AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047183.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047183.01.T01 MTR_4g122710 58.763 97 6 1 1 63 1 97 1.16e-26 99.8
MsG0880047183.01.T01 MTR_4g122710 90.323 62 6 0 67 128 178 239 2.48e-25 96.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 41 sgRNAs with CRISPR-Local

Find 112 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTTTACATTGTGATTTA+AGG 0.098041 8:+83079303 MsG0880047183.01.T01:three_prime_UTR
GACATTGATATAAAATAATT+AGG 0.333160 8:-83079412 None:intergenic
GAGTTCAGTGACAAGTTTCC+AGG 0.338873 8:+83078904 MsG0880047183.01.T01:CDS
GACATTGATATAAAATAATT+AGG 0.339980 8:-83079451 None:intergenic
GGCAGTAACTAAAGATGATT+CGG 0.374127 8:+83077888 MsG0880047183.01.T01:CDS
GTCTAAACTTCACCCTCATC+AGG 0.389569 8:-83079342 None:intergenic
AGGGTGAAGTTTAGACTTGT+AGG 0.415952 8:+83079349 MsG0880047183.01.T01:three_prime_UTR
TGTAGAGAATAGTCCGGTTA+AGG 0.419669 8:+83078090 MsG0880047183.01.T01:CDS
ACATTGTGATTTAAGGTGTT+GGG 0.433458 8:+83079310 MsG0880047183.01.T01:three_prime_UTR
TACATTGTGATTTAAGGTGT+TGG 0.433731 8:+83079309 MsG0880047183.01.T01:three_prime_UTR
TTTGCAGGCATGTCATCATC+TGG 0.437634 8:+83078878 MsG0880047183.01.T01:intron
TCAGCTCCTCCTGCAGATAC+AGG 0.451996 8:-83078932 None:intergenic
CAGGGGTCTCCTGTATCTGC+AGG 0.453931 8:+83078923 MsG0880047183.01.T01:CDS
GCAGTAACTAAAGATGATTC+GGG 0.461926 8:+83077889 MsG0880047183.01.T01:CDS
GGTGAAGTTGATATTGAAAG+TGG 0.477042 8:+83077862 MsG0880047183.01.T01:CDS
AGATTTACTGACAATAAAGA+TGG 0.495380 8:+83079228 MsG0880047183.01.T01:three_prime_UTR
GTTGTTGACGGGGCAGGACT+TGG 0.513107 8:+83078060 MsG0880047183.01.T01:CDS
GAGTCTAACAAGTTGTTGAC+GGG 0.513280 8:+83078049 MsG0880047183.01.T01:CDS
ATAGTCCGGTTAAGGAGAAA+CGG 0.534537 8:+83078098 MsG0880047183.01.T01:CDS
TTGAAAGATTCAAATTTGAG+TGG 0.539571 8:+83078004 MsG0880047183.01.T01:intron
TAACAAGTTGTTGACGGGGC+AGG 0.545014 8:+83078054 MsG0880047183.01.T01:CDS
AATAATTAGGTGATTACAGA+TGG 0.545580 8:-83079399 None:intergenic
AGAAAACTGAGATGAGATGA+AGG 0.556919 8:+83079198 MsG0880047183.01.T01:CDS
CACAATGTAAAGAAATACAT+TGG 0.560595 8:-83079295 None:intergenic
AGAGTCTAACAAGTTGTTGA+CGG 0.570293 8:+83078048 MsG0880047183.01.T01:CDS
GAAAAGTGTAGAGAATAGTC+CGG 0.572405 8:+83078084 MsG0880047183.01.T01:CDS
GTGAAGTTGATATTGAAAGT+GGG 0.572872 8:+83077863 MsG0880047183.01.T01:CDS
TGGGTATTTATCCCCTGATG+AGG 0.580814 8:+83079329 MsG0880047183.01.T01:three_prime_UTR
TCTAAACTTCACCCTCATCA+GGG 0.581373 8:-83079341 None:intergenic
AGTTCAGTGACAAGTTTCCA+GGG 0.583334 8:+83078905 MsG0880047183.01.T01:CDS
GGGTATTTATCCCCTGATGA+GGG 0.583354 8:+83079330 MsG0880047183.01.T01:three_prime_UTR
CTGCAGATACAGGAGACCCC+TGG 0.589034 8:-83078922 None:intergenic
TACTTGTGAGACTCTGAAGA+AGG 0.591671 8:-83079019 None:intergenic
GGGTCTCCTGTATCTGCAGG+AGG 0.593983 8:+83078926 MsG0880047183.01.T01:CDS
AGTTGATATTGAAAGTGGGT+TGG 0.627313 8:+83077867 MsG0880047183.01.T01:CDS
CTACCTTACAGAATTGTACG+TGG 0.646628 8:+83079161 MsG0880047183.01.T01:intron
GAGTGGAGATTCTGTGAATG+TGG 0.653592 8:+83078021 MsG0880047183.01.T01:CDS
CTAAACTTCACCCTCATCAG+GGG 0.659411 8:-83079340 None:intergenic
GGGCTTGTGTGAGATGCACA+AGG 0.666533 8:-83079259 None:intergenic
GTTCAGTGACAAGTTTCCAG+GGG 0.676920 8:+83078906 MsG0880047183.01.T01:CDS
AGTCTAACAAGTTGTTGACG+GGG 0.706378 8:+83078050 MsG0880047183.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GACATTGATATAAAATAATT+AGG - Chr8:83079415-83079434 None:intergenic 15.0%
!! AACAATAAGAATATTACTAC+CGG - Chr8:83079133-83079152 None:intergenic 20.0%
!! ACAATTGACAAATGATATAA+TGG + Chr8:83078454-83078473 MsG0880047183.01.T01:intron 20.0%
!! ATGGATGATAAAAATATGAA+AGG + Chr8:83077832-83077851 MsG0880047183.01.T01:CDS 20.0%
!! TACTCAATCAATATGAAATT+CGG - Chr8:83078701-83078720 None:intergenic 20.0%
!! TGGATGATAAAAATATGAAA+GGG + Chr8:83077833-83077852 MsG0880047183.01.T01:CDS 20.0%
!! TTTCTTTACATTGTGATTTA+AGG + Chr8:83079303-83079322 MsG0880047183.01.T01:three_prime_UTR 20.0%
!!! GACTTGAAATTTTATTCAAT+TGG - Chr8:83078988-83079007 None:intergenic 20.0%
!!! TTATTTGCTAAGATTTATTG+TGG + Chr8:83077934-83077953 MsG0880047183.01.T01:intron 20.0%
! AATAATTAGGTGATTACAGA+TGG - Chr8:83079402-83079421 None:intergenic 25.0%
! AATTAAAGTAGTATCTGTCA+TGG + Chr8:83078371-83078390 MsG0880047183.01.T01:intron 25.0%
! AGATTTACTGACAATAAAGA+TGG + Chr8:83079228-83079247 MsG0880047183.01.T01:three_prime_UTR 25.0%
! ATACATTGGAAGACAAAAAA+AGG - Chr8:83079284-83079303 None:intergenic 25.0%
! CACAATGTAAAGAAATACAT+TGG - Chr8:83079298-83079317 None:intergenic 25.0%
! CATAAACTTAGAGATAGTTA+TGG + Chr8:83078745-83078764 MsG0880047183.01.T01:intron 25.0%
! CTAAGATTTATTGTGGTATT+TGG + Chr8:83077941-83077960 MsG0880047183.01.T01:intron 25.0%
! GAAAAAATCTGGTAACAAAA+AGG + Chr8:83078120-83078139 MsG0880047183.01.T01:intron 25.0%
! GATTGTTCTTTATGAAATTG+AGG - Chr8:83079098-83079117 None:intergenic 25.0%
! GGATGATAAAAATATGAAAG+GGG + Chr8:83077834-83077853 MsG0880047183.01.T01:CDS 25.0%
! TACATTGGAAGACAAAAAAA+GGG - Chr8:83079283-83079302 None:intergenic 25.0%
! TTGAAAGATTCAAATTTGAG+TGG + Chr8:83078004-83078023 MsG0880047183.01.T01:intron 25.0%
!! ATTGATTGAGTATTTTCAGA+AGG + Chr8:83078709-83078728 MsG0880047183.01.T01:intron 25.0%
!! TGTATTGTGATCTTATTTCA+AGG + Chr8:83078339-83078358 MsG0880047183.01.T01:intron 25.0%
!! TTATAAGGTGTTAAATTTGC+AGG + Chr8:83078863-83078882 MsG0880047183.01.T01:intron 25.0%
!!! TGACAATAAAGATGGTTTTA+CGG + Chr8:83079236-83079255 MsG0880047183.01.T01:three_prime_UTR 25.0%
AACAATCCTGAAATTTGGAA+TGG - Chr8:83078586-83078605 None:intergenic 30.0%
ACATTGGAAGACAAAAAAAG+GGG - Chr8:83079282-83079301 None:intergenic 30.0%
CCTAGTGGTATTCATTTATA+AGG + Chr8:83078848-83078867 MsG0880047183.01.T01:intron 30.0%
CCTTATAAATGAATACCACT+AGG - Chr8:83078851-83078870 None:intergenic 30.0%
GAAAATATGCTTGCAATGAA+AGG - Chr8:83079063-83079082 None:intergenic 30.0%
GAAGTAACAATCCTGAAATT+TGG - Chr8:83078591-83078610 None:intergenic 30.0%
GGCAAAAATTGTATGATTGA+TGG - Chr8:83078781-83078800 None:intergenic 30.0%
GTTCTGTTTGTTTCAAAGTT+TGG + Chr8:83078560-83078579 MsG0880047183.01.T01:intron 30.0%
TCTGTATTGTCACATGATAT+AGG + Chr8:83078416-83078435 MsG0880047183.01.T01:intron 30.0%
TGATAAAAATATGAAAGGGG+AGG + Chr8:83077837-83077856 MsG0880047183.01.T01:CDS 30.0%
TGCTGATCAAAAGCTAATTA+GGG + Chr8:83078185-83078204 MsG0880047183.01.T01:intron 30.0%
TTGAAACAAACAGAACCAAT+AGG - Chr8:83078556-83078575 None:intergenic 30.0%
TTGTCACATGATATAGGTTT+AGG + Chr8:83078422-83078441 MsG0880047183.01.T01:intron 30.0%
! ACATTGTGATTTAAGGTGTT+GGG + Chr8:83079310-83079329 MsG0880047183.01.T01:three_prime_UTR 30.0%
! CAATTTTGCGTACTTTTACT+GGG - Chr8:83078802-83078821 None:intergenic 30.0%
! TACATTGTGATTTAAGGTGT+TGG + Chr8:83079309-83079328 MsG0880047183.01.T01:three_prime_UTR 30.0%
!! GGTATTGTTTTGTTACCTAT+TGG + Chr8:83078514-83078533 MsG0880047183.01.T01:intron 30.0%
!! GTGAAGTTGATATTGAAAGT+GGG + Chr8:83077863-83077882 MsG0880047183.01.T01:CDS 30.0%
AAAAATATGAAAGGGGAGGA+TGG + Chr8:83077841-83077860 MsG0880047183.01.T01:CDS 35.0%
AACAATCTCGATGTGATAAC+CGG + Chr8:83079111-83079130 MsG0880047183.01.T01:intron 35.0%
AAGGAGAAACGGAAAAAATC+TGG + Chr8:83078109-83078128 MsG0880047183.01.T01:CDS 35.0%
AGAAAACTGAGATGAGATGA+AGG + Chr8:83079198-83079217 MsG0880047183.01.T01:CDS 35.0%
AGAGTCTAACAAGTTGTTGA+CGG + Chr8:83078048-83078067 MsG0880047183.01.T01:CDS 35.0%
CAAACAGAACCAATAGGAAT+AGG - Chr8:83078550-83078569 None:intergenic 35.0%
CGGGTAATACTAAACAAGAA+AGG + Chr8:83077908-83077927 MsG0880047183.01.T01:intron 35.0%
CTGCTGATCAAAAGCTAATT+AGG + Chr8:83078184-83078203 MsG0880047183.01.T01:intron 35.0%
GCAGTAACTAAAGATGATTC+GGG + Chr8:83077889-83077908 MsG0880047183.01.T01:CDS 35.0%
GGCAGTAACTAAAGATGATT+CGG + Chr8:83077888-83077907 MsG0880047183.01.T01:CDS 35.0%
TTTGATGGAACCACAAACAA+AGG - Chr8:83078617-83078636 None:intergenic 35.0%
! AGTTGATATTGAAAGTGGGT+TGG + Chr8:83077867-83077886 MsG0880047183.01.T01:CDS 35.0%
! CCAATTTTGCGTACTTTTAC+TGG - Chr8:83078803-83078822 None:intergenic 35.0%
! CCAGTAAAAGTACGCAAAAT+TGG + Chr8:83078800-83078819 MsG0880047183.01.T01:intron 35.0%
! GAAAAGTGTAGAGAATAGTC+CGG + Chr8:83078084-83078103 MsG0880047183.01.T01:CDS 35.0%
! TTACTTCTGTCCTTTGTTTG+TGG + Chr8:83078604-83078623 MsG0880047183.01.T01:intron 35.0%
! TTTTTCCGTTTCTCCTTAAC+CGG - Chr8:83078106-83078125 None:intergenic 35.0%
!! GGTGAAGTTGATATTGAAAG+TGG + Chr8:83077862-83077881 MsG0880047183.01.T01:CDS 35.0%
ACAGAACCAATAGGAATAGG+TGG - Chr8:83078547-83078566 None:intergenic 40.0%
ACTGTTGCAAGTTGTTGAGT+TGG + Chr8:83078492-83078511 MsG0880047183.01.T01:intron 40.0%
AGGGTGAAGTTTAGACTTGT+AGG + Chr8:83079349-83079368 MsG0880047183.01.T01:three_prime_UTR 40.0%
AGTCTAACAAGTTGTTGACG+GGG + Chr8:83078050-83078069 MsG0880047183.01.T01:CDS 40.0%
AGTTCAGTGACAAGTTTCCA+GGG + Chr8:83078905-83078924 MsG0880047183.01.T01:CDS 40.0%
ATAGGTGGAAATGGACCAAT+AGG - Chr8:83078532-83078551 None:intergenic 40.0%
ATAGTCCGGTTAAGGAGAAA+CGG + Chr8:83078098-83078117 MsG0880047183.01.T01:CDS 40.0%
CACAAGTAAGTAGAGATGCA+AGG + Chr8:83079034-83079053 MsG0880047183.01.T01:intron 40.0%
CCAATAGGAATAGGTGGAAA+TGG - Chr8:83078541-83078560 None:intergenic 40.0%
CCATTTCCACCTATTCCTAT+TGG + Chr8:83078538-83078557 MsG0880047183.01.T01:intron 40.0%
CTACCTTACAGAATTGTACG+TGG + Chr8:83079161-83079180 MsG0880047183.01.T01:intron 40.0%
CTGTTGCAAGTTGTTGAGTT+GGG + Chr8:83078493-83078512 MsG0880047183.01.T01:intron 40.0%
GAACCACGTACAATTCTGTA+AGG - Chr8:83079167-83079186 None:intergenic 40.0%
GAGTCTAACAAGTTGTTGAC+GGG + Chr8:83078049-83078068 MsG0880047183.01.T01:CDS 40.0%
GTTTGGCCATTCCAAATTTC+AGG + Chr8:83078577-83078596 MsG0880047183.01.T01:intron 40.0%
TAGAACTCACTCACATGTCA+TGG + Chr8:83078654-83078673 MsG0880047183.01.T01:intron 40.0%
TCTAAACTTCACCCTCATCA+GGG - Chr8:83079344-83079363 None:intergenic 40.0%
TGAGAATAATGCACTCCTAG+TGG + Chr8:83078833-83078852 MsG0880047183.01.T01:intron 40.0%
TGTAGAGAATAGTCCGGTTA+AGG + Chr8:83078090-83078109 MsG0880047183.01.T01:CDS 40.0%
! TACTTGTGAGACTCTGAAGA+AGG - Chr8:83079022-83079041 None:intergenic 40.0%
CTAAACTTCACCCTCATCAG+GGG - Chr8:83079343-83079362 None:intergenic 45.0%
GAAGACAACAGTGCAAACCA+TGG - Chr8:83078319-83078338 None:intergenic 45.0%
GAGTGGAGATTCTGTGAATG+TGG + Chr8:83078021-83078040 MsG0880047183.01.T01:CDS 45.0%
GAGTTCAGTGACAAGTTTCC+AGG + Chr8:83078904-83078923 MsG0880047183.01.T01:CDS 45.0%
GGGTATTTATCCCCTGATGA+GGG + Chr8:83079330-83079349 MsG0880047183.01.T01:three_prime_UTR 45.0%
GTCTAAACTTCACCCTCATC+AGG - Chr8:83079345-83079364 None:intergenic 45.0%
GTTCAGTGACAAGTTTCCAG+GGG + Chr8:83078906-83078925 MsG0880047183.01.T01:CDS 45.0%
TGGGTATTTATCCCCTGATG+AGG + Chr8:83079329-83079348 MsG0880047183.01.T01:three_prime_UTR 45.0%
TTTGCAGGCATGTCATCATC+TGG + Chr8:83078878-83078897 MsG0880047183.01.T01:intron 45.0%
!!! AAAATAATAATAAATTTTGA+TGG - Chr8:83078632-83078651 None:intergenic 5.0%
!!! ATCAAAATTTATTATTATTT+TGG + Chr8:83078631-83078650 MsG0880047183.01.T01:intron 5.0%
AAGCAGCAGCATGTTTGCCA+TGG + Chr8:83078299-83078318 MsG0880047183.01.T01:intron 50.0%
ATGGCAAACATGCTGCTGCT+TGG - Chr8:83078300-83078319 None:intergenic 50.0%
TAACAAGTTGTTGACGGGGC+AGG + Chr8:83078054-83078073 MsG0880047183.01.T01:CDS 50.0%
TGATCAGCAGCATCCAACGA+CGG - Chr8:83078174-83078193 None:intergenic 50.0%
AACCTCCTAGAGCTCCACGA+GGG + Chr8:83078148-83078167 MsG0880047183.01.T01:intron 55.0%
GGGCTTGTGTGAGATGCACA+AGG - Chr8:83079262-83079281 None:intergenic 55.0%
TAACCTCCTAGAGCTCCACG+AGG + Chr8:83078147-83078166 MsG0880047183.01.T01:intron 55.0%
TCAGCTCCTCCTGCAGATAC+AGG - Chr8:83078935-83078954 None:intergenic 55.0%
TGCCATGTTGAAGCGTGCGA+GGG + Chr8:83078221-83078240 MsG0880047183.01.T01:intron 55.0%
TTGCCATGTTGAAGCGTGCG+AGG + Chr8:83078220-83078239 MsG0880047183.01.T01:intron 55.0%
CACCCTCGCACGCTTCAACA+TGG - Chr8:83078226-83078245 None:intergenic 60.0%
CAGGGGTCTCCTGTATCTGC+AGG + Chr8:83078923-83078942 MsG0880047183.01.T01:CDS 60.0%
CATGTTGAAGCGTGCGAGGG+TGG + Chr8:83078224-83078243 MsG0880047183.01.T01:intron 60.0%
CTGCAGATACAGGAGACCCC+TGG - Chr8:83078925-83078944 None:intergenic 60.0%
GGGTCTCCTGTATCTGCAGG+AGG + Chr8:83078926-83078945 MsG0880047183.01.T01:CDS 60.0%
GTTGTTGACGGGGCAGGACT+TGG + Chr8:83078060-83078079 MsG0880047183.01.T01:CDS 60.0%
AGCTCCACGAGGGCCGTCGT+TGG + Chr8:83078158-83078177 MsG0880047183.01.T01:intron 70.0%
GACGGCCCTCGTGGAGCTCT+AGG - Chr8:83078156-83078175 None:intergenic 70.0%
GCATCCAACGACGGCCCTCG+TGG - Chr8:83078165-83078184 None:intergenic 70.0%
!! GGCCCTCGTGGAGCTCTAGG+AGG - Chr8:83078153-83078172 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr8 gene 83077832 83079502 83077832 ID=MsG0880047183.01;Name=MsG0880047183.01
Chr8 mRNA 83077832 83079502 83077832 ID=MsG0880047183.01.T01;Parent=MsG0880047183.01;Name=MsG0880047183.01.T01;_AED=0.37;_eAED=0.37;_QI=0|0.33|0.5|1|0.66|0.75|4|285|132
Chr8 exon 83077832 83077910 83077832 ID=MsG0880047183.01.T01:exon:35459;Parent=MsG0880047183.01.T01
Chr8 exon 83078011 83078130 83078011 ID=MsG0880047183.01.T01:exon:35460;Parent=MsG0880047183.01.T01
Chr8 exon 83078885 83079038 83078885 ID=MsG0880047183.01.T01:exon:35461;Parent=MsG0880047183.01.T01
Chr8 exon 83079172 83079502 83079172 ID=MsG0880047183.01.T01:exon:35462;Parent=MsG0880047183.01.T01
Chr8 CDS 83077832 83077910 83077832 ID=MsG0880047183.01.T01:cds;Parent=MsG0880047183.01.T01
Chr8 CDS 83078011 83078130 83078011 ID=MsG0880047183.01.T01:cds;Parent=MsG0880047183.01.T01
Chr8 CDS 83078885 83079038 83078885 ID=MsG0880047183.01.T01:cds;Parent=MsG0880047183.01.T01
Chr8 CDS 83079172 83079217 83079172 ID=MsG0880047183.01.T01:cds;Parent=MsG0880047183.01.T01
Chr8 three_prime_UTR 83079218 83079502 83079218 ID=MsG0880047183.01.T01:three_prime_utr;Parent=MsG0880047183.01.T01
Gene Sequence

>MsG0880047183.01.T01

ATGGATGATAAAAATATGAAAGGGGAGGATGGTGAAGTTGATATTGAAAGTGGGTTGGCAGTAACTAAAGATGATTCGGATTCAAATTTGAGTGGAGATTCTGTGAATGTGGCGAAAGAGTCTAACAAGTTGTTGACGGGGCAGGACTTGGTGAAAAGTGTAGAGAATAGTCCGGTTAAGGAGAAACGGAAAAAATCTGGCATGTCATCATCTGGAAAGAGTTCAGTGACAAGTTTCCAGGGGTCTCCTGTATCTGCAGGAGGAGCTGAAAGTGATCTGATTGCAGTTCAACTTCAACACCAATTGAATAAAATTTCAAGTCAACAACATGCACCTTCTTCAGAGTCTCACAAAATTGTACGTGGTTCATATTTGTGCGAGAAAACTGAGATGAGATGA
Protein sequence

>MsG0880047183.01.T01

MDDKNMKGEDGEVDIESGLAVTKDDSDSNLSGDSVNVAKESNKLLTGQDLVKSVENSPVKEKRKKSGMSSSGKSSVTSFQGSPVSAGGAESDLIAVQLQHQLNKISSQQHAPSSESHKIVRGSYLCEKTEMR*