AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047616.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047616.01.T02 MTR_4g131540 99.569 232 1 0 5 236 3 234 4.61e-171 470
MsG0880047616.01.T02 MTR_4g131540 82.328 232 1 1 5 236 3 194 6.04e-130 365
MsG0880047616.01.T02 MTR_3g058560 67.606 71 20 2 42 110 44 113 6.55e-22 87.4
MsG0880047616.01.T01 MTR_4g131540 86.207 232 1 1 5 205 3 234 2.87e-141 394
MsG0880047616.01.T01 MTR_4g131540 68.966 232 1 2 5 205 3 194 4.54e-100 288
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047616.01.T02 AT5G13510 73.626 182 48 0 51 232 39 220 4.84e-102 295
MsG0880047616.01.T02 AT3G12370 59.589 146 57 1 68 211 15 160 9.56e-62 191
MsG0880047616.01.T01 AT5G13510 59.890 182 42 1 51 201 39 220 3.06e-75 226
MsG0880047616.01.T01 AT3G12370 59.615 104 42 0 77 180 57 160 3.20e-44 145

Find 51 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAACGAGTTTCGTTGTTTC+AGG 0.234422 8:-88817133 None:intergenic
TCTTTCTGAAAATCTCTATA+AGG 0.284478 8:-88817280 None:intergenic
GATGGATAAACGGTGGGTTT+TGG 0.306620 8:-88816972 None:intergenic
GAAAAGTCCTTCTTCTGCTT+TGG 0.317270 8:+88817432 MsG0880047616.01.T02:CDS
GGGTGGGTTGAATGGATTAA+TGG 0.321323 8:-88816924 None:intergenic
CGAGATTTATGCTAATTTGT+TGG 0.337443 8:+88817402 MsG0880047616.01.T02:CDS
AGAACTTATCATGGTTCTTA+AGG 0.338473 8:+88817480 MsG0880047616.01.T02:CDS
GAAGCCTTTGTAGTTGATTC+CGG 0.344742 8:-88817074 None:intergenic
GAAGCTTGAAGAACAGGAAC+AGG 0.372574 8:+88817513 MsG0880047616.01.T02:CDS
TATGATGTGGGTGGGTTGAA+TGG 0.376194 8:-88816932 None:intergenic
GGGTTAGTATTTGAAAAGAT+TGG 0.377643 8:-88816898 None:intergenic
GAGATTTATGCTAATTTGTT+GGG 0.387159 8:+88817403 MsG0880047616.01.T02:CDS
GCGTGAAATTGCGGCGTTGA+TGG 0.388449 8:-88816990 None:intergenic
TATTTGAAAAGATTGGGTTT+TGG 0.407544 8:-88816891 None:intergenic
TCAAGTTTCTTAAACTCGTC+AGG 0.408323 8:-88817361 None:intergenic
AAGTTCTTGAAATTGTTTAA+CGG 0.413631 8:-88817098 None:intergenic
TTGGTTTGTATGATGTGGGT+GGG 0.413650 8:-88816940 None:intergenic
TATTAAGAAGCTTGAAGAAC+AGG 0.423944 8:+88817507 MsG0880047616.01.T02:CDS
GGTTAGTATTTGAAAAGATT+GGG 0.435588 8:-88816897 None:intergenic
GGTCTTGGTTTGTATGATGT+GGG 0.456359 8:-88816944 None:intergenic
TTTACTGGTGCTGTGTTTGA+AGG 0.465847 8:+88817325 MsG0880047616.01.T02:CDS
TTTCTTTGTGCGTGAAATTG+CGG 0.473934 8:-88816999 None:intergenic
TTCTCTAGCAGGAGCTTGAA+TGG 0.482406 8:-88817461 None:intergenic
CTTGGTTTGTATGATGTGGG+TGG 0.491348 8:-88816941 None:intergenic
GGTTGAATGGATTAATGGGT+CGG 0.496024 8:-88816919 None:intergenic
TTGCGGCGTTGATGGATAAA+CGG 0.507344 8:-88816982 None:intergenic
GGGTCTTGGTTTGTATGATG+TGG 0.515588 8:-88816945 None:intergenic
TGCAGTTGCAGTAGCTTCCA+TGG 0.517404 8:-88816840 None:intergenic
AGCACTTGAAGGAACACAAT+GGG 0.519774 8:+88817180 MsG0880047616.01.T02:CDS
GGTGGGTTGAATGGATTAAT+GGG 0.520626 8:-88816923 None:intergenic
ACATTCATACCTGTCATACA+TGG 0.531583 8:-88817214 None:intergenic
TTGGTGTATAAAGCACTTGA+AGG 0.538624 8:+88817169 MsG0880047616.01.T02:CDS
TCCTGCTAGAGAACTTATCA+TGG 0.541437 8:+88817471 MsG0880047616.01.T02:CDS
GTTGAATGGATTAATGGGTC+GGG 0.546717 8:-88816918 None:intergenic
AATAGCAGAAGGAATCTCTT+CGG 0.548948 8:-88817254 None:intergenic
ACCATGATAAGTTCTCTAGC+AGG 0.549644 8:-88817472 None:intergenic
GGCGTTGATGGATAAACGGT+GGG 0.563964 8:-88816978 None:intergenic
CTATAAGGCTTAATAGCAGA+AGG 0.564004 8:-88817265 None:intergenic
GTAGTAACCAAAGCAGAAGA+AGG 0.565336 8:-88817439 None:intergenic
TGTAGTTGATTCCGGCGAGA+AGG 0.569893 8:-88817066 None:intergenic
ACGCTGAAACCATGTATGAC+AGG 0.579109 8:+88817205 MsG0880047616.01.T02:CDS
GCATAAATCTCGCCGCGTGT+CGG 0.580599 8:-88817391 None:intergenic
GAAAACTGTTACCTTCTCGC+CGG 0.589832 8:+88817055 MsG0880047616.01.T02:CDS
TTACTGGTGCTGTGTTTGAA+GGG 0.603475 8:+88817326 MsG0880047616.01.T02:CDS
CGGCGTTGATGGATAAACGG+TGG 0.618873 8:-88816979 None:intergenic
CTTGAAACATTGCCGACACG+CGG 0.624834 8:+88817379 MsG0880047616.01.T02:CDS
AAGCTTGAAGAACAGGAACA+GGG 0.635295 8:+88817514 MsG0880047616.01.T02:CDS
CGTTGTTGCAAAGAACACAT+TGG 0.653227 8:+88817150 MsG0880047616.01.T02:CDS
AAGCACTTGAAGGAACACAA+TGG 0.664659 8:+88817179 MsG0880047616.01.T02:CDS
CTCGCCGGAATCAACTACAA+AGG 0.670751 8:+88817070 MsG0880047616.01.T02:CDS
GTATGACAGGTATGAATGTG+TGG 0.676357 8:+88817218 MsG0880047616.01.T02:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTTCTTGAAATTGTTTAA+CGG - Chr8:88817101-88817120 None:intergenic 20.0%
! GGTTAGTATTTGAAAAGATT+GGG - Chr8:88816900-88816919 None:intergenic 25.0%
!! TATTTGAAAAGATTGGGTTT+TGG - Chr8:88816894-88816913 None:intergenic 25.0%
!! TCTTTCTGAAAATCTCTATA+AGG - Chr8:88817283-88817302 None:intergenic 25.0%
!!! GAGATTTATGCTAATTTGTT+GGG + Chr8:88817403-88817422 MsG0880047616.01.T02:CDS 25.0%
AGAACTTATCATGGTTCTTA+AGG + Chr8:88817480-88817499 MsG0880047616.01.T02:CDS 30.0%
TATTAAGAAGCTTGAAGAAC+AGG + Chr8:88817507-88817526 MsG0880047616.01.T02:CDS 30.0%
! CGAGATTTATGCTAATTTGT+TGG + Chr8:88817402-88817421 MsG0880047616.01.T02:CDS 30.0%
! CTTGAAGAGAATGATTTTAC+TGG + Chr8:88817310-88817329 MsG0880047616.01.T02:CDS 30.0%
! GGGTTAGTATTTGAAAAGAT+TGG - Chr8:88816901-88816920 None:intergenic 30.0%
! GTGTTTGAAGGGAAATTTTA+TGG + Chr8:88817337-88817356 MsG0880047616.01.T02:CDS 30.0%
!! GTTTTCAAGCTGTTCTTTTA+CGG - Chr8:88817041-88817060 None:intergenic 30.0%
AATAGCAGAAGGAATCTCTT+CGG - Chr8:88817257-88817276 None:intergenic 35.0%
ACATTCATACCTGTCATACA+TGG - Chr8:88817217-88817236 None:intergenic 35.0%
CTATAAGGCTTAATAGCAGA+AGG - Chr8:88817268-88817287 None:intergenic 35.0%
TCAAGTTTCTTAAACTCGTC+AGG - Chr8:88817364-88817383 None:intergenic 35.0%
TTTCTTTGTGCGTGAAATTG+CGG - Chr8:88817002-88817021 None:intergenic 35.0%
! TTGGTGTATAAAGCACTTGA+AGG + Chr8:88817169-88817188 MsG0880047616.01.T02:CDS 35.0%
!! TTGAAAAGATTGGGTTTTGG+TGG - Chr8:88816891-88816910 None:intergenic 35.0%
AAGCACTTGAAGGAACACAA+TGG + Chr8:88817179-88817198 MsG0880047616.01.T02:CDS 40.0%
AAGCTTGAAGAACAGGAACA+GGG + Chr8:88817514-88817533 MsG0880047616.01.T02:CDS 40.0%
ACCATGATAAGTTCTCTAGC+AGG - Chr8:88817475-88817494 None:intergenic 40.0%
AGCACTTGAAGGAACACAAT+GGG + Chr8:88817180-88817199 MsG0880047616.01.T02:CDS 40.0%
CGTTGTTGCAAAGAACACAT+TGG + Chr8:88817150-88817169 MsG0880047616.01.T02:CDS 40.0%
GAAAAGTCCTTCTTCTGCTT+TGG + Chr8:88817432-88817451 MsG0880047616.01.T02:CDS 40.0%
GTAGTAACCAAAGCAGAAGA+AGG - Chr8:88817442-88817461 None:intergenic 40.0%
GTATGACAGGTATGAATGTG+TGG + Chr8:88817218-88817237 MsG0880047616.01.T02:CDS 40.0%
TCCTGCTAGAGAACTTATCA+TGG + Chr8:88817471-88817490 MsG0880047616.01.T02:CDS 40.0%
! ACAACGAGTTTCGTTGTTTC+AGG - Chr8:88817136-88817155 None:intergenic 40.0%
! GAAGCCTTTGTAGTTGATTC+CGG - Chr8:88817077-88817096 None:intergenic 40.0%
!! AAAGATTGGGTTTTGGTGGA+TGG - Chr8:88816887-88816906 None:intergenic 40.0%
!! GGTCTTGGTTTGTATGATGT+GGG - Chr8:88816947-88816966 None:intergenic 40.0%
!! GGTGGGTTGAATGGATTAAT+GGG - Chr8:88816926-88816945 None:intergenic 40.0%
!! GGTTGAATGGATTAATGGGT+CGG - Chr8:88816922-88816941 None:intergenic 40.0%
!! GTTGAATGGATTAATGGGTC+GGG - Chr8:88816921-88816940 None:intergenic 40.0%
!! TTACTGGTGCTGTGTTTGAA+GGG + Chr8:88817326-88817345 MsG0880047616.01.T02:CDS 40.0%
!! TTGGTTTGTATGATGTGGGT+GGG - Chr8:88816943-88816962 None:intergenic 40.0%
!! TTTACTGGTGCTGTGTTTGA+AGG + Chr8:88817325-88817344 MsG0880047616.01.T02:CDS 40.0%
!!! AAACGGTGGGTTTTGGAAAT+GGG - Chr8:88816968-88816987 None:intergenic 40.0%
!!! TAAACGGTGGGTTTTGGAAA+TGG - Chr8:88816969-88816988 None:intergenic 40.0%
ACGCTGAAACCATGTATGAC+AGG + Chr8:88817205-88817224 MsG0880047616.01.T02:CDS 45.0%
GAAAACTGTTACCTTCTCGC+CGG + Chr8:88817055-88817074 MsG0880047616.01.T02:CDS 45.0%
GAAGCTTGAAGAACAGGAAC+AGG + Chr8:88817513-88817532 MsG0880047616.01.T02:CDS 45.0%
TTCTCTAGCAGGAGCTTGAA+TGG - Chr8:88817464-88817483 None:intergenic 45.0%
!! CTTGGTTTGTATGATGTGGG+TGG - Chr8:88816944-88816963 None:intergenic 45.0%
!! GATGGATAAACGGTGGGTTT+TGG - Chr8:88816975-88816994 None:intergenic 45.0%
!! GGGTCTTGGTTTGTATGATG+TGG - Chr8:88816948-88816967 None:intergenic 45.0%
!! GGGTGGGTTGAATGGATTAA+TGG - Chr8:88816927-88816946 None:intergenic 45.0%
!! TATGATGTGGGTGGGTTGAA+TGG - Chr8:88816935-88816954 None:intergenic 45.0%
!! TTGCGGCGTTGATGGATAAA+CGG - Chr8:88816985-88817004 None:intergenic 45.0%
!!! TGGGTTTTGGAAATGGGTCT+TGG - Chr8:88816962-88816981 None:intergenic 45.0%
CTCGCCGGAATCAACTACAA+AGG + Chr8:88817070-88817089 MsG0880047616.01.T02:CDS 50.0%
CTTGAAACATTGCCGACACG+CGG + Chr8:88817379-88817398 MsG0880047616.01.T02:CDS 50.0%
! TGTAGTTGATTCCGGCGAGA+AGG - Chr8:88817069-88817088 None:intergenic 50.0%
!! GGCGTTGATGGATAAACGGT+GGG - Chr8:88816981-88817000 None:intergenic 50.0%
GCATAAATCTCGCCGCGTGT+CGG - Chr8:88817394-88817413 None:intergenic 55.0%
! GCGTGAAATTGCGGCGTTGA+TGG - Chr8:88816993-88817012 None:intergenic 55.0%
!! CGGCGTTGATGGATAAACGG+TGG - Chr8:88816982-88817001 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 88816842 88817552 88816842 ID=MsG0880047616.01;Name=MsG0880047616.01
Chr8 mRNA 88816842 88817552 88816842 ID=MsG0880047616.01.T01;Parent=MsG0880047616.01;Name=MsG0880047616.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|205
Chr8 exon 88816842 88817069 88816842 ID=MsG0880047616.01.T01:exon:38451;Parent=MsG0880047616.01.T01
Chr8 exon 88817163 88817552 88817163 ID=MsG0880047616.01.T01:exon:38452;Parent=MsG0880047616.01.T01
Chr8 CDS 88816842 88817069 88816842 ID=MsG0880047616.01.T01:cds;Parent=MsG0880047616.01.T01
Chr8 CDS 88817163 88817552 88817163 ID=MsG0880047616.01.T01:cds;Parent=MsG0880047616.01.T01
Chr8 mRNA 88816842 88817552 88816842 ID=MsG0880047616.01.T02;Parent=MsG0880047616.01;Name=MsG0880047616.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|236
Chr8 exon 88816842 88817552 88816842 ID=MsG0880047616.01.T02:exon:38453;Parent=MsG0880047616.01.T02
Chr8 CDS 88816842 88817552 88816842 ID=MsG0880047616.01.T02:cds;Parent=MsG0880047616.01.T02
Chr8 mRNA 88817320 88817433 88817320 ID=MsG0880047616.01.T03;Parent=MsG0880047616.01;Name=MsG0880047616.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|37
Chr8 exon 88817320 88817433 88817320 ID=MsG0880047616.01.T03:exon:38454;Parent=MsG0880047616.01.T03
Chr8 CDS 88817320 88817433 88817320 ID=MsG0880047616.01.T03:cds;Parent=MsG0880047616.01.T03
Gene Sequence

>MsG0880047616.01.T03

ATGATTTTACTGGTGCTGTGTTTGAAGGGAAATTTTATGGTCCTGACGAGTTTAAGAAACTTGAAACATTGCCGACACGCGGCGAGATTTATGCTAATTTGTTGGGTTCTTTGA

>MsG0880047616.01.T02

ATGGAAGCTACTGCAACTGCAACTCTACTCAGCTTTTCACTTCCATCCACCAAAACCCAATCTTTTCAAATACTAACCCGACCCATTAATCCATTCAACCCACCCACATCATACAAACCAAGACCCATTTCCAAAACCCACCGTTTATCCATCAACGCCGCAATTTCACGCACAAAGAAAGAAGAAACAGTTGAAACCGTAAAAGAACAGCTTGAAAACTGTTACCTTCTCGCCGGAATCAACTACAAAGGCTTCACCGTTAAACAATTTCAAGAACTTAGAAAAACTCTTCCTGAAACAACGAAACTCGTTGTTGCAAAGAACACATTGGTGTATAAAGCACTTGAAGGAACACAATGGGAGACGCTGAAACCATGTATGACAGGTATGAATGTGTGGTTGTTTGTTCATACCGAAGAGATTCCTTCTGCTATTAAGCCTTATAGAGATTTTCAGAAAGAGAAGAAGCTTGAAGAGAATGATTTTACTGGTGCTGTGTTTGAAGGGAAATTTTATGGTCCTGACGAGTTTAAGAAACTTGAAACATTGCCGACACGCGGCGAGATTTATGCTAATTTGTTGGGTTCTTTGAAAAGTCCTTCTTCTGCTTTGGTTACTACCATTCAAGCTCCTGCTAGAGAACTTATCATGGTTCTTAAGGCACATATTAAGAAGCTTGAAGAACAGGAACAGGGTAGTGCTGTTCTATAG

>MsG0880047616.01.T01

ATGGAAGCTACTGCAACTGCAACTCTACTCAGCTTTTCACTTCCATCCACCAAAACCCAATCTTTTCAAATACTAACCCGACCCATTAATCCATTCAACCCACCCACATCATACAAACCAAGACCCATTTCCAAAACCCACCGTTTATCCATCAACGCCGCAATTTCACGCACAAAGAAAGAAGAAACAGTTGAAACCGTAAAAGAACAGCTTGAAAACTGTTACCTTAACACATTGGTGTATAAAGCACTTGAAGGAACACAATGGGAGACGCTGAAACCATGTATGACAGGTATGAATGTGTGGTTGTTTGTTCATACCGAAGAGATTCCTTCTGCTATTAAGCCTTATAGAGATTTTCAGAAAGAGAAGAAGCTTGAAGAGAATGATTTTACTGGTGCTGTGTTTGAAGGGAAATTTTATGGTCCTGACGAGTTTAAGAAACTTGAAACATTGCCGACACGCGGCGAGATTTATGCTAATTTGTTGGGTTCTTTGAAAAGTCCTTCTTCTGCTTTGGTTACTACCATTCAAGCTCCTGCTAGAGAACTTATCATGGTTCTTAAGGCACATATTAAGAAGCTTGAAGAACAGGAACAGGGTAGTGCTGTTCTATAG

Protein sequence

>MsG0880047616.01.T03

MILLVLCLKGNFMVLTSLRNLKHCRHAARFMLICWVL*

>MsG0880047616.01.T02

MEATATATLLSFSLPSTKTQSFQILTRPINPFNPPTSYKPRPISKTHRLSINAAISRTKKEETVETVKEQLENCYLLAGINYKGFTVKQFQELRKTLPETTKLVVAKNTLVYKALEGTQWETLKPCMTGMNVWLFVHTEEIPSAIKPYRDFQKEKKLEENDFTGAVFEGKFYGPDEFKKLETLPTRGEIYANLLGSLKSPSSALVTTIQAPARELIMVLKAHIKKLEEQEQGSAVL*

>MsG0880047616.01.T01

MEATATATLLSFSLPSTKTQSFQILTRPINPFNPPTSYKPRPISKTHRLSINAAISRTKKEETVETVKEQLENCYLNTLVYKALEGTQWETLKPCMTGMNVWLFVHTEEIPSAIKPYRDFQKEKKLEENDFTGAVFEGKFYGPDEFKKLETLPTRGEIYANLLGSLKSPSSALVTTIQAPARELIMVLKAHIKKLEEQEQGSAVL*