AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000670.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000670.01.T01 MTR_1g010080 73.333 150 7 2 24 173 113 229 1.24e-70 213
MsG0180000670.01.T01 MTR_1g010080 73.333 150 7 2 24 173 145 261 1.03e-69 212
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000670.01.T01 AT4G31115 45.385 130 38 2 20 149 145 241 3.16e-26 100
MsG0180000670.01.T01 AT4G31115 45.385 130 38 2 20 149 169 265 4.68e-26 100

Find 27 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATGGATTTGCAGCATTTA+TGG 0.126491 1:-9519823 MsG0180000670.01.T01:CDS
ATGTTTATTAATCATTTCTA+TGG 0.236057 1:-9519840 MsG0180000670.01.T01:CDS
TAAATAACTCACAGGTTTCC+AGG 0.331617 1:+9519502 None:intergenic
GGACCTTCAACAGCTGAAAT+AGG 0.346276 1:+9519523 None:intergenic
TGGTACAAGGTTATGATGAA+TGG 0.432437 1:-9519224 MsG0180000670.01.T01:CDS
ATTTCAGCTGTTGAAGGTCC+TGG 0.441470 1:-9519520 MsG0180000670.01.T01:CDS
CGACATGGGATCCATTGTTA+TGG 0.443968 1:+9519868 None:intergenic
ATGCCTATTTCAGCTGTTGA+AGG 0.446776 1:-9519526 MsG0180000670.01.T01:CDS
GTGCAGAATGATGCAAGCTT+TGG 0.473821 1:-9519280 MsG0180000670.01.T01:CDS
CTACTTCAACAGATGGTACA+AGG 0.480356 1:-9519237 MsG0180000670.01.T01:CDS
AACAGCTGAAATAGGCATTA+CGG 0.486330 1:+9519531 None:intergenic
GGTACAAGGTTATGATGAAT+GGG 0.494532 1:-9519223 MsG0180000670.01.T01:CDS
AATAAACATTGCTGCGACAT+GGG 0.500408 1:+9519854 None:intergenic
GAAATAGGCATTACGGTGAA+TGG 0.508196 1:+9519538 None:intergenic
CAGAATGATGCAAGCTTTGG+TGG 0.509605 1:-9519277 MsG0180000670.01.T01:CDS
GTTTGAGGGTTCAGAGATTG+TGG 0.521336 1:-9520072 MsG0180000670.01.T01:CDS
AATTTCCTTCACTAGAAGAC+TGG 0.521730 1:+9519175 None:intergenic
TAATAAACATTGCTGCGACA+TGG 0.543530 1:+9519853 None:intergenic
CTAAACCAGTCTTCTAGTGA+AGG 0.557650 1:-9519180 MsG0180000670.01.T01:CDS
ACCATCTGTTGAAGTAGAAG+TGG 0.580440 1:+9519243 None:intergenic
ATATTATAATATAGAAAATG+TGG 0.587363 1:-9519307 MsG0180000670.01.T01:CDS
TTATGGTAAATCACATGACA+TGG 0.600493 1:-9519806 MsG0180000670.01.T01:CDS
TAGTAGAGACAACAGAGGGA+GGG 0.616278 1:-9519149 MsG0180000670.01.T01:CDS
GCCACTTCTACTTCAACAGA+TGG 0.618609 1:-9519244 MsG0180000670.01.T01:CDS
TTTGTAGTAGAGACAACAGA+GGG 0.633580 1:-9519153 MsG0180000670.01.T01:CDS
GTAGTAGAGACAACAGAGGG+AGG 0.648680 1:-9519150 MsG0180000670.01.T01:CDS
GAAGTTGAATCTCACACTTG+AGG 0.662103 1:-9519745 MsG0180000670.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTATAATATAGAAAATG+TGG - Chr1:9519973-9519992 MsG0180000670.01.T01:intron 10.0%
!! ATGTTTATTAATCATTTCTA+TGG - Chr1:9519440-9519459 MsG0180000670.01.T01:intron 15.0%
!! TAGAATCATATAATATAACA+AGG + Chr1:9519929-9519948 None:intergenic 15.0%
!!! TTTTTTTATAACCATGTTAT+CGG - Chr1:9519280-9519299 MsG0180000670.01.T01:CDS 15.0%
!! TCATACCAAATTTGATATAA+CGG - Chr1:9519854-9519873 MsG0180000670.01.T01:CDS 20.0%
!!! ATATTTTTTTTGCAGTTTGA+GGG - Chr1:9519194-9519213 MsG0180000670.01.T01:CDS 20.0%
!!! GAAGTATTCAAAAATGAAAT+GGG + Chr1:9519171-9519190 None:intergenic 20.0%
!!! TATATTTTTTTTGCAGTTTG+AGG - Chr1:9519193-9519212 MsG0180000670.01.T01:CDS 20.0%
!!! TGAAGTATTCAAAAATGAAA+TGG + Chr1:9519172-9519191 None:intergenic 20.0%
! AATTGAAATAGCAAGGATTA+AGG + Chr1:9519627-9519646 None:intergenic 25.0%
! ACAAACCGTTATATCAAATT+TGG + Chr1:9519862-9519881 None:intergenic 25.0%
! GATAAGAAATTGAAATAGCA+AGG + Chr1:9519634-9519653 None:intergenic 25.0%
! TTATGAACTAAATAACTCAC+AGG + Chr1:9519789-9519808 None:intergenic 25.0%
CAAAAATGAAATGGGATAAG+TGG + Chr1:9519163-9519182 None:intergenic 30.0%
TTATGGACTTCGAAAAAATG+TGG + Chr1:9519398-9519417 None:intergenic 30.0%
TTATGGTAAATCACATGACA+TGG - Chr1:9519474-9519493 MsG0180000670.01.T01:intron 30.0%
!! TTTTTCGAAGTCCATAACAA+TGG - Chr1:9519401-9519420 MsG0180000670.01.T01:intron 30.0%
!!! TGCTGATACTGATTCATTTT+TGG - Chr1:9519502-9519521 MsG0180000670.01.T01:intron 30.0%
AACAGCTGAAATAGGCATTA+CGG + Chr1:9519752-9519771 None:intergenic 35.0%
AATAAACATTGCTGCGACAT+GGG + Chr1:9519429-9519448 None:intergenic 35.0%
AATTTCCTTCACTAGAAGAC+TGG + Chr1:9520108-9520127 None:intergenic 35.0%
CTATGGATTTGCAGCATTTA+TGG - Chr1:9519457-9519476 MsG0180000670.01.T01:intron 35.0%
GGTACAAGGTTATGATGAAT+GGG - Chr1:9520057-9520076 MsG0180000670.01.T01:CDS 35.0%
TAAATAACTCACAGGTTTCC+AGG + Chr1:9519781-9519800 None:intergenic 35.0%
TAATAAACATTGCTGCGACA+TGG + Chr1:9519430-9519449 None:intergenic 35.0%
TCGAAAAAATGTGGTTGAGA+TGG + Chr1:9519389-9519408 None:intergenic 35.0%
TGAAATAGCAAGGATTAAGG+AGG + Chr1:9519624-9519643 None:intergenic 35.0%
TGGTACAAGGTTATGATGAA+TGG - Chr1:9520056-9520075 MsG0180000670.01.T01:CDS 35.0%
TTTGTAGTAGAGACAACAGA+GGG - Chr1:9520127-9520146 MsG0180000670.01.T01:CDS 35.0%
! AGATTAGTTAAAGGCAAAGC+TGG + Chr1:9519319-9519338 None:intergenic 35.0%
! TTTTGTAGTAGAGACAACAG+AGG - Chr1:9520126-9520145 MsG0180000670.01.T01:CDS 35.0%
ACCATCTGTTGAAGTAGAAG+TGG + Chr1:9520040-9520059 None:intergenic 40.0%
ATGCCTATTTCAGCTGTTGA+AGG - Chr1:9519754-9519773 MsG0180000670.01.T01:CDS 40.0%
ATGGAAGACCCCATTAAAAG+TGG + Chr1:9519370-9519389 None:intergenic 40.0%
CTAAACCAGTCTTCTAGTGA+AGG - Chr1:9520100-9520119 MsG0180000670.01.T01:CDS 40.0%
CTACTTCAACAGATGGTACA+AGG - Chr1:9520043-9520062 MsG0180000670.01.T01:intron 40.0%
GAAATAGGCATTACGGTGAA+TGG + Chr1:9519745-9519764 None:intergenic 40.0%
GAAGTTGAATCTCACACTTG+AGG - Chr1:9519535-9519554 MsG0180000670.01.T01:CDS 40.0%
TGCCTTTAACTAATCTCCGT+CGG - Chr1:9519323-9519342 MsG0180000670.01.T01:intron 40.0%
TTAGTTAAAGGCAAAGCTGG+TGG + Chr1:9519316-9519335 None:intergenic 40.0%
! CTGTTTTGCAGATCTACACA+CGG - Chr1:9519719-9519738 MsG0180000670.01.T01:intron 40.0%
!!! AGTGACTGGCCACTTTTAAT+GGG - Chr1:9519358-9519377 MsG0180000670.01.T01:intron 40.0%
ATTTCAGCTGTTGAAGGTCC+TGG - Chr1:9519760-9519779 MsG0180000670.01.T01:CDS 45.0%
CCTTTAACTAATCTCCGTCG+GGG - Chr1:9519325-9519344 MsG0180000670.01.T01:intron 45.0%
CGACATGGGATCCATTGTTA+TGG + Chr1:9519415-9519434 None:intergenic 45.0%
GCCACTTCTACTTCAACAGA+TGG - Chr1:9520036-9520055 MsG0180000670.01.T01:intron 45.0%
GCCTTTAACTAATCTCCGTC+GGG - Chr1:9519324-9519343 MsG0180000670.01.T01:intron 45.0%
GGACCTTCAACAGCTGAAAT+AGG + Chr1:9519760-9519779 None:intergenic 45.0%
GTGCAGAATGATGCAAGCTT+TGG - Chr1:9520000-9520019 MsG0180000670.01.T01:intron 45.0%
GTTTGAGGGTTCAGAGATTG+TGG - Chr1:9519208-9519227 MsG0180000670.01.T01:CDS 45.0%
TAGTAGAGACAACAGAGGGA+GGG - Chr1:9520131-9520150 MsG0180000670.01.T01:CDS 45.0%
! CAGAATGATGCAAGCTTTGG+TGG - Chr1:9520003-9520022 MsG0180000670.01.T01:intron 45.0%
! GAGCTAAACGAGCACTTTTC+AGG - Chr1:9519233-9519252 MsG0180000670.01.T01:CDS 45.0%
! GATACTTCGCACCGATAACA+TGG + Chr1:9519294-9519313 None:intergenic 45.0%
!!! GAGTGACTGGCCACTTTTAA+TGG - Chr1:9519357-9519376 MsG0180000670.01.T01:intron 45.0%
!!! GTGACTGGCCACTTTTAATG+GGG - Chr1:9519359-9519378 MsG0180000670.01.T01:intron 45.0%
CACTCAATCAGATTCCCCGA+CGG + Chr1:9519342-9519361 None:intergenic 50.0%
GGGGAATCTGATTGAGTGAC+TGG - Chr1:9519344-9519363 MsG0180000670.01.T01:intron 50.0%
GTAGTAGAGACAACAGAGGG+AGG - Chr1:9520130-9520149 MsG0180000670.01.T01:CDS 50.0%
! CCCCGACGGAGATTAGTTAA+AGG + Chr1:9519328-9519347 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 9519137 9520165 9519137 ID=MsG0180000670.01;Name=MsG0180000670.01
Chr1 mRNA 9519137 9520165 9519137 ID=MsG0180000670.01.T01;Parent=MsG0180000670.01;Name=MsG0180000670.01.T01;_AED=0.50;_eAED=0.61;_QI=0|0.33|0.25|1|0.66|0.5|4|0|173
Chr1 exon 9520048 9520165 9520048 ID=MsG0180000670.01.T01:exon:1691;Parent=MsG0180000670.01.T01
Chr1 exon 9519746 9519891 9519746 ID=MsG0180000670.01.T01:exon:1692;Parent=MsG0180000670.01.T01
Chr1 exon 9519514 9519572 9519514 ID=MsG0180000670.01.T01:exon:1693;Parent=MsG0180000670.01.T01
Chr1 exon 9519137 9519335 9519137 ID=MsG0180000670.01.T01:exon:1694;Parent=MsG0180000670.01.T01
Chr1 CDS 9520048 9520165 9520048 ID=MsG0180000670.01.T01:cds;Parent=MsG0180000670.01.T01
Chr1 CDS 9519746 9519891 9519746 ID=MsG0180000670.01.T01:cds;Parent=MsG0180000670.01.T01
Chr1 CDS 9519514 9519572 9519514 ID=MsG0180000670.01.T01:cds;Parent=MsG0180000670.01.T01
Chr1 CDS 9519137 9519335 9519137 ID=MsG0180000670.01.T01:cds;Parent=MsG0180000670.01.T01
Gene Sequence

>MsG0180000670.01.T01

ATGCATCTTTGCAACATTCTTAGCCACTTATCCCATTTCATTTTTGAATACTTCACTATATTTTTTTTGCAGTTTGAGGGTTCAGAGATTGTGGAAGAGCTAAACGAGCACTTTTCAGTCCATAACAATGGATCCCATGTCGCAGCAATGTTTATTAATCATTTCTATGGATTTGCAGCATTTATGGTAAATCACATGACATGGAGTGATGCTGATACTGATTCATTTTTGGAAGTTGATGTGAAGTTGAATCTCACACTTGAGATCTACACACGGCCATTCACCGTAATGCCTATTTCAGCTGTTGAAGGTCCTGGAAACCTAATCAAATATTATAATATAGAAAATGTGGCTCTGTGCAGAATGATGCAAGCTTTGGTGGACAAGCTCGTGCCACTTCTACTTCAACAGATGGTACAAGGTTATGATGAATGGGTTCAAAAGCAACTGTATTATCTAAACCAGTCTTCTAGTGAAGGAAATTTTGTAGTAGAGACAACAGAGGGAGGGAGAACCTTTTGA

Protein sequence

>MsG0180000670.01.T01

MHLCNILSHLSHFIFEYFTIFFLQFEGSEIVEELNEHFSVHNNGSHVAAMFINHFYGFAAFMVNHMTWSDADTDSFLEVDVKLNLTLEIYTRPFTVMPISAVEGPGNLIKYYNIENVALCRMMQALVDKLVPLLLQQMVQGYDEWVQKQLYYLNQSSSEGNFVVETTEGGRTF*