AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene009568

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene009568.t1 MTR_1g105960 54.167 72 31 1 14 85 4 73 1.51e-18 74.3
MS.gene009568.t1 MTR_5g036670 48.235 85 36 2 5 82 31 114 1.69e-18 79.3
MS.gene009568.t1 MTR_6g008970 49.351 77 38 1 9 85 62 137 4.88e-18 77.8
MS.gene009568.t1 MTR_8g062700 51.351 74 35 1 9 82 41 113 3.22e-17 75.5
MS.gene009568.t1 MTR_8g062700 51.351 74 35 1 9 82 41 113 3.22e-17 75.5
MS.gene009568.t1 MTR_1g105955 52.857 70 32 1 9 78 94 162 1.64e-16 70.9
MS.gene009568.t1 MTR_1g105955 49.231 65 33 0 10 74 15 79 1.89e-14 65.5
MS.gene009568.t1 MTR_1g109550 43.373 83 40 2 2 78 1 82 4.65e-16 68.9
MS.gene009568.t1 MTR_8g062350 47.887 71 36 1 8 78 12 81 1.86e-15 68.6
MS.gene009568.t1 MTR_1g093310 48.101 79 34 2 2 80 1 72 1.25e-14 63.5
MS.gene009568.t1 MTR_3g006065 42.105 95 45 1 2 86 72 166 1.96e-14 65.5
MS.gene009568.t1 MTR_4g133300 52.239 67 32 0 14 80 175 241 6.33e-14 65.1
MS.gene009568.t1 MTR_4g133300 41.333 75 40 2 9 83 11 81 5.32e-11 57.4
MS.gene009568.t1 MTR_4g133470 52.239 67 32 0 14 80 175 241 7.39e-14 65.1
MS.gene009568.t1 MTR_4g133470 41.333 75 40 2 9 83 11 81 5.83e-11 57.4
MS.gene009568.t1 MTR_6g008995 45.833 72 38 1 10 81 37 107 1.01e-13 65.5
MS.gene009568.t1 MTR_1g104940 47.761 67 35 0 14 80 17 83 1.61e-13 61.6
MS.gene009568.t1 MTR_3g006150 55.882 68 28 2 10 76 90 156 1.79e-13 62.4
MS.gene009568.t1 MTR_3g006185 47.297 74 38 1 14 86 101 174 2.80e-13 62.4
MS.gene009568.t1 MTR_1g091047 53.030 66 29 2 9 73 8 72 3.86e-13 59.7
MS.gene009568.t1 MTR_2g097830 41.558 77 41 2 9 85 69 141 1.38e-12 60.5
MS.gene009568.t1 MTR_3g006125 43.243 74 41 1 14 86 183 256 2.24e-12 61.2
MS.gene009568.t1 MTR_1g100260 49.315 73 33 2 15 83 28 100 5.79e-12 57.8
MS.gene009568.t1 MTR_1g104960 50.000 64 32 0 17 80 19 82 1.17e-11 58.2
MS.gene009568.t1 MTR_1g104960 41.667 72 42 0 9 80 97 168 1.20e-11 58.2
MS.gene009568.t1 MTR_1g105010 43.478 69 39 0 14 82 19 87 1.42e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene009568.t1 AT1G24190 56.164 73 31 1 9 81 13 84 2.65e-20 84.3
MS.gene009568.t1 AT1G24190 56.164 73 31 1 9 81 13 84 3.03e-20 84.3
MS.gene009568.t1 AT1G24190 56.164 73 31 1 9 81 13 84 3.06e-20 84.3
MS.gene009568.t1 AT1G70060 51.948 77 36 1 9 85 13 88 1.24e-17 77.0
MS.gene009568.t1 AT1G70060 51.948 77 36 1 9 85 13 88 1.24e-17 77.0
MS.gene009568.t1 AT3G01320 51.389 72 34 1 9 80 56 126 3.54e-17 75.5
MS.gene009568.t1 AT3G01320 51.389 72 34 1 9 80 56 126 3.61e-17 75.5
MS.gene009568.t1 AT5G15020 50.685 73 35 1 9 81 51 122 3.98e-17 75.5
MS.gene009568.t1 AT5G15020 50.685 73 35 1 9 81 51 122 3.98e-17 75.5
MS.gene009568.t1 AT1G59890 50.000 72 35 1 10 81 45 115 1.26e-15 71.2
MS.gene009568.t1 AT1G59890 50.000 72 35 1 10 81 45 115 1.26e-15 71.2
MS.gene009568.t1 AT1G59890 50.000 72 35 1 10 81 45 115 1.26e-15 71.2
MS.gene009568.t1 AT1G59890 50.000 72 35 1 10 81 45 115 1.26e-15 71.2
MS.gene009568.t1 AT5G15025 49.315 73 36 1 9 81 46 117 2.94e-14 63.9
MS.gene009568.t1 AT1G70030 45.070 71 38 1 10 80 22 91 1.20e-13 62.4
MS.gene009568.t1 AT1G70030 45.070 71 38 1 10 80 22 91 3.50e-13 61.2
MS.gene009568.t1 AT1G70030 45.070 71 38 1 10 80 11 80 6.18e-13 61.2
MS.gene009568.t1 AT1G10450 44.872 78 41 2 3 80 78 153 1.18e-12 62.8
MS.gene009568.t1 AT1G10450 44.872 78 41 2 3 80 27 102 1.45e-12 62.4
MS.gene009568.t1 AT1G10450 44.872 78 41 2 3 80 27 102 1.45e-12 62.4
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 3.97e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.01e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.01e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.01e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.01e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.01e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 241 323 4.02e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.02e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.02e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.02e-12 61.2
MS.gene009568.t1 AT4G12020 42.353 85 47 2 10 94 308 390 4.02e-12 61.2
MS.gene009568.t1 AT5G15040 37.975 79 49 0 14 92 6 84 1.10e-11 56.2
MS.gene009568.t1 AT5G15040 37.975 79 49 0 14 92 6 84 1.10e-11 56.2
MS.gene009568.t1 AT5G15040 37.975 79 49 0 14 92 6 84 1.10e-11 56.2
MS.gene009568.t1 AT1G24200 45.714 70 37 1 9 78 13 81 1.27e-11 58.5

Find 23 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCATACTCACTTAATTT+TGG 0.125153 5.3:-62005439 MS.gene009568:CDS
CCAATGCATCGTCGCGGTTT+TGG 0.138304 5.3:+62005601 None:intergenic
AGAGTCAAGCAGCTGCTTAA+AGG 0.323406 5.3:-62005459 MS.gene009568:CDS
AGTATAATTTGATGTTCCTT+TGG 0.390609 5.3:+62005399 None:intergenic
GAGTCAAGCAGCTGCTTAAA+GGG 0.418662 5.3:-62005458 MS.gene009568:CDS
TAATTTGATGTTCCTTTGGC+AGG 0.455833 5.3:+62005403 None:intergenic
TGCATTGGCAGCGTTTCATA+AGG 0.456199 5.3:-62005586 MS.gene009568:CDS
ACCCTAGCCGGCGTCTGTAT+TGG 0.459475 5.3:-62005247 MS.gene009568:CDS
CCAAAACCGCGACGATGCAT+TGG 0.481999 5.3:-62005601 MS.gene009568:CDS
GCCAATACAGACGCCGGCTA+GGG 0.519629 5.3:+62005246 None:intergenic
TTGATGTTCCTTTGGCAGGA+AGG 0.538933 5.3:+62005407 None:intergenic
AAAACTCCTAAAAGATGTCA+AGG 0.541090 5.3:-62005514 MS.gene009568:CDS
GTCTGTGTTAATACCCTAGC+CGG 0.548624 5.3:-62005259 MS.gene009568:CDS
AGCCAATACAGACGCCGGCT+AGG 0.557910 5.3:+62005245 None:intergenic
CAAATTATACTTGAGACCAC+TGG 0.569052 5.3:-62005387 MS.gene009568:intron
AGCTGCGTTTCAAGATCAGA+GGG 0.585156 5.3:-62005556 MS.gene009568:CDS
AAGCTGCGTTTCAAGATCAG+AGG 0.599823 5.3:-62005557 MS.gene009568:CDS
CAGCTGCTTGACTCTTGCCG+CGG 0.614341 5.3:+62005467 None:intergenic
ATTCAACACCTTCCTGCCAA+AGG 0.618562 5.3:-62005415 MS.gene009568:CDS
ACAAAAGCCAATACAGACGC+CGG 0.647056 5.3:+62005240 None:intergenic
AATTTACACAAGAGATGCCG+CGG 0.649048 5.3:-62005484 MS.gene009568:CDS
ACGCTGCCAATGCATCGTCG+CGG 0.755650 5.3:+62005595 None:intergenic
GCTGCGTTTCAAGATCAGAG+GGG 0.802684 5.3:-62005555 MS.gene009568:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGCTATATATATAATTCTA+TGG - chr5.3:62005551-62005570 MS.gene009568:CDS 15.0%
! AATCATAAATTACTAACCAG+TGG + chr5.3:62005478-62005497 None:intergenic 25.0%
! AGTATAATTTGATGTTCCTT+TGG + chr5.3:62005450-62005469 None:intergenic 25.0%
AAAACTCCTAAAAGATGTCA+AGG - chr5.3:62005332-62005351 MS.gene009568:intron 30.0%
! TTTGATCCTTGACATCTTTT+AGG + chr5.3:62005341-62005360 None:intergenic 30.0%
CAAATTATACTTGAGACCAC+TGG - chr5.3:62005459-62005478 MS.gene009568:CDS 35.0%
TAATTTGATGTTCCTTTGGC+AGG + chr5.3:62005446-62005465 None:intergenic 35.0%
! AGGGCATACTCACTTAATTT+TGG - chr5.3:62005407-62005426 MS.gene009568:CDS 35.0%
! GGGCATACTCACTTAATTTT+GGG - chr5.3:62005408-62005427 MS.gene009568:CDS 35.0%
AATTTACACAAGAGATGCCG+CGG - chr5.3:62005362-62005381 MS.gene009568:intron 40.0%
AAGCTGCGTTTCAAGATCAG+AGG - chr5.3:62005289-62005308 MS.gene009568:intron 45.0%
ACAAAAGCCAATACAGACGC+CGG + chr5.3:62005609-62005628 None:intergenic 45.0%
AGAGTCAAGCAGCTGCTTAA+AGG - chr5.3:62005387-62005406 MS.gene009568:intron 45.0%
AGCTGCGTTTCAAGATCAGA+GGG - chr5.3:62005290-62005309 MS.gene009568:intron 45.0%
ATTCAACACCTTCCTGCCAA+AGG - chr5.3:62005431-62005450 MS.gene009568:CDS 45.0%
GAGTCAAGCAGCTGCTTAAA+GGG - chr5.3:62005388-62005407 MS.gene009568:CDS 45.0%
GTCTGTGTTAATACCCTAGC+CGG - chr5.3:62005587-62005606 MS.gene009568:CDS 45.0%
TTGATGTTCCTTTGGCAGGA+AGG + chr5.3:62005442-62005461 None:intergenic 45.0%
! TGCATTGGCAGCGTTTCATA+AGG - chr5.3:62005260-62005279 MS.gene009568:CDS 45.0%
!!! GCGTCTGTATTGGCTTTTGT+TGG - chr5.3:62005609-62005628 MS.gene009568:CDS 45.0%
GCTGCGTTTCAAGATCAGAG+GGG - chr5.3:62005291-62005310 MS.gene009568:intron 50.0%
! AATGCATCGTCGCGGTTTTG+GGG + chr5.3:62005246-62005265 None:intergenic 50.0%
! CAATGCATCGTCGCGGTTTT+GGG + chr5.3:62005247-62005266 None:intergenic 50.0%
CCAAAACCGCGACGATGCAT+TGG - chr5.3:62005245-62005264 MS.gene009568:CDS 55.0%
! CCAATGCATCGTCGCGGTTT+TGG + chr5.3:62005248-62005267 None:intergenic 55.0%
!! ATGCATCGTCGCGGTTTTGG+GGG + chr5.3:62005245-62005264 None:intergenic 55.0%
ACCCTAGCCGGCGTCTGTAT+TGG - chr5.3:62005599-62005618 MS.gene009568:CDS 60.0%
ACGCTGCCAATGCATCGTCG+CGG + chr5.3:62005254-62005273 None:intergenic 60.0%
CAGCTGCTTGACTCTTGCCG+CGG + chr5.3:62005382-62005401 None:intergenic 60.0%
! AGCCAATACAGACGCCGGCT+AGG + chr5.3:62005604-62005623 None:intergenic 60.0%
! GCCAATACAGACGCCGGCTA+GGG + chr5.3:62005603-62005622 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 62005231 62005637 62005231 ID=MS.gene009568
chr5.3 mRNA 62005231 62005637 62005231 ID=MS.gene009568.t1;Parent=MS.gene009568
chr5.3 exon 62005388 62005637 62005388 ID=MS.gene009568.t1.exon1;Parent=MS.gene009568.t1
chr5.3 CDS 62005388 62005637 62005388 ID=cds.MS.gene009568.t1;Parent=MS.gene009568.t1
chr5.3 exon 62005231 62005286 62005231 ID=MS.gene009568.t1.exon2;Parent=MS.gene009568.t1
chr5.3 CDS 62005231 62005286 62005231 ID=cds.MS.gene009568.t1;Parent=MS.gene009568.t1
Gene Sequence

>MS.gene009568

ATGATGAAGATCCCCCAAAACCGCGACGATGCATTGGCAGCGTTTCATAAGGCTGTACAAGCTGCGTTTCAAGATCAGAGGGGAGATTACAATGAGCTTTTAAAACTCCTAAAAGATGTCAAGGATCAAAGAATTTACACAAGAGATGCCGCGGCAAGAGTCAAGCAGCTGCTTAAAGGGCATACTCACTTAATTTTGGGATTCAACACCTTCCTGCCAAAGGAACATCAAATTATACTTGAGACCACTGGTTAGTAATTTATGATTATTGATTGCAGTTCTCATATCTTGATACTTTTCTGCAGTTATTATGACTTTTTTTGCTATATATATAATTCTATGGTGATGTAGTTGATGTCTGTGTTAATACCCTAGCCGGCGTCTGTATTGGCTTTTGTTGGTGTTAA
Protein sequence

>MS.gene009568.t1

MMKIPQNRDDALAAFHKAVQAAFQDQRGDYNELLKLLKDVKDQRIYTRDAAARVKQLLKGHTHLILGFNTFLPKEHQIILETTVDVCVNTLAGVCIGFCWC