AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010143.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010143.01.T01 MTR_6g055010 98.485 264 4 0 1 264 212 475 0.0 545
MsG0280010143.01.T01 MTR_7g117930 98.485 264 4 0 1 264 212 475 0.0 544
MsG0280010143.01.T01 MTR_7g021770 98.106 264 5 0 1 264 212 475 0.0 543
MsG0280010143.01.T01 MTR_0002s0660 92.803 264 19 0 1 264 212 475 0.0 518
MsG0280010143.01.T01 MTR_4g051270 91.667 264 3 1 1 264 212 456 5.84e-177 495
MsG0280010143.01.T01 MTR_2176s0010 94.643 224 12 0 39 262 1 224 7.50e-160 443
MsG0280010143.01.T01 MTR_3g035680 96.933 163 5 0 102 264 15 177 4.53e-114 325
MsG0280010143.01.T01 MTR_5g087240 92.424 66 5 0 199 264 610 675 4.00e-33 127
MsG0280010143.01.T01 MTR_3g035490 96.226 53 2 0 1 53 97 149 1.10e-29 111
MsG0280010143.01.T01 MTR_0002s0100 96.226 53 2 0 1 53 97 149 3.46e-29 110
MsG0280010143.01.T01 MTR_4g076920 88.372 43 5 0 109 151 1 43 2.69e-19 84.3
MsG0280010143.01.T01 MTR_7g084780 84.848 33 5 0 218 250 37 69 2.47e-13 63.9
MsG0280010143.01.T01 MTR_1g059860 43.750 80 31 1 13 78 126 205 1.04e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010143.01.T01 ATCG00490 92.045 264 21 0 1 264 212 475 0.0 517
MsG0280010143.01.T01 AT2G07732 88.732 71 8 0 1 71 44 114 1.08e-40 137

Find 66 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGCTCTGACCGAGATATT+TGG 0.258934 2:-65300748 MsG0280010143.01.T01:CDS
TCCTTTGATTTCACCAGTTT+CGG 0.272241 2:+65301221 None:intergenic
CAATTCGGTGGAGGAACTTT+AGG 0.272632 2:-65300709 MsG0280010143.01.T01:CDS
GGAGAAAGGGATATTACTTT+AGG 0.297581 2:-65300901 MsG0280010143.01.T01:CDS
AGCTGTATTTGCTAGAGAAT+TGG 0.311976 2:-65301151 MsG0280010143.01.T01:CDS
TGGTGTTCTGCCTGTTGCTT+CGG 0.325396 2:-65300794 MsG0280010143.01.T01:CDS
CTTCGGGTGGTATTCATGTT+TGG 0.344232 2:-65300777 MsG0280010143.01.T01:CDS
GGTGTTCTGCCTGTTGCTTC+GGG 0.346027 2:-65300793 MsG0280010143.01.T01:CDS
TCACAAGCAGCAGCTAATTC+AGG 0.373684 2:+65300553 None:intergenic
CAGGATTGGGTTTCTTTACC+TGG 0.373947 2:-65300814 MsG0280010143.01.T01:CDS
TAGCTGCTGCTTGTGAAGTC+TGG 0.391463 2:-65300546 MsG0280010143.01.T01:CDS
AATCAAATAGTATCCATTGC+TGG 0.397304 2:+65300502 None:intergenic
TATAAAGCACAGGCCGAAAC+TGG 0.403516 2:-65301234 MsG0280010143.01.T01:CDS
AGCTAATTCAGGACTCCATT+TGG 0.412198 2:+65300564 None:intergenic
GCTCACTATTGCCGCGATAA+TGG 0.423190 2:-65301069 MsG0280010143.01.T01:CDS
GCTGTATTTGCTAGAGAATT+GGG 0.423593 2:-65301150 MsG0280010143.01.T01:CDS
GTAATGCATGACTACTTAAC+CGG 0.438897 2:-65301117 MsG0280010143.01.T01:CDS
GATGATTCTGTACTTCAATT+CGG 0.444395 2:-65300724 MsG0280010143.01.T01:CDS
GACTCCATTTGGTAGCTTCA+CGG 0.453939 2:+65300575 None:intergenic
CTGTGCTTTATAAATAGCTT+CGG 0.455393 2:+65301245 None:intergenic
TAGGTAAACTGGAAGGAGAA+AGG 0.458706 2:-65300915 MsG0280010143.01.T01:CDS
AGGTAAACTGGAAGGAGAAA+GGG 0.461550 2:-65300914 MsG0280010143.01.T01:CDS
AGGAACTTTAGGACACCCTT+GGG 0.475375 2:-65300698 MsG0280010143.01.T01:CDS
TGAATACCACCCGAAGCAAC+AGG 0.476643 2:+65300784 None:intergenic
ATTCACGCTGGTACTGTAGT+AGG 0.483967 2:-65300934 MsG0280010143.01.T01:CDS
ATCAAATAGTATCCATTGCT+GGG 0.485651 2:+65300503 None:intergenic
CCAAATATCTCGGTCAGAGC+AGG 0.486091 2:+65300748 None:intergenic
TGGTACTGTAGTAGGTAAAC+TGG 0.487335 2:-65300926 MsG0280010143.01.T01:CDS
CAAATTTGAATTCCCAGCAA+TGG 0.508854 2:-65300515 MsG0280010143.01.T01:CDS
GCTAAAGCGTTACGTATGTC+AGG 0.511089 2:-65300967 MsG0280010143.01.T01:CDS
CACCCTTGGGGAAATGCACC+TGG 0.521465 2:-65300685 MsG0280010143.01.T01:CDS
GAGGAACTTTAGGACACCCT+TGG 0.524326 2:-65300699 MsG0280010143.01.T01:CDS
ACTCGATTCGCTACGGCACC+AGG 0.531789 2:+65300667 None:intergenic
TTATCCGTGAAGCTACCAAA+TGG 0.532937 2:-65300579 MsG0280010143.01.T01:CDS
CGTAGCGAATCGAGTAGCTC+TGG 0.549072 2:-65300659 MsG0280010143.01.T01:CDS
ACTCCCAACCATTTATGCGT+TGG 0.551785 2:-65301290 None:intergenic
CGAAGCTATTTATAAAGCAC+AGG 0.553069 2:-65301244 MsG0280010143.01.T01:CDS
GAAGCAACAGGCAGAACACC+AGG 0.557758 2:+65300796 None:intergenic
CACCAGGTGCATTTCCCCAA+GGG 0.564366 2:+65300683 None:intergenic
AGAATCATCTCCAAATATCT+CGG 0.567898 2:+65300738 None:intergenic
ATGTGTACAAGCTCGTAATG+AGG 0.569123 2:-65300632 MsG0280010143.01.T01:CDS
CATTATTTGAATGCTACTGC+GGG 0.580575 2:-65301198 MsG0280010143.01.T01:CDS
TCTGTACTTCAATTCGGTGG+AGG 0.580864 2:-65300718 MsG0280010143.01.T01:CDS
CTTCGGCACAAAATAAGAAA+CGG 0.582663 2:+65301262 None:intergenic
GCACCAGGTGCATTTCCCCA+AGG 0.582933 2:+65300682 None:intergenic
GTTCTGCCTGTTGCTTCGGG+TGG 0.593280 2:-65300790 MsG0280010143.01.T01:CDS
CAATAACTGCATGCATTGCA+CGG 0.599019 2:+65301028 None:intergenic
AAGTAGTCATGCATTACGAT+AGG 0.600342 2:+65301123 None:intergenic
TGTGTACAAGCTCGTAATGA+GGG 0.604683 2:-65300631 MsG0280010143.01.T01:CDS
AGTATTTGCAGTGAATCCAC+CGG 0.604695 2:+65301098 None:intergenic
ATTCACTGCAAATACTACCT+TGG 0.606582 2:-65301091 MsG0280010143.01.T01:CDS
GATTCTGTACTTCAATTCGG+TGG 0.608565 2:-65300721 MsG0280010143.01.T01:CDS
GGGACGTGATCTTGCTCGTG+AGG 0.610459 2:-65300611 MsG0280010143.01.T01:CDS
TGCTGCTTGTGAAGTCTGGA+AGG 0.612336 2:-65300542 MsG0280010143.01.T01:CDS
GGACGTGATCTTGCTCGTGA+GGG 0.620456 2:-65300610 MsG0280010143.01.T01:CDS
ATGCATGACTACTTAACCGG+TGG 0.625393 2:-65301114 MsG0280010143.01.T01:CDS
ACATTATTTGAATGCTACTG+CGG 0.627454 2:-65301199 MsG0280010143.01.T01:CDS
GCCGAAACTGGTGAAATCAA+AGG 0.632646 2:-65301222 MsG0280010143.01.T01:CDS
CAGAGCTACTCGATTCGCTA+CGG 0.633558 2:+65300660 None:intergenic
ATCGCGGCAATAGTGAGCCA+AGG 0.642206 2:+65301074 None:intergenic
AAAGCGTTACGTATGTCAGG+TGG 0.676637 2:-65300964 MsG0280010143.01.T01:CDS
ACTGTAGTAGGTAAACTGGA+AGG 0.681893 2:-65300922 MsG0280010143.01.T01:CDS
GGTGGAGATCATATTCACGC+TGG 0.700987 2:-65300946 MsG0280010143.01.T01:CDS
GAAGAAGTAGACCATTATCG+CGG 0.720621 2:+65301058 None:intergenic
GGAACTTTAGGACACCCTTG+GGG 0.727359 2:-65300697 MsG0280010143.01.T01:CDS
TAACTGCATGCATTGCACGG+TGG 0.746593 2:+65301031 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTGATAGACAGAAAAATCA+TGG - Chr2:65300771-65300790 MsG0280010143.01.T01:CDS 25.0%
!!! TATTTTTTTCACTCAGGATT+GGG - Chr2:65300953-65300972 MsG0280010143.01.T01:CDS 25.0%
ACATTATTTGAATGCTACTG+CGG - Chr2:65300581-65300600 MsG0280010143.01.T01:CDS 30.0%
AGAATCATCTCCAAATATCT+CGG + Chr2:65301045-65301064 None:intergenic 30.0%
ATTGAAAAAGATAGAAGTCG+CGG - Chr2:65300930-65300949 MsG0280010143.01.T01:CDS 30.0%
CTGTGCTTTATAAATAGCTT+CGG + Chr2:65300538-65300557 None:intergenic 30.0%
GATGATTCTGTACTTCAATT+CGG - Chr2:65301056-65301075 MsG0280010143.01.T01:CDS 30.0%
!!! GTATTTTTTTCACTCAGGAT+TGG - Chr2:65300952-65300971 MsG0280010143.01.T01:CDS 30.0%
AAGTAGTCATGCATTACGAT+AGG + Chr2:65300660-65300679 None:intergenic 35.0%
ATTCACTGCAAATACTACCT+TGG - Chr2:65300689-65300708 MsG0280010143.01.T01:CDS 35.0%
CAAATTTGAATTCCCAGCAA+TGG - Chr2:65301265-65301284 MsG0280010143.01.T01:CDS 35.0%
CATTATTTGAATGCTACTGC+GGG - Chr2:65300582-65300601 MsG0280010143.01.T01:CDS 35.0%
CGAAGCTATTTATAAAGCAC+AGG - Chr2:65300536-65300555 MsG0280010143.01.T01:CDS 35.0%
CTTCGGCACAAAATAAGAAA+CGG + Chr2:65300521-65300540 None:intergenic 35.0%
GGAGAAAGGGATATTACTTT+AGG - Chr2:65300879-65300898 MsG0280010143.01.T01:CDS 35.0%
GTAATGCATGACTACTTAAC+CGG - Chr2:65300663-65300682 MsG0280010143.01.T01:CDS 35.0%
! AGCTGTATTTGCTAGAGAAT+TGG - Chr2:65300629-65300648 MsG0280010143.01.T01:CDS 35.0%
! GCTGTATTTGCTAGAGAATT+GGG - Chr2:65300630-65300649 MsG0280010143.01.T01:CDS 35.0%
! TCCTTTGATTTCACCAGTTT+CGG + Chr2:65300562-65300581 None:intergenic 35.0%
ACTGTAGTAGGTAAACTGGA+AGG - Chr2:65300858-65300877 MsG0280010143.01.T01:CDS 40.0%
AGCTAATTCAGGACTCCATT+TGG + Chr2:65301219-65301238 None:intergenic 40.0%
AGGTAAACTGGAAGGAGAAA+GGG - Chr2:65300866-65300885 MsG0280010143.01.T01:CDS 40.0%
AGTATTTGCAGTGAATCCAC+CGG + Chr2:65300685-65300704 None:intergenic 40.0%
ATGTGTACAAGCTCGTAATG+AGG - Chr2:65301148-65301167 MsG0280010143.01.T01:CDS 40.0%
CAATAACTGCATGCATTGCA+CGG + Chr2:65300755-65300774 None:intergenic 40.0%
GAAGAAGTAGACCATTATCG+CGG + Chr2:65300725-65300744 None:intergenic 40.0%
GATTCTGTACTTCAATTCGG+TGG - Chr2:65301059-65301078 MsG0280010143.01.T01:CDS 40.0%
TAGGTAAACTGGAAGGAGAA+AGG - Chr2:65300865-65300884 MsG0280010143.01.T01:CDS 40.0%
TGGTACTGTAGTAGGTAAAC+TGG - Chr2:65300854-65300873 MsG0280010143.01.T01:CDS 40.0%
TGTGTACAAGCTCGTAATGA+GGG - Chr2:65301149-65301168 MsG0280010143.01.T01:CDS 40.0%
TTATCCGTGAAGCTACCAAA+TGG - Chr2:65301201-65301220 MsG0280010143.01.T01:CDS 40.0%
!!! TCGCGGTATTTTTTTCACTC+AGG - Chr2:65300947-65300966 MsG0280010143.01.T01:CDS 40.0%
ATGCATGACTACTTAACCGG+TGG - Chr2:65300666-65300685 MsG0280010143.01.T01:CDS 45.0%
ATTCACGCTGGTACTGTAGT+AGG - Chr2:65300846-65300865 MsG0280010143.01.T01:CDS 45.0%
CAGGATTGGGTTTCTTTACC+TGG - Chr2:65300966-65300985 MsG0280010143.01.T01:CDS 45.0%
CTTCGGGTGGTATTCATGTT+TGG - Chr2:65301003-65301022 MsG0280010143.01.T01:CDS 45.0%
GCCGAAACTGGTGAAATCAA+AGG - Chr2:65300558-65300577 MsG0280010143.01.T01:CDS 45.0%
TATAAAGCACAGGCCGAAAC+TGG - Chr2:65300546-65300565 MsG0280010143.01.T01:CDS 45.0%
TCACAAGCAGCAGCTAATTC+AGG + Chr2:65301230-65301249 None:intergenic 45.0%
! AAAGCGTTACGTATGTCAGG+TGG - Chr2:65300816-65300835 MsG0280010143.01.T01:CDS 45.0%
! CAATTCGGTGGAGGAACTTT+AGG - Chr2:65301071-65301090 MsG0280010143.01.T01:CDS 45.0%
! GACTCCATTTGGTAGCTTCA+CGG + Chr2:65301208-65301227 None:intergenic 45.0%
! GCTAAAGCGTTACGTATGTC+AGG - Chr2:65300813-65300832 MsG0280010143.01.T01:CDS 45.0%
! TCTGTACTTCAATTCGGTGG+AGG - Chr2:65301062-65301081 MsG0280010143.01.T01:CDS 45.0%
!! AGGAACTTTAGGACACCCTT+GGG - Chr2:65301082-65301101 MsG0280010143.01.T01:CDS 45.0%
CCAAATATCTCGGTCAGAGC+AGG + Chr2:65301035-65301054 None:intergenic 50.0%
CCTGCTCTGACCGAGATATT+TGG - Chr2:65301032-65301051 MsG0280010143.01.T01:CDS 50.0%
GCTCACTATTGCCGCGATAA+TGG - Chr2:65300711-65300730 MsG0280010143.01.T01:CDS 50.0%
GGTGGAGATCATATTCACGC+TGG - Chr2:65300834-65300853 MsG0280010143.01.T01:CDS 50.0%
TAACTGCATGCATTGCACGG+TGG + Chr2:65300752-65300771 None:intergenic 50.0%
TGAATACCACCCGAAGCAAC+AGG + Chr2:65300999-65301018 None:intergenic 50.0%
! CAGAGCTACTCGATTCGCTA+CGG + Chr2:65301123-65301142 None:intergenic 50.0%
! TAGCTGCTGCTTGTGAAGTC+TGG - Chr2:65301234-65301253 MsG0280010143.01.T01:CDS 50.0%
! TGCTGCTTGTGAAGTCTGGA+AGG - Chr2:65301238-65301257 MsG0280010143.01.T01:CDS 50.0%
! TGGTGTTCTGCCTGTTGCTT+CGG - Chr2:65300986-65301005 MsG0280010143.01.T01:CDS 50.0%
!! GAGGAACTTTAGGACACCCT+TGG - Chr2:65301081-65301100 MsG0280010143.01.T01:CDS 50.0%
!! GGAACTTTAGGACACCCTTG+GGG - Chr2:65301083-65301102 MsG0280010143.01.T01:CDS 50.0%
ATCGCGGCAATAGTGAGCCA+AGG + Chr2:65300709-65300728 None:intergenic 55.0%
CACCAGGTGCATTTCCCCAA+GGG + Chr2:65301100-65301119 None:intergenic 55.0%
CGTAGCGAATCGAGTAGCTC+TGG - Chr2:65301121-65301140 MsG0280010143.01.T01:CDS 55.0%
GAAGCAACAGGCAGAACACC+AGG + Chr2:65300987-65301006 None:intergenic 55.0%
GGACGTGATCTTGCTCGTGA+GGG - Chr2:65301170-65301189 MsG0280010143.01.T01:CDS 55.0%
! GGTGTTCTGCCTGTTGCTTC+GGG - Chr2:65300987-65301006 MsG0280010143.01.T01:CDS 55.0%
CACCCTTGGGGAAATGCACC+TGG - Chr2:65301095-65301114 MsG0280010143.01.T01:CDS 60.0%
GCACCAGGTGCATTTCCCCA+AGG + Chr2:65301101-65301120 None:intergenic 60.0%
GGGACGTGATCTTGCTCGTG+AGG - Chr2:65301169-65301188 MsG0280010143.01.T01:CDS 60.0%
! ACTCGATTCGCTACGGCACC+AGG + Chr2:65301116-65301135 None:intergenic 60.0%
! GTTCTGCCTGTTGCTTCGGG+TGG - Chr2:65300990-65301009 MsG0280010143.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 65300504 65301298 65300504 ID=MsG0280010143.01;Name=MsG0280010143.01
Chr2 mRNA 65300504 65301298 65300504 ID=MsG0280010143.01.T01;Parent=MsG0280010143.01;Name=MsG0280010143.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|264
Chr2 exon 65300504 65301298 65300504 ID=MsG0280010143.01.T01:exon:56797;Parent=MsG0280010143.01.T01
Chr2 CDS 65300504 65301298 65300504 ID=MsG0280010143.01.T01:cds;Parent=MsG0280010143.01.T01
Gene Sequence

>MsG0280010143.01.T01

ATGCGTTGGAGAGACCGTTTCTTATTTTGTGCCGAAGCTATTTATAAAGCACAGGCCGAAACTGGTGAAATCAAAGGACATTATTTGAATGCTACTGCGGGCACAGTTGACGATATGATGAAAAGAGCTGTATTTGCTAGAGAATTGGGCGTGCCTATCGTAATGCATGACTACTTAACCGGTGGATTCACTGCAAATACTACCTTGGCTCACTATTGCCGCGATAATGGTCTACTTCTTCATATCCACCGTGCAATGCATGCAGTTATTGATAGACAGAAAAATCATGGTATGCACTTTCGTGTATTAGCTAAAGCGTTACGTATGTCAGGTGGAGATCATATTCACGCTGGTACTGTAGTAGGTAAACTGGAAGGAGAAAGGGATATTACTTTAGGTTTTGTTGATTTACTACGTGATGATTTTATTGAAAAAGATAGAAGTCGCGGTATTTTTTTCACTCAGGATTGGGTTTCTTTACCTGGTGTTCTGCCTGTTGCTTCGGGTGGTATTCATGTTTGGCATATGCCTGCTCTGACCGAGATATTTGGAGATGATTCTGTACTTCAATTCGGTGGAGGAACTTTAGGACACCCTTGGGGAAATGCACCTGGTGCCGTAGCGAATCGAGTAGCTCTGGAAGCATGTGTACAAGCTCGTAATGAGGGACGTGATCTTGCTCGTGAGGGTAATGAAATTATCCGTGAAGCTACCAAATGGAGTCCTGAATTAGCTGCTGCTTGTGAAGTCTGGAAGGAGATCAAATTTGAATTCCCAGCAATGGATACTATTTGA

Protein sequence

>MsG0280010143.01.T01

MRWRDRFLFCAEAIYKAQAETGEIKGHYLNATAGTVDDMMKRAVFARELGVPIVMHDYLTGGFTANTTLAHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRMSGGDHIHAGTVVGKLEGERDITLGFVDLLRDDFIEKDRSRGIFFTQDWVSLPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNEIIREATKWSPELAAACEVWKEIKFEFPAMDTI*