AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018351.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018351.01.T01 MTR_4g010250 84.211 95 12 1 19 113 146 237 5.43e-55 172
MsG0480018351.01.T01 MTR_2g103795 64.516 93 33 0 19 111 158 250 1.07e-37 128
MsG0480018351.01.T01 MTR_4g114690 56.667 90 34 1 12 96 169 258 1.49e-29 107
MsG0480018351.01.T01 MTR_2g103795 60.606 66 26 0 19 84 158 223 5.99e-22 86.7
MsG0480018351.01.T01 MTR_7g098450 50.685 73 36 0 31 103 280 352 1.70e-21 87.4
MsG0480018351.01.T01 MTR_5g029910 56.923 65 28 0 34 98 156 220 1.75e-21 85.9
MsG0480018351.01.T01 MTR_7g098450 50.685 73 36 0 31 103 257 329 2.70e-21 86.7
MsG0480018351.01.T01 MTR_7g099260 48.684 76 39 0 31 106 268 343 1.04e-20 85.5
MsG0480018351.01.T01 MTR_1g073230 45.333 75 41 0 30 104 158 232 1.43e-17 76.6
MsG0480018351.01.T01 MTR_1g073230 39.744 78 47 0 25 102 298 375 2.48e-13 65.1
MsG0480018351.01.T01 MTR_3g463450 33.333 78 52 0 25 102 424 501 5.94e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018351.01.T01 AT5G20190 48.454 97 45 2 7 98 158 254 2.45e-26 99.4
MsG0480018351.01.T01 AT4G17940 57.353 68 29 0 31 98 181 248 4.12e-24 93.2
MsG0480018351.01.T01 AT4G32340 58.333 72 29 1 28 98 138 209 5.94e-24 92.0
MsG0480018351.01.T01 AT1G80130 43.956 91 46 1 11 96 171 261 3.50e-21 85.9
MsG0480018351.01.T01 AT2G29670 35.897 78 50 0 25 102 445 522 3.14e-13 64.7
MsG0480018351.01.T01 AT2G29670 35.897 78 50 0 25 102 445 522 3.14e-13 64.7
MsG0480018351.01.T01 AT1G07280 31.579 95 60 1 13 102 443 537 4.38e-13 64.3
MsG0480018351.01.T01 AT1G07280 31.579 95 60 1 13 102 443 537 4.38e-13 64.3
MsG0480018351.01.T01 AT1G07280 31.579 95 60 1 13 102 443 537 4.38e-13 64.3
MsG0480018351.01.T01 AT1G04530 38.235 68 42 0 30 97 150 217 1.13e-12 62.8

Find 24 sgRNAs with CRISPR-Local

Find 119 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATATATCATACCAATTATC+TGG 0.209326 4:+3678965 None:intergenic
CCATCTATGCAGAATTAATA+TGG 0.211193 4:-3679048 MsG0480018351.01.T01:CDS
CCATATTAATTCTGCATAGA+TGG 0.249294 4:+3679048 None:intergenic
CTTCATATGCAAAATTCCTT+TGG 0.300863 4:-3678148 MsG0480018351.01.T01:CDS
TTCAAAGTGACCCAGATAAT+TGG 0.327872 4:-3678976 MsG0480018351.01.T01:intron
TTCATATGCAAAATTCCTTT+GGG 0.366011 4:-3678147 MsG0480018351.01.T01:CDS
ACATGTGATCCGATTTAATT+CGG 0.423808 4:+3678096 None:intergenic
AGAGGCTCAGATGGTGGAAA+TGG 0.433784 4:-3680271 MsG0480018351.01.T01:CDS
TAAAGACTACCGAATTAAAT+CGG 0.445048 4:-3678105 MsG0480018351.01.T01:CDS
TTTAATGAAGGAAATAATCA+TGG 0.466976 4:-3680235 MsG0480018351.01.T01:intron
AATAATATGCAGCTATGTCC+TGG 0.477958 4:-3678171 MsG0480018351.01.T01:intron
CATCTATGCAGAATTAATAT+GGG 0.481359 4:-3679047 MsG0480018351.01.T01:CDS
GGATGTAAAGGTGGTGGAAG+AGG 0.508579 4:-3680289 MsG0480018351.01.T01:CDS
TCAGATGGTGGAAATGGAAG+AGG 0.527871 4:-3680265 MsG0480018351.01.T01:CDS
AGAAGTAATGGTGGATGTAA+AGG 0.542026 4:-3680301 None:intergenic
GGTGGTGGAAGAGGCTCAGA+TGG 0.550677 4:-3680280 MsG0480018351.01.T01:CDS
ATATATCATACCAATTATCT+GGG 0.554667 4:+3678966 None:intergenic
TGGGAAACAGAGAAGAATGC+TGG 0.574769 4:-3679028 MsG0480018351.01.T01:CDS
AATGGTGGATGTAAAGGTGG+TGG 0.586769 4:-3680295 MsG0480018351.01.T01:CDS
GGTGGAAGAGGCTCAGATGG+TGG 0.608176 4:-3680277 MsG0480018351.01.T01:CDS
CAGATGGTGGAAATGGAAGA+GGG 0.618945 4:-3680264 MsG0480018351.01.T01:CDS
AGTAATGGTGGATGTAAAGG+TGG 0.627702 4:-3680298 None:intergenic
ATGGTGGAAATGGAAGAGGG+TGG 0.650938 4:-3680261 MsG0480018351.01.T01:CDS
GACATAATATGACCATCACC+AGG 0.669196 4:+3679070 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAGAAAATAATGAAATTA+AGG - Chr4:3678352-3678371 MsG0480018351.01.T01:intron 10.0%
!! ATAAAAATAAATAGAGATTA+AGG + Chr4:3680124-3680143 None:intergenic 10.0%
!! ATATATTATATATAACATCA+TGG + Chr4:3679945-3679964 None:intergenic 10.0%
!! GATATTTAATGAAAATAATT+AGG - Chr4:3678779-3678798 MsG0480018351.01.T01:intron 10.0%
!! TAATGTTAATAAATTAACAT+TGG + Chr4:3680014-3680033 None:intergenic 10.0%
!! TTCATAGTTATTAAATTATT+GGG - Chr4:3679872-3679891 MsG0480018351.01.T01:intron 10.0%
!! TTTGAAAATAAAACTAAAAA+TGG + Chr4:3678395-3678414 None:intergenic 10.0%
!!! CTATATAAATGTATTATTTT+TGG + Chr4:3679759-3679778 None:intergenic 10.0%
!!! TATATATTTATTTTTTTGCA+TGG - Chr4:3678288-3678307 MsG0480018351.01.T01:intron 10.0%
!! AGATTAAGGTAATATAAAAT+TGG + Chr4:3680110-3680129 None:intergenic 15.0%
!! ATATCATTAAAAATTCTCTT+TGG + Chr4:3678979-3678998 None:intergenic 15.0%
!! GTTCATAGTTATTAAATTAT+TGG - Chr4:3679871-3679890 MsG0480018351.01.T01:intron 15.0%
!! TATCATTAAAAATTCTCTTT+GGG + Chr4:3678978-3678997 None:intergenic 15.0%
!!! ATATTTTGACTATCTTTTTA+AGG - Chr4:3679451-3679470 MsG0480018351.01.T01:intron 15.0%
!! ATATATAATGAGTCAAAGTT+TGG - Chr4:3679959-3679978 MsG0480018351.01.T01:intron 20.0%
!! ATATATCATACCAATTATCT+GGG + Chr4:3679425-3679444 None:intergenic 20.0%
!! ATCATTAAAAATTCTCTTTG+GGG + Chr4:3678977-3678996 None:intergenic 20.0%
!! ATTTATAACTTATGAATCAC+CGG + Chr4:3679566-3679585 None:intergenic 20.0%
!! GTTGTATAATATATTAACAC+AGG - Chr4:3678597-3678616 MsG0480018351.01.T01:intron 20.0%
!! TAAGGTAATATAAAATTGGT+TGG + Chr4:3680106-3680125 None:intergenic 20.0%
!! TATATATCATACCAATTATC+TGG + Chr4:3679426-3679445 None:intergenic 20.0%
!! TTAATAACTATGAACTTAGT+GGG + Chr4:3679866-3679885 None:intergenic 20.0%
!! TTAATCTTTATGTGTCTTAA+TGG + Chr4:3678758-3678777 None:intergenic 20.0%
!! TTTAATAACTATGAACTTAG+TGG + Chr4:3679867-3679886 None:intergenic 20.0%
!! TTTAATGAAGGAAATAATCA+TGG - Chr4:3678153-3678172 MsG0480018351.01.T01:CDS 20.0%
!!! ATAATTTAAGGTGTCTTTTA+TGG + Chr4:3679628-3679647 None:intergenic 20.0%
!!! TCTTTTATGGTGTTTATTTT+GGG + Chr4:3679615-3679634 None:intergenic 20.0%
!!! TTTTGATGTATTATAAAACG+TGG - Chr4:3679900-3679919 MsG0480018351.01.T01:intron 20.0%
! AAATTAAAGACGTCGTATAT+AGG - Chr4:3679582-3679601 MsG0480018351.01.T01:intron 25.0%
! AAGTATCAACAAGATAAATC+CGG + Chr4:3680176-3680195 None:intergenic 25.0%
! ACAAAGTGCACAATAATTTA+AGG + Chr4:3679640-3679659 None:intergenic 25.0%
! ATTAACATTATCTTGAGAGT+GGG - Chr4:3680024-3680043 MsG0480018351.01.T01:intron 25.0%
! ATTTCTGTTTACCAATGAAA+GGG - Chr4:3680142-3680161 MsG0480018351.01.T01:intron 25.0%
! CATCTATGCAGAATTAATAT+GGG - Chr4:3679341-3679360 MsG0480018351.01.T01:intron 25.0%
! TAAAGACTACCGAATTAAAT+CGG - Chr4:3680283-3680302 MsG0480018351.01.T01:CDS 25.0%
! TATATATAACATCATGGAGA+AGG + Chr4:3679939-3679958 None:intergenic 25.0%
! TATTAACATTATCTTGAGAG+TGG - Chr4:3680023-3680042 MsG0480018351.01.T01:intron 25.0%
! TTCATATGCAAAATTCCTTT+GGG - Chr4:3680241-3680260 MsG0480018351.01.T01:CDS 25.0%
!! CTGATTTTCATTTTGCAAAT+AGG - Chr4:3679239-3679258 MsG0480018351.01.T01:intron 25.0%
!! GAATTATGGAAAGTTTTTGA+AGG - Chr4:3678244-3678263 MsG0480018351.01.T01:intron 25.0%
!! GTCTTTTATGGTGTTTATTT+TGG + Chr4:3679616-3679635 None:intergenic 25.0%
!! TATTTCTGTTTACCAATGAA+AGG - Chr4:3680141-3680160 MsG0480018351.01.T01:intron 25.0%
!! TTAATTTTCTAACAGTGAGA+TGG - Chr4:3678426-3678445 MsG0480018351.01.T01:intron 25.0%
!! TTTTGTGTCAAATAGTATAG+TGG - Chr4:3679016-3679035 MsG0480018351.01.T01:CDS 25.0%
AATCAGAACAACGTGAAATA+CGG + Chr4:3679225-3679244 None:intergenic 30.0%
ACAATGCATATTATATGCAG+GGG + Chr4:3679099-3679118 None:intergenic 30.0%
ACACTTAAAGCAATGTTACT+TGG - Chr4:3678624-3678643 MsG0480018351.01.T01:intron 30.0%
ACATGTGATCCGATTTAATT+CGG + Chr4:3680295-3680314 None:intergenic 30.0%
AGACAATGCATATTATATGC+AGG + Chr4:3679101-3679120 None:intergenic 30.0%
ATGTATTATAAAACGTGGCA+AGG - Chr4:3679905-3679924 MsG0480018351.01.T01:intron 30.0%
CCATATTAATTCTGCATAGA+TGG + Chr4:3679343-3679362 None:intergenic 30.0%
CCATCTATGCAGAATTAATA+TGG - Chr4:3679340-3679359 MsG0480018351.01.T01:intron 30.0%
CTTCATATGCAAAATTCCTT+TGG - Chr4:3680240-3680259 MsG0480018351.01.T01:CDS 30.0%
GAAATAATCATGGTAGAGAT+AGG - Chr4:3678163-3678182 MsG0480018351.01.T01:intron 30.0%
GACAATGCATATTATATGCA+GGG + Chr4:3679100-3679119 None:intergenic 30.0%
TAAAATTGGTTGGATGACTA+AGG + Chr4:3680096-3680115 None:intergenic 30.0%
! CACTTAAAGCAATGTTACTT+GGG - Chr4:3678625-3678644 MsG0480018351.01.T01:intron 30.0%
! GAGCTTACACATTTTAAATG+TGG - Chr4:3679042-3679061 MsG0480018351.01.T01:CDS 30.0%
! TATTTAAGATGAACAGAGAC+CGG - Chr4:3679544-3679563 MsG0480018351.01.T01:intron 30.0%
! TCATTTTGCAAATAGGTTTG+TGG - Chr4:3679246-3679265 MsG0480018351.01.T01:intron 30.0%
!! TTATGGAAAGTTTTTGAAGG+AGG - Chr4:3678247-3678266 MsG0480018351.01.T01:intron 30.0%
AAAACTCAAAGTCGCATTGA+AGG - Chr4:3678679-3678698 MsG0480018351.01.T01:intron 35.0%
AATAATATGCAGCTATGTCC+TGG - Chr4:3680217-3680236 MsG0480018351.01.T01:intron 35.0%
AGTTGTGATAAAGAGAAGCA+TGG - Chr4:3678467-3678486 MsG0480018351.01.T01:intron 35.0%
ATGTAGCAGAGCTCAATTAT+TGG - Chr4:3679479-3679498 MsG0480018351.01.T01:intron 35.0%
CTCTATGAGTTTAACTCAGT+TGG + Chr4:3679127-3679146 None:intergenic 35.0%
GGATCCAAAAGTCTATCAAA+CGG - Chr4:3678492-3678511 MsG0480018351.01.T01:intron 35.0%
GTGTCAAATAGTATAGTGGT+TGG - Chr4:3679020-3679039 MsG0480018351.01.T01:CDS 35.0%
TGTAGCAGAGCTCAATTATT+GGG - Chr4:3679480-3679499 MsG0480018351.01.T01:intron 35.0%
TTAAAGACGTCGTATATAGG+CGG - Chr4:3679585-3679604 MsG0480018351.01.T01:intron 35.0%
TTCAAAGTGACCCAGATAAT+TGG - Chr4:3679412-3679431 MsG0480018351.01.T01:intron 35.0%
TTTGAAGGAGGTAATGATCA+TGG - Chr4:3678259-3678278 MsG0480018351.01.T01:intron 35.0%
! ATGTGGAGAAATGAAGTGTT+AGG - Chr4:3679059-3679078 MsG0480018351.01.T01:CDS 35.0%
! TGCTCTTTTGCTTGGAATTA+TGG - Chr4:3678230-3678249 MsG0480018351.01.T01:intron 35.0%
! TGTGGAGAAATGAAGTGTTA+GGG - Chr4:3679060-3679079 MsG0480018351.01.T01:CDS 35.0%
!! AGAGGGTGGAATTTTAATGA+AGG - Chr4:3678141-3678160 MsG0480018351.01.T01:CDS 35.0%
!!! ATTTTAGCTAATCCTGGTGA+TGG - Chr4:3679306-3679325 MsG0480018351.01.T01:intron 35.0%
ACTAATGAGAGAGTGATGCA+TGG - Chr4:3678915-3678934 MsG0480018351.01.T01:intron 40.0%
ATTGGTTGGATGACTAAGGT+AGG + Chr4:3680092-3680111 None:intergenic 40.0%
GACATAATATGACCATCACC+AGG + Chr4:3679321-3679340 None:intergenic 40.0%
TCCAAAAGTCTATCAAACGG+AGG - Chr4:3678495-3678514 MsG0480018351.01.T01:intron 40.0%
TTGGTTGGATGACTAAGGTA+GGG + Chr4:3680091-3680110 None:intergenic 40.0%
! CTTCATTTTCAGCATCCCAA+AGG + Chr4:3680259-3680278 None:intergenic 40.0%
! GGAATTTTGCATATGAAGCC+AGG + Chr4:3680238-3680257 None:intergenic 40.0%
! GGTGTGCTTCTATCATGTTT+TGG + Chr4:3678203-3678222 None:intergenic 40.0%
! GTGATAAAGAGAAGCATGGT+TGG - Chr4:3678471-3678490 MsG0480018351.01.T01:intron 40.0%
! TATCTACAAGGGGAAAGCAT+GGG + Chr4:3678952-3678971 None:intergenic 40.0%
! TCTTTGGGGACTATCTACAA+GGG + Chr4:3678963-3678982 None:intergenic 40.0%
!! CAAGCAAAAGAGCATCACAA+GGG + Chr4:3678224-3678243 None:intergenic 40.0%
!!! AGAGCGATTTTAGCTAATCC+TGG - Chr4:3679300-3679319 MsG0480018351.01.T01:intron 40.0%
AATGAGAGAGTGATGCATGG+AGG - Chr4:3678918-3678937 MsG0480018351.01.T01:intron 45.0%
ATGAGAGAGTGATGCATGGA+GGG - Chr4:3678919-3678938 MsG0480018351.01.T01:intron 45.0%
CTATCTACAAGGGGAAAGCA+TGG + Chr4:3678953-3678972 None:intergenic 45.0%
TGGGAAACAGAGAAGAATGC+TGG - Chr4:3679360-3679379 MsG0480018351.01.T01:intron 45.0%
TGGTTGGATGACTAAGGTAG+GGG + Chr4:3680090-3680109 None:intergenic 45.0%
! CAATGAAAGGGTCTTGTCTC+CGG - Chr4:3680154-3680173 MsG0480018351.01.T01:intron 45.0%
! CCTTGTGATGCTCTTTTGCT+TGG - Chr4:3678222-3678241 MsG0480018351.01.T01:intron 45.0%
! CTCTTTGGGGACTATCTACA+AGG + Chr4:3678964-3678983 None:intergenic 45.0%
! CTTTGGGGACTATCTACAAG+GGG + Chr4:3678962-3678981 None:intergenic 45.0%
! GCCTCCGTTTGATAGACTTT+TGG + Chr4:3678499-3678518 None:intergenic 45.0%
!! CAGATGGTGGAAATGGAAGA+GGG - Chr4:3678124-3678143 MsG0480018351.01.T01:CDS 45.0%
!! CCAAGCAAAAGAGCATCACA+AGG + Chr4:3678225-3678244 None:intergenic 45.0%
!! TAAGGTGTTGTGGGACAATG+AGG + Chr4:3680064-3680083 None:intergenic 45.0%
!! TCAGATGGTGGAAATGGAAG+AGG - Chr4:3678123-3678142 MsG0480018351.01.T01:CDS 45.0%
!! ATATATTATTACATTTATAT+AGG - Chr4:3679816-3679835 MsG0480018351.01.T01:intron 5.0%
!! TATCATATAAATATTTATAT+AGG - Chr4:3679728-3679747 MsG0480018351.01.T01:intron 5.0%
CGGAGACAAGACCCTTTCAT+TGG + Chr4:3680156-3680175 None:intergenic 50.0%
GGTTGGATGACTAAGGTAGG+GGG + Chr4:3680089-3680108 None:intergenic 50.0%
GTTGGATGACTAAGGTAGGG+GGG + Chr4:3680088-3680107 None:intergenic 50.0%
TGACTAAGGTAGGGGGGTTA+AGG + Chr4:3680082-3680101 None:intergenic 50.0%
TGAGAGAGTGATGCATGGAG+GGG - Chr4:3678920-3678939 MsG0480018351.01.T01:intron 50.0%
! ATGGTGGAAATGGAAGAGGG+TGG - Chr4:3678127-3678146 MsG0480018351.01.T01:CDS 50.0%
!! AGAGGCTCAGATGGTGGAAA+TGG - Chr4:3678117-3678136 MsG0480018351.01.T01:CDS 50.0%
!! GGATGTAAAGGTGGTGGAAG+AGG - Chr4:3678099-3678118 MsG0480018351.01.T01:CDS 50.0%
!! TAGGGGGGTTAAGGTGTTGT+GGG + Chr4:3680073-3680092 None:intergenic 50.0%
! CAAGGGGAAAGCATGGGCTT+TGG + Chr4:3678946-3678965 None:intergenic 55.0%
!! GTAGGGGGGTTAAGGTGTTG+TGG + Chr4:3680074-3680093 None:intergenic 55.0%
GGTGGAAGAGGCTCAGATGG+TGG - Chr4:3678111-3678130 MsG0480018351.01.T01:CDS 60.0%
!! GGTGGTGGAAGAGGCTCAGA+TGG - Chr4:3678108-3678127 MsG0480018351.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 3678094 3680316 3678094 ID=MsG0480018351.01;Name=MsG0480018351.01
Chr4 mRNA 3678094 3680316 3678094 ID=MsG0480018351.01.T01;Parent=MsG0480018351.01;Name=MsG0480018351.01.T01;_AED=0.49;_eAED=0.62;_QI=0|0|0|1|0.5|0.66|3|0|113
Chr4 exon 3680236 3680316 3680236 ID=MsG0480018351.01.T01:exon:1476;Parent=MsG0480018351.01.T01
Chr4 exon 3678977 3679149 3678977 ID=MsG0480018351.01.T01:exon:1475;Parent=MsG0480018351.01.T01
Chr4 exon 3678094 3678181 3678094 ID=MsG0480018351.01.T01:exon:1474;Parent=MsG0480018351.01.T01
Chr4 CDS 3680236 3680316 3680236 ID=MsG0480018351.01.T01:cds;Parent=MsG0480018351.01.T01
Chr4 CDS 3678977 3679149 3678977 ID=MsG0480018351.01.T01:cds;Parent=MsG0480018351.01.T01
Chr4 CDS 3678094 3678181 3678094 ID=MsG0480018351.01.T01:cds;Parent=MsG0480018351.01.T01
Gene Sequence

>MsG0480018351.01.T01

ATGGTGGATGTAAAGGTGGTGGAAGAGGCTCAGATGGTGGAAATGGAAGAGGGTGGAATTTTAATGAAGGAAATAATCATGGTTTGTGGAGATTACGCTAAAGCAGAAGAGTATCTACAAAGAGCGATTTTAGCTAATCCTGGTGATGGTCATATTATGTCCATCTATGCAGAATTAATATGGGAAACAGAGAAGAATGCTGGTCGAGCTCAACAATATTTTGATCAAGCTATTCAAAGTGACCCAGATAATTGCTATGTCCTGGCTTCATATGCAAAATTCCTTTGGGATGCTGAAAATGAAGAAGATAAAGACTACCGAATTAAATCGGATCACATGTGA
Protein sequence

>MsG0480018351.01.T01

MVDVKVVEEAQMVEMEEGGILMKEIIMVCGDYAKAEEYLQRAILANPGDGHIMSIYAELIWETEKNAGRAQQYFDQAIQSDPDNCYVLASYAKFLWDAENEEDKDYRIKSDHM*