AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071838

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071838.t1 MTR_2g035100 99.363 157 1 0 1 157 1 157 2.78e-109 308
MS.gene071838.t1 MTR_2g035105 98.089 157 3 0 1 157 1 157 6.21e-108 304
MS.gene071838.t1 MTR_2g035130 88.535 157 18 0 1 157 1 157 3.77e-97 277
MS.gene071838.t1 MTR_2g035150 84.713 157 24 0 1 157 1 157 2.16e-93 268
MS.gene071838.t1 MTR_2g035120 83.439 157 26 0 1 157 1 157 3.39e-93 267
MS.gene071838.t1 MTR_6g033450 71.975 157 44 0 1 157 1 157 2.05e-79 232
MS.gene071838.t1 MTR_4g120970 71.975 157 44 0 1 157 1 157 2.05e-79 232
MS.gene071838.t1 MTR_2g035320 65.605 157 54 0 1 157 1 157 2.70e-69 206
MS.gene071838.t1 MTR_2g035190 61.783 157 60 0 1 157 1 157 5.95e-66 198
MS.gene071838.t1 MTR_2g035210 61.146 157 61 0 1 157 1 157 9.49e-65 195
MS.gene071838.t1 MTR_2g035220 61.783 157 60 0 1 157 1 157 9.35e-64 192
MS.gene071838.t1 MTR_2g035170 59.873 157 63 0 1 157 1 157 4.41e-62 188
MS.gene071838.t1 MTR_2g435310 40.385 156 92 1 1 155 1 156 7.63e-39 129
MS.gene071838.t1 MTR_2g035320 63.542 96 35 0 62 157 27 122 4.89e-37 124
MS.gene071838.t1 MTR_4g120760 39.744 156 93 1 1 155 1 156 1.87e-36 123
MS.gene071838.t1 MTR_4g120760 39.744 156 93 1 1 155 1 156 2.13e-36 123
MS.gene071838.t1 MTR_4g120950 44.720 161 82 5 1 157 1 158 2.56e-33 115
MS.gene071838.t1 MTR_4g120940 62.500 88 30 1 70 157 35 119 2.42e-30 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 43 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACGAAAGTAAGTTTCTTGA+TGG 0.287513 2.2:+53800835 None:intergenic
AGCTATATGCTTTAGTAATC+AGG 0.289844 2.2:+53799563 None:intergenic
CCCTTGATTTCCTCTTCACT+TGG 0.329042 2.2:+53799644 None:intergenic
CTTCAACAATTTCAATACTT+TGG 0.342783 2.2:+53800876 None:intergenic
ATCAATAACCTTTGGGATAA+GGG 0.353978 2.2:+53800904 None:intergenic
GGATGGCATCAATAACCTTT+GGG 0.355456 2.2:+53800897 None:intergenic
ACTTGGTGCAGCATCACCTT+TGG 0.357443 2.2:+53799661 None:intergenic
GAGATCTTCTCCACAGTGTC+TGG 0.364866 2.2:+53799752 None:intergenic
TGGATGGCATCAATAACCTT+TGG 0.369451 2.2:+53800896 None:intergenic
AAGAAACTTACTTTCGTTGA+AGG 0.370871 2.2:-53800830 MS.gene071838:intron
GGCTCTTGAAGGTTACGTTT+TGG 0.372797 2.2:-53799591 MS.gene071838:CDS
CATCAATAACCTTTGGGATA+AGG 0.374566 2.2:+53800903 None:intergenic
CAAAGTATTGAAATTGTTGA+AGG 0.421501 2.2:-53800875 MS.gene071838:CDS
GCTTACAACTACAGCATAGT+TGG 0.432371 2.2:-53799788 MS.gene071838:CDS
CATGGGTGTCTTCAACTTTG+AGG 0.439280 2.2:-53800990 MS.gene071838:CDS
AACAATTTCAATACTTTGGA+TGG 0.439896 2.2:+53800880 None:intergenic
ATTGAAATTGTTGAAGGAAA+CGG 0.445615 2.2:-53800869 MS.gene071838:CDS
AAATCAAGGGTGGCAAAGCT+AGG 0.448601 2.2:-53799631 MS.gene071838:CDS
TTTGAGTCTAAATTGTCTGC+AGG 0.453113 2.2:-53799728 MS.gene071838:CDS
TTTGCAATGGATCCTCCATC+TGG 0.453770 2.2:+53799704 None:intergenic
TACAGCATAGTTGGTGGTGG+TGG 0.475041 2.2:-53799779 MS.gene071838:CDS
AGAGCTTTGTAAAGTCTAGC+AGG 0.480944 2.2:+53800944 None:intergenic
GGTGGCAAAGCTAGGGGTGA+TGG 0.489081 2.2:-53799623 MS.gene071838:CDS
AATCAAGGGTGGCAAAGCTA+GGG 0.491277 2.2:-53799630 MS.gene071838:CDS
ACCAAGTGAAGAGGAAATCA+AGG 0.498836 2.2:-53799645 MS.gene071838:CDS
GTTGAAGGAAACGGTGGTGC+TGG 0.507666 2.2:-53800860 MS.gene071838:CDS
AAAGTATGATTTGCACAAAG+TGG 0.527363 2.2:-53799834 MS.gene071838:CDS
TTTCACAGTAAGCTTTGCAA+TGG 0.527944 2.2:+53799691 None:intergenic
TGCAGACAATTTAGACTCAA+AGG 0.553148 2.2:+53799730 None:intergenic
AAATTGTCTGCAGGGCCAGA+TGG 0.558648 2.2:-53799719 MS.gene071838:CDS
TTCTGATACCCTTATCCCAA+AGG 0.569991 2.2:-53800912 MS.gene071838:CDS
TTGAGTCTAAATTGTCTGCA+GGG 0.579973 2.2:-53799727 MS.gene071838:CDS
TGATGCTGCACCAAGTGAAG+AGG 0.603594 2.2:-53799654 MS.gene071838:CDS
TTGTCTGCAGGGCCAGATGG+AGG 0.618761 2.2:-53799716 MS.gene071838:CDS
TACAACTACAGCATAGTTGG+TGG 0.619903 2.2:-53799785 MS.gene071838:CDS
AACTACAGCATAGTTGGTGG+TGG 0.623337 2.2:-53799782 MS.gene071838:CDS
ATCAAGGGTGGCAAAGCTAG+GGG 0.634094 2.2:-53799629 MS.gene071838:CDS
AGCAGGAGCTACAATAGATG+TGG 0.635518 2.2:+53800961 None:intergenic
ACTGTGAAATACTTCACCAA+AGG 0.653868 2.2:-53799677 MS.gene071838:CDS
CCAAGTGAAGAGGAAATCAA+GGG 0.664848 2.2:-53799644 MS.gene071838:CDS
AGTGAAGAGGAAATCAAGGG+TGG 0.695634 2.2:-53799641 MS.gene071838:CDS
GAAATTGTTGAAGGAAACGG+TGG 0.726108 2.2:-53800866 MS.gene071838:CDS
TGGTGGACTTCCAGACACTG+TGG 0.759361 2.2:-53799762 MS.gene071838:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAAACATTTTATTATACATA+GGG + chr2.2:53799811-53799830 None:intergenic 10.0%
!!! TTAAACATTTTATTATACAT+AGG + chr2.2:53799812-53799831 None:intergenic 10.0%
!! AAACTACAAATATAAGTATT+TGG + chr2.2:53800143-53800162 None:intergenic 15.0%
!!! ATATTGGATTTTTTTTTTGA+AGG - chr2.2:53800521-53800540 MS.gene071838:intron 15.0%
!!! TTGAAAAACAGTTTTTAAAT+AGG + chr2.2:53800377-53800396 None:intergenic 15.0%
!!! TTTTTGAAGGAATTATATAT+TGG - chr2.2:53800534-53800553 MS.gene071838:intron 15.0%
!! AAGATACATAACATAAATAG+TGG - chr2.2:53800209-53800228 MS.gene071838:intron 20.0%
!! ATACTTATATTTGTAGTTTC+AGG - chr2.2:53800144-53800163 MS.gene071838:intron 20.0%
!! CTACATTGAAATTTCATAAT+TGG + chr2.2:53799995-53800014 None:intergenic 20.0%
!! TAATATGTGAAAAATTGAAG+TGG - chr2.2:53799768-53799787 MS.gene071838:CDS 20.0%
!!! AAAATAATTTTACACCACAA+TGG + chr2.2:53800312-53800331 None:intergenic 20.0%
!!! AATTAACCGTCTTTATTTTA+AGG + chr2.2:53799874-53799893 None:intergenic 20.0%
!!! ACAGTTTTTTTTTTTTTGTC+AGG + chr2.2:53800400-53800419 None:intergenic 20.0%
!!! AGTTTTTAAATAGGCTTATT+TGG + chr2.2:53800368-53800387 None:intergenic 20.0%
!!! TTTTTACCGTAAAACAATAT+GGG - chr2.2:53800168-53800187 MS.gene071838:intron 20.0%
!!! TTTTTTACCGTAAAACAATA+TGG - chr2.2:53800167-53800186 MS.gene071838:intron 20.0%
! AACAAGAATCAACAATTTGA+TGG + chr2.2:53800466-53800485 None:intergenic 25.0%
! AACAATTTCAATACTTTGGA+TGG + chr2.2:53799686-53799705 None:intergenic 25.0%
! AATAACTATATCGATCGATT+TGG - chr2.2:53800027-53800046 MS.gene071838:intron 25.0%
! AATAGGCTTATTTGGTATTA+TGG + chr2.2:53800360-53800379 None:intergenic 25.0%
! ATTGAAATTGTTGAAGGAAA+CGG - chr2.2:53799694-53799713 MS.gene071838:CDS 25.0%
! CATTGAAATTTCATAATTGG+AGG + chr2.2:53799992-53800011 None:intergenic 25.0%
! CCATATCCTTAAAATAAAGA+CGG - chr2.2:53799865-53799884 MS.gene071838:intron 25.0%
! CTTCAACAATTTCAATACTT+TGG + chr2.2:53799690-53799709 None:intergenic 25.0%
! TATGTCTTTCTATGGTTTAA+TGG - chr2.2:53800282-53800301 MS.gene071838:intron 25.0%
!!! CAAAGTATTGAAATTGTTGA+AGG - chr2.2:53799688-53799707 MS.gene071838:CDS 25.0%
!!! TTGTTTCCCATATTGTTTTA+CGG + chr2.2:53800177-53800196 None:intergenic 25.0%
AAACCATAGAAAGACATAGA+TGG + chr2.2:53800280-53800299 None:intergenic 30.0%
AACGAAAGTAAGTTTCTTGA+TGG + chr2.2:53799731-53799750 None:intergenic 30.0%
AAGAAACTTACTTTCGTTGA+AGG - chr2.2:53799733-53799752 MS.gene071838:CDS 30.0%
ATACTAGAGCATGTTTAAGA+TGG - chr2.2:53799915-53799934 MS.gene071838:intron 30.0%
TTACCATCTATGTCTTTCTA+TGG - chr2.2:53800274-53800293 MS.gene071838:intron 30.0%
TTTCACAATCACAAACATCA+TGG + chr2.2:53800681-53800700 None:intergenic 30.0%
! AAAGTATGATTTGCACAAAG+TGG - chr2.2:53800729-53800748 MS.gene071838:intron 30.0%
! TACTAGAGCATGTTTAAGAT+GGG - chr2.2:53799916-53799935 MS.gene071838:intron 30.0%
!! ATCAATAACCTTTGGGATAA+GGG + chr2.2:53799662-53799681 None:intergenic 30.0%
!!! CCGTCTTTATTTTAAGGATA+TGG + chr2.2:53799868-53799887 None:intergenic 30.0%
ACTGTGAAATACTTCACCAA+AGG - chr2.2:53800886-53800905 MS.gene071838:CDS 35.0%
ATGAGATTACTCTCAACATG+CGG - chr2.2:53800114-53800133 MS.gene071838:intron 35.0%
GAAACGTATCAATTATGTGC+AGG - chr2.2:53800697-53800716 MS.gene071838:intron 35.0%
GAATTGTCATAGTTGTCACA+CGG + chr2.2:53800336-53800355 None:intergenic 35.0%
GGAGATCACTTAGTTCAATT+AGG + chr2.2:53800660-53800679 None:intergenic 35.0%
TGCAGACAATTTAGACTCAA+AGG + chr2.2:53800836-53800855 None:intergenic 35.0%
TGCATGCAGTGAAAATTGTA+TGG + chr2.2:53799843-53799862 None:intergenic 35.0%
TTGAGTCTAAATTGTCTGCA+GGG - chr2.2:53800836-53800855 MS.gene071838:CDS 35.0%
TTTCACAGTAAGCTTTGCAA+TGG + chr2.2:53800875-53800894 None:intergenic 35.0%
TTTGAGTCTAAATTGTCTGC+AGG - chr2.2:53800835-53800854 MS.gene071838:CDS 35.0%
!! CATCAATAACCTTTGGGATA+AGG + chr2.2:53799663-53799682 None:intergenic 35.0%
ACCAAGTGAAGAGGAAATCA+AGG - chr2.2:53800918-53800937 MS.gene071838:CDS 40.0%
ACGTATCAATTATGTGCAGG+TGG - chr2.2:53800700-53800719 MS.gene071838:intron 40.0%
CCAAGTGAAGAGGAAATCAA+GGG - chr2.2:53800919-53800938 MS.gene071838:CDS 40.0%
GAAATTGTTGAAGGAAACGG+TGG - chr2.2:53799697-53799716 MS.gene071838:CDS 40.0%
GCTTACAACTACAGCATAGT+TGG - chr2.2:53800775-53800794 MS.gene071838:intron 40.0%
GGATGGCATCAATAACCTTT+GGG + chr2.2:53799669-53799688 None:intergenic 40.0%
GGTTTAATGGAGATCCATTG+TGG - chr2.2:53800295-53800314 MS.gene071838:intron 40.0%
TACAACTACAGCATAGTTGG+TGG - chr2.2:53800778-53800797 MS.gene071838:intron 40.0%
TGGATGGCATCAATAACCTT+TGG + chr2.2:53799670-53799689 None:intergenic 40.0%
TGTTGAGAGTAATCTCATCG+TGG + chr2.2:53800112-53800131 None:intergenic 40.0%
TTCTGATACCCTTATCCCAA+AGG - chr2.2:53799651-53799670 MS.gene071838:CDS 40.0%
! AGAGCTTTGTAAAGTCTAGC+AGG + chr2.2:53799622-53799641 None:intergenic 40.0%
AAATCAAGGGTGGCAAAGCT+AGG - chr2.2:53800932-53800951 MS.gene071838:CDS 45.0%
AATCAAGGGTGGCAAAGCTA+GGG - chr2.2:53800933-53800952 MS.gene071838:CDS 45.0%
AGCAGGAGCTACAATAGATG+TGG + chr2.2:53799605-53799624 None:intergenic 45.0%
AGTGAAGAGGAAATCAAGGG+TGG - chr2.2:53800922-53800941 MS.gene071838:CDS 45.0%
CCCTTGATTTCCTCTTCACT+TGG + chr2.2:53800922-53800941 None:intergenic 45.0%
TTTGCAATGGATCCTCCATC+TGG + chr2.2:53800862-53800881 None:intergenic 45.0%
! CATGTTTAAGATGGGTCGAC+TGG - chr2.2:53799924-53799943 MS.gene071838:intron 45.0%
! GGCTCTTGAAGGTTACGTTT+TGG - chr2.2:53800972-53800991 MS.gene071838:CDS 45.0%
!! AACTACAGCATAGTTGGTGG+TGG - chr2.2:53800781-53800800 MS.gene071838:intron 45.0%
!! GGTCTTTTCAAGGCTCTTGA+AGG - chr2.2:53800961-53800980 MS.gene071838:CDS 45.0%
!! TAGGGGTGATGGTCTTTTCA+AGG - chr2.2:53800951-53800970 MS.gene071838:CDS 45.0%
!! AATATATAATAAAATAAAAG+AGG + chr2.2:53800506-53800525 None:intergenic 5.0%
!! ATATATAATAAAATAAAAGA+GGG + chr2.2:53800505-53800524 None:intergenic 5.0%
!!! TCTTTTATTTTATTATATAT+TGG - chr2.2:53800505-53800524 MS.gene071838:intron 5.0%
AAATTGTCTGCAGGGCCAGA+TGG - chr2.2:53800844-53800863 MS.gene071838:CDS 50.0%
ATCAAGGGTGGCAAAGCTAG+GGG - chr2.2:53800934-53800953 MS.gene071838:CDS 50.0%
GAGATCTTCTCCACAGTGTC+TGG + chr2.2:53800814-53800833 None:intergenic 50.0%
TGATGCTGCACCAAGTGAAG+AGG - chr2.2:53800909-53800928 MS.gene071838:CDS 50.0%
!! ACTTGGTGCAGCATCACCTT+TGG + chr2.2:53800905-53800924 None:intergenic 50.0%
!! TACAGCATAGTTGGTGGTGG+TGG - chr2.2:53800784-53800803 MS.gene071838:intron 50.0%
GTTGAAGGAAACGGTGGTGC+TGG - chr2.2:53799703-53799722 MS.gene071838:CDS 55.0%
!! TGGTGGACTTCCAGACACTG+TGG - chr2.2:53800801-53800820 MS.gene071838:intron 55.0%
GGTGGCAAAGCTAGGGGTGA+TGG - chr2.2:53800940-53800959 MS.gene071838:CDS 60.0%
TTGTCTGCAGGGCCAGATGG+AGG - chr2.2:53800847-53800866 MS.gene071838:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53799574 53801011 53799574 ID=MS.gene071838
chr2.2 mRNA 53799574 53801011 53799574 ID=MS.gene071838.t1;Parent=MS.gene071838
chr2.2 exon 53800831 53801011 53800831 ID=MS.gene071838.t1.exon1;Parent=MS.gene071838.t1
chr2.2 CDS 53800831 53801011 53800831 ID=cds.MS.gene071838.t1;Parent=MS.gene071838.t1
chr2.2 exon 53799574 53799866 53799574 ID=MS.gene071838.t1.exon2;Parent=MS.gene071838.t1
chr2.2 CDS 53799574 53799866 53799574 ID=cds.MS.gene071838.t1;Parent=MS.gene071838.t1
Gene Sequence

>MS.gene071838

ATGGGTGTCTTCAACTTTGAGGATGAAACCACATCTATTGTAGCTCCTGCTAGACTTTACAAAGCTCTAGTTACAGATTCTGATACCCTTATCCCAAAGGTTATTGATGCCATCCAAAGTATTGAAATTGTTGAAGGAAACGGTGGTGCTGGAACCATCAAGAAACTTACTTTCGTTGAAGGTTAGTATATATATAATATGTGAAAAATTGAAGTGGCAAGAAACTTTTTTTAACCCTATGTATAATAAAATGTTTAAAAACAAATCCATACAATTTTCACTGCATGCAATCCATATCCTTAAAATAAAGACGGTTAATTTAATTTTTTTTTTATCTAAATATACTAGAGCATGTTTAAGATGGGTCGACTGGTTTGAGAATATAGTTTTTATTACAAAATTAGTTATTACTTTACCTCCAATTATGAAATTTCAATGTAGTGTTAGAAGAAGAATAACTATATCGATCGATTTGGTTGACAATTTAACAAAAGTTGCATATTACAGTAAATATCTACTTAGCATACGTTTGAAACCACGATGAGATTACTCTCAACATGCGGCTACCAAATACTTATATTTGTAGTTTCAGGTTTTTTACCGTAAAACAATATGGGAAACAAGTATTAAGAATTAAGATACATAACATAAATAGTGGAAGTCAACAAAGCACATGAAAATATTCTTTTGATGACATCATTTACCATCTATGTCTTTCTATGGTTTAATGGAGATCCATTGTGGTGTAAAATTATTTTACCGTGTGACAACTATGACAATTCACCATAATACCAAATAAGCCTATTTAAAAACTGTTTTTCAACCTGACAAAAAAAAAAAAACTGTTTCTCAAAACATGACAAAAAAAAAACTGTTTTTTTAAAAGTAACCATCAAATTGTTGATTCTTGTTGATTGTCAAGTGCATACCCTCTTTTATTTTATTATATATTGGATTTTTTTTTTGAAGGAATTATATATTGGATTATTTGTTACTATGTGTTATATATATATATTTTTTTTATGAGAAACAGTAAATTTTTTAAAATTATTTTGAATAGCTTCTTTTACAAATTTTTAATAACCTAATTGAACTAAGTGATCTCCATGATGTTTGTGATTGTGAAACGTATCAATTATGTGCAGGTGGTGAAACAAAGTATGATTTGCACAAAGTGGACTTAGTAGATGATGTTAACTTTGCTTACAACTACAGCATAGTTGGTGGTGGTGGACTTCCAGACACTGTGGAGAAGATCTCCTTTGAGTCTAAATTGTCTGCAGGGCCAGATGGAGGATCCATTGCAAAGCTTACTGTGAAATACTTCACCAAAGGTGATGCTGCACCAAGTGAAGAGGAAATCAAGGGTGGCAAAGCTAGGGGTGATGGTCTTTTCAAGGCTCTTGAAGGTTACGTTTTGGCAAATCCTGATTACTAA
Protein sequence

>MS.gene071838.t1

MGVFNFEDETTSIVAPARLYKALVTDSDTLIPKVIDAIQSIEIVEGNGGAGTIKKLTFVEGGETKYDLHKVDLVDDVNFAYNYSIVGGGGLPDTVEKISFESKLSAGPDGGSIAKLTVKYFTKGDAAPSEEEIKGGKARGDGLFKALEGYVLANPDY