AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02186

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02186.t1 MTR_2g009390 99.107 112 1 0 1 112 1 112 2.57e-79 228
MS.gene02186.t1 MTR_8g080980 45.455 110 54 4 2 110 38 142 1.05e-19 83.2
MS.gene02186.t1 MTR_8g080980 36.036 111 65 3 3 110 272 379 6.62e-14 66.6
MS.gene02186.t1 MTR_5g080300 40.000 110 63 3 2 110 12 119 1.25e-19 79.7
MS.gene02186.t1 MTR_8g038785 41.905 105 50 3 11 111 180 277 5.74e-18 78.2
MS.gene02186.t1 MTR_7g053470 45.263 95 47 3 16 110 49 138 3.39e-17 75.9
MS.gene02186.t1 MTR_8g012340 46.316 95 46 3 16 110 55 144 7.23e-17 75.1
MS.gene02186.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.gene02186.t1 AT5G64350 85.714 112 16 0 1 112 1 112 1.32e-70 206
MS.gene02186.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02186.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02186.t1 AT3G55520 35.780 109 69 1 2 110 12 119 1.46e-17 74.3
MS.gene02186.t1 AT5G48570 40.000 110 60 4 2 110 47 151 9.66e-16 72.0
MS.gene02186.t1 AT3G25230 40.367 109 59 4 2 109 39 142 4.69e-15 70.1
MS.gene02186.t1 AT3G25230 40.367 109 59 4 2 109 39 142 6.03e-15 69.7
MS.gene02186.t1 AT4G25340 41.176 102 53 4 12 112 382 477 5.41e-14 67.0
MS.gene02186.t1 AT5G45680 40.367 109 51 4 11 109 101 205 4.06e-13 63.2
MS.gene02186.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:+73638511 MS.gene02186:CDS
TGCTCTCCTGATTATGCTTA+TGG 0.301017 2.1:+73638488 MS.gene02186:CDS
GTGACCTTTCTCAGAAGTTC+TGG 0.322760 2.1:+73637385 MS.gene02186:CDS
TCGGAGAAGTTGCTCGTCTT+CGG 0.329775 2.1:+73637908 MS.gene02186:CDS
AATACAACCCAACTCTGTTT+TGG 0.332199 2.1:+73638535 MS.gene02186:CDS
GCGCTAGTGGCTTTCCTGCT+TGG 0.337892 2.1:+73638510 MS.gene02186:CDS
CGGAGAAGTTGCTCGTCTTC+GGG 0.345948 2.1:+73637909 MS.gene02186:CDS
AATCCATTCACTTTCAAAAT+CGG 0.376739 2.1:+73637515 MS.gene02186:CDS
GAGAGAGTGCTCACCGTAAC+CGG 0.423839 2.1:-73637198 None:intergenic
GTTGGCTTAGGACCGTTTCC+AGG 0.437240 2.1:-73637146 None:intergenic
CTAGCGCCATAAGCATAATC+AGG 0.449393 2.1:-73638494 None:intergenic
TCAAACTCCAAAACAGAGTT+GGG 0.461799 2.1:-73638542 None:intergenic
CTCAAACTCCAAAACAGAGT+TGG 0.473985 2.1:-73638543 None:intergenic
GGTGTCATTGGCATGCAAAT+CGG 0.478078 2.1:+73637889 MS.gene02186:CDS
AAAGTGAATGGATTCTGGCC+AGG 0.495829 2.1:-73637506 None:intergenic
ACTGTCCACTGCACCGGTTA+CGG 0.501294 2.1:+73637185 MS.gene02186:CDS
ACCTTTCTCAGAAGTTCTGG+AGG 0.508162 2.1:+73637388 MS.gene02186:CDS
CAAATCGTTCGACCTGGAAA+CGG 0.515678 2.1:+73637134 MS.gene02186:CDS
ACCTCCAGAACTTCTGAGAA+AGG 0.525297 2.1:-73637389 None:intergenic
TTCACTTTCAAAATCGGCAA+AGG 0.528436 2.1:+73637521 MS.gene02186:CDS
GGATGGGATGAAGGTGTCAT+TGG 0.529844 2.1:+73637877 MS.gene02186:intron
AACGTCACTGTCCACTGCAC+CGG 0.542566 2.1:+73637179 MS.gene02186:CDS
TATTACAGTACAAAAGATCC+TGG 0.543772 2.1:+73637488 MS.gene02186:intron
GATTATGCTTATGGCGCTAG+TGG 0.545830 2.1:+73638497 MS.gene02186:CDS
AACGGTCCTAAGCCAACTCC+TGG 0.550713 2.1:+73637152 MS.gene02186:CDS
TTGTGTGTAGGATGGGATGA+AGG 0.556041 2.1:+73637868 MS.gene02186:intron
TTGGGTTGTATTCCCCAAGC+AGG 0.558631 2.1:-73638524 None:intergenic
GCTAGTGGCTTTCCTGCTTG+GGG 0.575669 2.1:+73638512 MS.gene02186:CDS
GGCAAAGGTTCTGTCATCAA+AGG 0.586910 2.1:+73637536 MS.gene02186:CDS
GCTCACCGTAACCGGTGCAG+TGG 0.611429 2.1:-73637190 None:intergenic
GAGAAGCAAATCGTTCGACC+TGG 0.621651 2.1:+73637128 MS.gene02186:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTAATTCAAATTATAAG+GGG - chr2.1:73637271-73637290 None:intergenic 10.0%
!! ACAATATTAAAAACAAAAAA+TGG - chr2.1:73637446-73637465 None:intergenic 10.0%
!! CTAATTTAATTCAAATTATA+AGG - chr2.1:73637273-73637292 None:intergenic 10.0%
!! TAAAATGAAAGATAAGAAAT+GGG - chr2.1:73637244-73637263 None:intergenic 15.0%
!! TTAAAATGAAAGATAAGAAA+TGG - chr2.1:73637245-73637264 None:intergenic 15.0%
!! AAAATGAAAGATAAGAAATG+GGG - chr2.1:73637243-73637262 None:intergenic 20.0%
!! AATGGAAATTCAACATATTA+AGG - chr2.1:73638254-73638273 None:intergenic 20.0%
!! ATTTCTATGATAAGTGTTTA+TGG + chr2.1:73638192-73638211 MS.gene02186:intron 20.0%
!! GTTGATACTTTGTTAAATAA+TGG + chr2.1:73638419-73638438 MS.gene02186:intron 20.0%
!!! TACTACTTTTACTTTATTTC+TGG + chr2.1:73637763-73637782 MS.gene02186:intron 20.0%
! AAACAAAAAATGGAATGACA+AGG - chr2.1:73637436-73637455 None:intergenic 25.0%
! AACAAAAAATGGAATGACAA+GGG - chr2.1:73637435-73637454 None:intergenic 25.0%
! AATCCATTCACTTTCAAAAT+CGG + chr2.1:73637515-73637534 MS.gene02186:CDS 25.0%
!!! AAATGGGGTTTTTAGTTTTA+GGG - chr2.1:73637228-73637247 None:intergenic 25.0%
!!! TTATAACTTGTTACCACTTT+GGG + chr2.1:73637960-73637979 MS.gene02186:intron 25.0%
!!! TTTATAACTTGTTACCACTT+TGG + chr2.1:73637959-73637978 MS.gene02186:intron 25.0%
CAACATATTAAGGTCATGTT+TGG - chr2.1:73638244-73638263 None:intergenic 30.0%
TATTACAGTACAAAAGATCC+TGG + chr2.1:73637488-73637507 MS.gene02186:intron 30.0%
! GTGTAGAGTTTTTACACTAT+CGG + chr2.1:73637581-73637600 MS.gene02186:intron 30.0%
!! TTTTGAAAGTGAATGGATTC+TGG - chr2.1:73637514-73637533 None:intergenic 30.0%
!!! GAAATGGGGTTTTTAGTTTT+AGG - chr2.1:73637229-73637248 None:intergenic 30.0%
AGATCTACTCGTTCTTTGTT+TGG + chr2.1:73637291-73637310 MS.gene02186:intron 35.0%
CAATGTACATTCAGATGTGT+TGG + chr2.1:73637809-73637828 MS.gene02186:intron 35.0%
GTGAGTAAAACAAACAGCAA+TGG - chr2.1:73638272-73638291 None:intergenic 35.0%
TATCAACAAGGTCAATGACA+GGG - chr2.1:73638459-73638478 None:intergenic 35.0%
TCAAACTCCAAAACAGAGTT+GGG - chr2.1:73638545-73638564 None:intergenic 35.0%
TTACACACTTGTGAGACTTT+AGG - chr2.1:73637673-73637692 None:intergenic 35.0%
TTATCAACAAGGTCAATGAC+AGG - chr2.1:73638460-73638479 None:intergenic 35.0%
TTCACTTTCAAAATCGGCAA+AGG + chr2.1:73637521-73637540 MS.gene02186:CDS 35.0%
! AATACAACCCAACTCTGTTT+TGG + chr2.1:73638535-73638554 MS.gene02186:CDS 35.0%
! GTTTTACTCACACACATACA+AGG + chr2.1:73638281-73638300 MS.gene02186:intron 35.0%
! TATTGCGATGATGATGAACA+GGG + chr2.1:73637355-73637374 MS.gene02186:intron 35.0%
! TGATGATGAACAGGGAAAAA+CGG + chr2.1:73637363-73637382 MS.gene02186:intron 35.0%
! TTATTGCGATGATGATGAAC+AGG + chr2.1:73637354-73637373 MS.gene02186:intron 35.0%
!!! TGTTTTGGAGTTTGAGATTG+AGG + chr2.1:73638550-73638569 MS.gene02186:CDS 35.0%
!!! TTGCCGATTTTGAAAGTGAA+TGG - chr2.1:73637521-73637540 None:intergenic 35.0%
ACTATCTGTTGTGTGTAGGA+TGG + chr2.1:73637860-73637879 MS.gene02186:intron 40.0%
CAATTCAATCAAGCCCAAAG+TGG - chr2.1:73637976-73637995 None:intergenic 40.0%
CACTTTGGGCTTGATTGAAT+TGG + chr2.1:73637974-73637993 MS.gene02186:intron 40.0%
CTATCTGTTGTGTGTAGGAT+GGG + chr2.1:73637861-73637880 MS.gene02186:intron 40.0%
CTCAAACTCCAAAACAGAGT+TGG - chr2.1:73638546-73638565 None:intergenic 40.0%
GCACTGCAAGATTATCAACA+AGG - chr2.1:73638471-73638490 None:intergenic 40.0%
TCCAACTATCTGTTGTGTGT+AGG + chr2.1:73637856-73637875 MS.gene02186:intron 40.0%
TCCTACACACAACAGATAGT+TGG - chr2.1:73637860-73637879 None:intergenic 40.0%
TGCTCTCCTGATTATGCTTA+TGG + chr2.1:73638488-73638507 MS.gene02186:CDS 40.0%
!! CTTGTGAGACTTTAGGACTT+AGG - chr2.1:73637666-73637685 None:intergenic 40.0%
ATACACGCGACTCGATTAAG+TGG - chr2.1:73638314-73638333 None:intergenic 45.0%
CAAATCGTTCGACCTGGAAA+CGG + chr2.1:73637134-73637153 MS.gene02186:CDS 45.0%
CTAGCGCCATAAGCATAATC+AGG - chr2.1:73638497-73638516 None:intergenic 45.0%
GATTATGCTTATGGCGCTAG+TGG + chr2.1:73638497-73638516 MS.gene02186:CDS 45.0%
GGCAAAGGTTCTGTCATCAA+AGG + chr2.1:73637536-73637555 MS.gene02186:CDS 45.0%
GTGACCTTTCTCAGAAGTTC+TGG + chr2.1:73637385-73637404 MS.gene02186:CDS 45.0%
TGGATGCGCAGGTCAATTAA+GGG - chr2.1:73638224-73638243 None:intergenic 45.0%
TTGGATGCGCAGGTCAATTA+AGG - chr2.1:73638225-73638244 None:intergenic 45.0%
TTGTGTGTAGGATGGGATGA+AGG + chr2.1:73637868-73637887 MS.gene02186:intron 45.0%
! AAAGTGAATGGATTCTGGCC+AGG - chr2.1:73637509-73637528 None:intergenic 45.0%
! ACCTCCAGAACTTCTGAGAA+AGG - chr2.1:73637392-73637411 None:intergenic 45.0%
! ACCTTTCTCAGAAGTTCTGG+AGG + chr2.1:73637388-73637407 MS.gene02186:CDS 45.0%
!! GAGACTTTAGGACTTAGGAG+TGG - chr2.1:73637661-73637680 None:intergenic 45.0%
!! GGTGTCATTGGCATGCAAAT+CGG + chr2.1:73637889-73637908 MS.gene02186:CDS 45.0%
!! TTCTCAGAAGTTCTGGAGGT+TGG + chr2.1:73637392-73637411 MS.gene02186:intron 45.0%
!! TTTTGACCAGGAGTTGGCTT+AGG - chr2.1:73637161-73637180 None:intergenic 45.0%
!! TAATTTAATTCAAATTATAA+GGG - chr2.1:73637272-73637291 None:intergenic 5.0%
AAGGTCATGTTTGGATGCGC+AGG - chr2.1:73638235-73638254 None:intergenic 50.0%
GAGAAGCAAATCGTTCGACC+TGG + chr2.1:73637128-73637147 MS.gene02186:CDS 50.0%
TCGGAGAAGTTGCTCGTCTT+CGG + chr2.1:73637908-73637927 MS.gene02186:CDS 50.0%
! TTGGGTTGTATTCCCCAAGC+AGG - chr2.1:73638527-73638546 None:intergenic 50.0%
!! GGATGGGATGAAGGTGTCAT+TGG + chr2.1:73637877-73637896 MS.gene02186:intron 50.0%
!! GTGACGTTTTGACCAGGAGT+TGG - chr2.1:73637167-73637186 None:intergenic 50.0%
!! TGGACAGTGACGTTTTGACC+AGG - chr2.1:73637173-73637192 None:intergenic 50.0%
AACGGTCCTAAGCCAACTCC+TGG + chr2.1:73637152-73637171 MS.gene02186:CDS 55.0%
AACGTCACTGTCCACTGCAC+CGG + chr2.1:73637179-73637198 MS.gene02186:CDS 55.0%
CGCTAGTGGCTTTCCTGCTT+GGG + chr2.1:73638511-73638530 MS.gene02186:CDS 55.0%
CGGAGAAGTTGCTCGTCTTC+GGG + chr2.1:73637909-73637928 MS.gene02186:CDS 55.0%
GCTAGTGGCTTTCCTGCTTG+GGG + chr2.1:73638512-73638531 MS.gene02186:CDS 55.0%
! GTTGGCTTAGGACCGTTTCC+AGG - chr2.1:73637149-73637168 None:intergenic 55.0%
!! ACTGTCCACTGCACCGGTTA+CGG + chr2.1:73637185-73637204 MS.gene02186:CDS 55.0%
!! GAGAGAGTGCTCACCGTAAC+CGG - chr2.1:73637201-73637220 None:intergenic 55.0%
GCGCTAGTGGCTTTCCTGCT+TGG + chr2.1:73638510-73638529 MS.gene02186:CDS 60.0%
GCTCACCGTAACCGGTGCAG+TGG - chr2.1:73637193-73637212 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 73637119 73638589 73637119 ID=MS.gene02186
chr2.1 mRNA 73637119 73638589 73637119 ID=MS.gene02186.t1;Parent=MS.gene02186
chr2.1 exon 73637119 73637206 73637119 ID=MS.gene02186.t1.exon1;Parent=MS.gene02186.t1
chr2.1 CDS 73637119 73637206 73637119 ID=cds.MS.gene02186.t1;Parent=MS.gene02186.t1
chr2.1 exon 73637376 73637409 73637376 ID=MS.gene02186.t1.exon2;Parent=MS.gene02186.t1
chr2.1 CDS 73637376 73637409 73637376 ID=cds.MS.gene02186.t1;Parent=MS.gene02186.t1
chr2.1 exon 73637496 73637557 73637496 ID=MS.gene02186.t1.exon3;Parent=MS.gene02186.t1
chr2.1 CDS 73637496 73637557 73637496 ID=cds.MS.gene02186.t1;Parent=MS.gene02186.t1
chr2.1 exon 73637878 73637930 73637878 ID=MS.gene02186.t1.exon4;Parent=MS.gene02186.t1
chr2.1 CDS 73637878 73637930 73637878 ID=cds.MS.gene02186.t1;Parent=MS.gene02186.t1
chr2.1 exon 73638488 73638589 73638488 ID=MS.gene02186.t1.exon5;Parent=MS.gene02186.t1
chr2.1 CDS 73638488 73638589 73638488 ID=cds.MS.gene02186.t1;Parent=MS.gene02186.t1
Gene Sequence

>MS.gene02186

ATGGGAGTTGAGAAGCAAATCGTTCGACCTGGAAACGGTCCTAAGCCAACTCCTGGTCAAAACGTCACTGTCCACTGCACCGGTTACGGTGAGCACTCTCTCTAAACCCTAAAACTAAAAACCCCATTTCTTATCTTTCATTTTAATTACCCCTTATAATTTGAATTAAATTAGATCTACTCGTTCTTTGTTTGGCTTTGATTCATTCATTCATGCGCTAATTTTTTTTTTTTTTTTATTGCGATGATGATGAACAGGGAAAAACGGTGACCTTTCTCAGAAGTTCTGGAGGTTGGTTAATTTGCTTACTTTACCCTTGTCATTCCATTTTTTGTTTTTAATATTGTGTTCATTTCATTTCATTTACTTTATTACAGTACAAAAGATCCTGGCCAGAATCCATTCACTTTCAAAATCGGCAAAGGTTCTGTCATCAAAGGTACTATTATAACATTACTGTCAGTGTAGAGTTTTTACACTATCGGTTAATCATATTCTTAACTTTCTTGATAATCAGAAACATTTGACTTTTATCACAACCACTCCTAAGTCCTAAAGTCTCACAAGTGTGTAAAATTGTTTACACTAACAATGCATGAAAATTAAAATTGTACATTATCATGATAACTAATTAGTGTTAATATTACTACTTTTACTTTATTTCTGGCTTCATTACACATAAAAATGCTGCAATGTACATTCAGATGTGTTGGCAACTCATTCACTATATGATTTATTCCAACTATCTGTTGTGTGTAGGATGGGATGAAGGTGTCATTGGCATGCAAATCGGAGAAGTTGCTCGTCTTCGGGTATAATATCTATTCTCTGCTCTTACTTTTTATAACTTGTTACCACTTTGGGCTTGATTGAATTGGATACTAAGATAAACATTTGTGATACTGTTAGAGAGAGTTCGTGAAAATAGTTTATCACATATTCACATTCATATGTACATAAACTATTTTAGCTTATATGAAAACAGTTTGACTTTTTATGAAAACAGCTTATAGCTTATACGAAAATAATGACTTTATTTTATACTTTATTATAGAAATAGCTTATACGTAAGCATTTCTATGATAAGTGTTTATGGTATAAGCCCTTAATTGACCTGCGCATCCAAACATGACCTTAATATGTTGAATTTCCATTGCTGTTTGTTTTACTCACACACATACAAGGTGAAAATCCACTTAATCGAGTCGCGTGTATTAAATTTTATCAACTTAATTGTTAAATCAAACGTTCTTATTATTGAGCATGTCTAGTTTATAAATTTTTGCAATTTTATAAGCTAGTTGATACTTTGTTAAATAATGGTCAGTTTGAGTTTTCCCTGTCATTGACCTTGTTGATAATCTTGCAGTGCTCTCCTGATTATGCTTATGGCGCTAGTGGCTTTCCTGCTTGGGGAATACAACCCAACTCTGTTTTGGAGTTTGAGATTGAGGTCTTGAGTGCAGAATGA
Protein sequence

>MS.gene02186.t1

MGVEKQIVRPGNGPKPTPGQNVTVHCTGYGKNGDLSQKFWSTKDPGQNPFTFKIGKGSVIKGWDEGVIGMQIGEVARLRCSPDYAYGASGFPAWGIQPNSVLEFEIEVLSAE