr2.1:73650265-73650284 MS.gene02185:intron 35.0%
GTGAGTAAAACAAACAGCAA+TGG - chr2.1:73650728-73650747 None:intergenic 35.0%
TATCAACAAGGTCAATGACA+GGG - chr2.1:73650915-73650934 None:intergenic 35.0%
TCAAACTCCAAAACAGAGTT+GGG - chr2.1:73651001-73651020 None:intergenic 35.0%
TTACACACTTGTGAGACTTT+AGG - chr2.1:73650129-73650148 None:intergenic 35.0%
TTATCAACAAGGTCAATGAC+AGG - chr2.1:73650916-73650935 None:intergenic 35.0%
TTCACTTTCAAAATCGGCAA+AGG + chr2.1:73649977-73649996 MS.gene02185:CDS 35.0%
! AATACAACCCAACTCTGTTT+TGG + chr2.1:73650991-73651010 MS.gene02185:CDS 35.0%
! GTTTTACTCACACACATACA+AGG + chr2.1:73650737-73650756 MS.gene02185:intron 35.0%
! TATTGCGATGATGATGAACA+GGG + chr2.1:73649811-73649830 MS.gene02185:intron 35.0%
! TGATGATGAACAGGGAAAAA+CGG + chr2.1:73649819-73649838 MS.gene02185:intron 35.0%
! TTATTGCGATGATGATGAAC+AGG + chr2.1:73649810-73649829 MS.gene02185:intron 35.0%
!!! TGTTTTGGAGTTTGAGATTG+AGG + chr2.1:73651006-73651025 MS.gene02185:CDS 35.0%
!!! TTGCCGATTTTGAAAGTGAA+TGG - chr2.1:73649977-73649996 None:intergenic 35.0%
ACTATCTGTTGTGTGTAGGA+TGG + chr2.1:73650316-73650335 MS.gene02185:intron 40.0%
CAATTCAATCAAGCCCAAAG+TGG - chr2.1:73650432-73650451 None:intergenic 40.0%
CACTTTGGGCTTGATTGAAT+TGG + chr2.1:73650430-73650449 MS.gene02185:intron 40.0%
CTATCTGTTGTGTGTAGGAT+GGG + chr2.1:73650317-73650336 MS.gene02185:intron 40.0%
CTCAAACTCCAAAACAGAGT+TGG - chr2.1:73651002-73651021 None:intergenic 40.0%
GCACTGCAAGATTATCAACA+AGG - chr2.1:73650927-73650946 None:intergenic 40.0%
TCCAACTATCTGTTGTGTGT+AGG + chr2.1:73650312-73650331 MS.gene02185:intron 40.0%
TCCTACACACAACAGATAGT+TGG - chr2.1:73650316-73650335 None:intergenic 40.0%
TGCTCTCCTGATTATGCTTA+TGG + chr2.1:73650944-73650963 MS.gene02185:CDS 40.0%
!! CTTGTGAGACTTTAGGACTT+AGG - chr2.1:73650122-73650141 None:intergenic 40.0%
ATACACGCGACTCGATTAAG+TGG - chr2.1:73650770-73650789 None:intergenic 45.0%
CAAATCGTTCGACCTGGAAA+CGG + chr2.1:73649589-73649608 MS.gene02185:CDS 45.0%
CTAGCGCCATAAGCATAATC+AGG - chr2.1:73650953-73650972 None:intergenic 45.0%
GATTATGCTTATGGCGCTAG+TGG + chr2.1:73650953-73650972 MS.gene02185:CDS 45.0%
GGCAAAGGTTCTGTCATCAA+AGG + chr2.1:73649992-73650011 MS.gene02185:CDS 45.0%
GTGACCTTTCTCAGAAGTTC+TGG + chr2.1:73649841-73649860 MS.gene02185:CDS 45.0%
TGGATGCGCAGGTCAATTAA+GGG - chr2.1:73650680-73650699 None:intergenic 45.0%
TTGGATGCGCAGGTCAATTA+AGG - chr2.1:73650681-73650700 None:intergenic 45.0%
TTGTGTGTAGGATGGGATGA+AGG + chr2.1:73650324-73650343 MS.gene02185:intron 45.0%
! AAAGTGAATGGATTCTGGCC+AGG - chr2.1:73649965-73649984 None:intergenic 45.0%
! ACCTCCAGAACTTCTGAGAA+AGG - chr2.1:73649848-73649867 None:intergenic 45.0%
! ACCTTTCTCAGAAGTTCTGG+AGG + chr2.1:73649844-73649863 MS.gene02185:CDS 45.0%
!! GAGACTTTAGGACTTAGGAG+TGG - chr2.1:73650117-73650136 None:intergenic 45.0%
!! GGTGTCATTGGCATGCAAAT+CGG + chr2.1:73650345-73650364 MS.gene02185:CDS 45.0%
!! TTCTCAGAAGTTCTGGAGGT+TGG + chr2.1:73649848-73649867 MS.gene02185:intron 45.0%
!! TTTTGACCAGGAGTTGGCTT+AGG - chr2.1:73649616-73649635 None:intergenic 45.0%
!! TAATTTAATTCAAATTATAA+GGG - chr2.1:73649727-73649746 None:intergenic 5.0%
AAGGTCATGTTTGGATGCGC+AGG - chr2.1:73650691-73650710 None:intergenic 50.0%
GAGAAGCAAATCGTTCGACC+TGG + chr2.1:73649583-73649602 MS.gene02185:CDS 50.0%
TCGGAGAAGTTGCTCGTCTT+CGG + chr2.1:73650364-73650383 MS.gene02185:CDS 50.0%
! TTGGGTTGTATTCCCCAAGC+AGG - chr2.1:73650983-73651002 None:intergenic 50.0%
!! GGATGGGATGAAGGTGTCAT+TGG + chr2.1:73650333-73650352 MS.gene02185:intron 50.0%
!! GTGACGTTTTGACCAGGAGT+TGG - chr2.1:73649622-73649641 None:intergenic 50.0%
!! TGGACAGTGACGTTTTGACC+AGG - chr2.1:73649628-73649647 None:intergenic 50.0%
AACGGTCCTAAGCCAACTCC+TGG + chr2.1:73649607-73649626 MS.gene02185:CDS 55.0%
AACGTCACTGTCCACTGCAC+CGG + chr2.1:73649634-73649653 MS.gene02185:CDS 55.0%
CGCTAGTGGCTTTCCTGCTT+GGG + chr2.1:73650967-73650986 MS.gene02185:CDS 55.0%
CGGAGAAGTTGCTCGTCTTC+GGG + chr2.1:73650365-73650384 MS.gene02185:CDS 55.0%
GCTAGTGGCTTTCCTGCTTG+GGG + chr2.1:73650968-73650987 MS.gene02185:CDS 55.0%
! GTTGGCTTAGGACCGTTTCC+AGG - chr2.1:73649604-73649623 None:intergenic 55.0%
!! ACTGTCCACTGCACCGGTTA+CGG + chr2.1:73649640-73649659 MS.gene02185:CDS 55.0%
!! GAGAGAGTGCTCACCGTAAC+CGG - chr2.1:73649656-73649675 None:intergenic 55.0%
GCGCTAGTGGCTTTCCTGCT+TGG + chr2.1:73650966-73650985 MS.gene02185:CDS 60.0%
GCTCACCGTAACCGGTGCAG+TGG - chr2.1:73649648-73649667 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 73649574 73651045 73649574 ID=MS.gene02185
chr2.1 mRNA 73649574 73651045 73649574 ID=MS.gene02185.t1;Parent=MS.gene02185
chr2.1 exon 73649574 73649661 73649574 ID=MS.gene02185.t1.exon1;Parent=MS.gene02185.t1
chr2.1 CDS 73649574 73649661 73649574 ID=cds.MS.gene02185.t1;Parent=MS.gene02185.t1
chr2.1 exon 73649832 73649865 73649832 ID=MS.gene02185.t1.exon2;Parent=MS.gene02185.t1
chr2.1 CDS 73649832 73649865 73649832 ID=cds.MS.gene02185.t1;Parent=MS.gene02185.t1
chr2.1 exon 73649952 73650013 73649952 ID=MS.gene02185.t1.exon3;Parent=MS.gene02185.t1
chr2.1 CDS 73649952 73650013 73649952 ID=cds.MS.gene02185.t1;Parent=MS.gene02185.t1
chr2.1 exon 73650334 73650386 73650334 ID=MS.gene02185.t1.exon4;Parent=MS.gene02185.t1
chr2.1 CDS 73650334 73650386 73650334 ID=cds.MS.gene02185.t1;Parent=MS.gene02185.t1
chr2.1 exon 73650944 73651045 73650944 ID=MS.gene02185.t1.exon5;Parent=MS.gene02185.t1
chr2.1 CDS 73650944 73651045 73650944 ID=cds.MS.gene02185.t1;Parent=MS.gene02185.t1
Gene Sequence

>MS.gene02185

ATGGGAGTTGAGAAGCAAATCGTTCGACCTGGAAACGGTCCTAAGCCAACTCCTGGTCAAAACGTCACTGTCCACTGCACCGGTTACGGTGAGCACTCTCTCTAAACCCTAAAACTAAAAACCCCATTTCTTATCTTTCATTTTAATTACCCCTTATAATTTGAATTAAATTAGATCTACTCGTTCTTTGTTTGGCTTTGATTCATTCATTCATGCGCTAATTTTTTTTTTTTTTTTTATTGCGATGATGATGAACAGGGAAAAACGGTGACCTTTCTCAGAAGTTCTGGAGGTTGGTTAATTTGCTTACTTTACCCTTGTCATTCCATTTTTTGTTTTTAATATTGTGTTCATTTCATTTCATTTACTTTATTACAGTACAAAAGATCCTGGCCAGAATCCATTCACTTTCAAAATCGGCAAAGGTTCTGTCATCAAAGGTACTATTATAACATTACTGTCAGTGTAGAGTTTTTACACTATCGGTTAATCATATTCTTAACTTTCTTGATAATCAGAAACATTTGACTTTTATCACAACCACTCCTAAGTCCTAAAGTCTCACAAGTGTGTAAAATTGTTTACACTAACAATGCATGAAAATTAAAATTGTACATTATCATGATAACTAATTAGTGTTAATATTACTACTTTTACTTTATTTCTGGCTTCATTACACATAAAAATGCTGCAATGTACATTCAGATGTGTTGGCAACTCATTCACTATATGATTTATTCCAACTATCTGTTGTGTGTAGGATGGGATGAAGGTGTCATTGGCATGCAAATCGGAGAAGTTGCTCGTCTTCGGGTATAATATCTATTCTCTGCTCTTACTTTTTATAACTTGTTACCACTTTGGGCTTGATTGAATTGGATACTAAGATAAACATTTGTGATACTGTTAGAGAGAGTTCGTGAAAATAGTTTATCACATATTCACATTCATATGTACATAAACTATTTTAGCTTATATGAAAACAGTTTGACTTTTTATGAAAACAGCTTATAGCTTATACGAAAATAATGACTTTATTTTATACTTTATTATAGAAATAGCTTATACGTAAGCATTTCTATGATAAGTGTTTATGGTATAAGCCCTTAATTGACCTGCGCATCCAAACATGACCTTAATATGTTGAATTTCCATTGCTGTTTGTTTTACTCACACACATACAAGGTGAAAATCCACTTAATCGAGTCGCGTGTATTAAATTTTATCAACTTAATTGTTAAATCAAACGTTCTTATTATTGAGCATGTCTAGTTTATAAATTTTTGCAATTTTATAAGCTAGTTGATACTTTGTTAAATAATGGTCAGTTTGAGTTTTCCCTGTCATTGACCTTGTTGATAATCTTGCAGTGCTCTCCTGATTATGCTTATGGCGCTAGTGGCTTTCCTGCTTGGGGAATACAACCCAACTCTGTTTTGGAGTTTGAGATTGAGGTCTTGAGTGCAGAATGA
Protein sequence

>MS.gene02185.t1

MGVEKQIVRPGNGPKPTPGQNVTVHCTGYGKNGDLSQKFWSTKDPGQNPFTFKIGKGSVIKGWDEGVIGMQIGEVARLRCSPDYAYGASGFPAWGIQPNSVLEFEIEVLSAE