AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71753

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71753.t1 MTR_5g036670 49.412 85 35 2 4 81 31 114 4.25e-18 78.6
MS.gene71753.t1 MTR_1g105960 52.778 72 32 1 13 84 4 73 1.27e-16 69.7
MS.gene71753.t1 MTR_8g062700 51.351 74 35 1 8 81 41 113 4.63e-16 72.8
MS.gene71753.t1 MTR_8g062700 51.351 74 35 1 8 81 41 113 4.63e-16 72.8
MS.gene71753.t1 MTR_1g105955 52.308 65 31 0 13 77 98 162 2.39e-15 68.6
MS.gene71753.t1 MTR_1g105955 47.692 65 34 0 9 73 15 79 2.53e-12 60.5
MS.gene71753.t1 MTR_6g008970 46.753 77 40 1 8 84 62 137 1.59e-14 68.6
MS.gene71753.t1 MTR_8g062350 46.575 73 38 1 7 79 12 83 1.87e-14 66.2
MS.gene71753.t1 MTR_1g109550 41.667 84 42 2 1 78 1 83 2.75e-14 64.7
MS.gene71753.t1 MTR_4g133300 53.731 67 31 0 13 79 175 241 4.93e-14 65.9
MS.gene71753.t1 MTR_4g133470 53.731 67 31 0 13 79 175 241 5.30e-14 65.9
MS.gene71753.t1 MTR_3g006065 41.441 111 51 4 1 98 72 181 1.03e-13 64.3
MS.gene71753.t1 MTR_3g006150 57.353 68 27 2 9 75 90 156 2.81e-13 62.4
MS.gene71753.t1 MTR_3g006185 47.945 73 37 1 13 84 101 173 3.38e-13 62.8
MS.gene71753.t1 MTR_1g105010 46.377 69 37 0 13 81 19 87 8.13e-13 60.5
MS.gene71753.t1 MTR_1g091047 53.030 66 29 2 8 72 8 72 1.33e-12 58.5
MS.gene71753.t1 MTR_6g008995 44.444 72 39 1 9 80 37 107 1.73e-12 62.4
MS.gene71753.t1 MTR_3g006010 46.479 71 38 0 9 79 8 78 2.04e-12 62.4
MS.gene71753.t1 MTR_1g093310 46.835 79 35 2 1 79 1 72 2.94e-12 57.8
MS.gene71753.t1 MTR_3g006125 45.205 73 39 1 13 84 183 255 4.10e-12 60.8
MS.gene71753.t1 MTR_1g104960 51.562 64 31 0 16 79 19 82 6.54e-12 59.3
MS.gene71753.t1 MTR_1g104940 47.761 67 35 0 13 79 17 83 1.18e-11 57.4
MS.gene71753.t1 MTR_1g100260 48.000 75 31 3 14 82 28 100 1.84e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71753.t1 AT1G24190 53.425 73 33 1 8 80 13 84 9.29e-18 77.8
MS.gene71753.t1 AT1G24190 53.425 73 33 1 8 80 13 84 1.01e-17 77.8
MS.gene71753.t1 AT1G24190 53.425 73 33 1 8 80 13 84 1.06e-17 77.8
MS.gene71753.t1 AT1G70060 51.948 77 36 1 8 84 13 88 3.95e-16 73.2
MS.gene71753.t1 AT1G70060 51.948 77 36 1 8 84 13 88 3.95e-16 73.2
MS.gene71753.t1 AT5G15020 49.315 73 36 1 8 80 51 122 4.31e-15 70.1
MS.gene71753.t1 AT5G15020 49.315 73 36 1 8 80 51 122 4.49e-15 70.1
MS.gene71753.t1 AT3G01320 48.611 72 36 1 8 79 56 126 1.06e-14 68.9
MS.gene71753.t1 AT3G01320 48.611 72 36 1 8 79 56 126 1.07e-14 68.9
MS.gene71753.t1 AT1G59890 50.000 72 35 1 9 80 45 115 1.54e-14 68.6
MS.gene71753.t1 AT1G59890 50.000 72 35 1 9 80 45 115 1.56e-14 68.6
MS.gene71753.t1 AT1G59890 50.000 72 35 1 9 80 45 115 1.68e-14 68.6
MS.gene71753.t1 AT1G59890 50.000 72 35 1 9 80 45 115 1.70e-14 68.6
MS.gene71753.t1 AT1G10450 49.296 71 35 1 9 79 84 153 1.53e-13 65.9
MS.gene71753.t1 AT1G10450 49.296 71 35 1 9 79 33 102 1.98e-13 65.5
MS.gene71753.t1 AT1G10450 49.296 71 35 1 9 79 33 102 1.98e-13 65.5
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.14e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 241 309 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT4G12020 47.887 71 35 2 9 79 308 376 1.15e-12 63.2
MS.gene71753.t1 AT1G70030 42.254 71 40 1 9 79 22 91 6.05e-11 55.8

Find 22 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAATGCATCGTCGCGATTT+TGG 0.098951 1.1:-77811072 None:intergenic
AGGGCATACTGATTTAATTT+TGG 0.112441 1.1:+77811234 MS.gene71753:CDS
ACAAAACAAAATAGAGTTCT+AGG 0.261869 1.1:-77811469 None:intergenic
AGAGTCAAGCAGCTGCTTAA+AGG 0.323406 1.1:+77811214 MS.gene71753:CDS
AGTTTGATTTGATGTTCCTT+TGG 0.399942 1.1:-77811274 None:intergenic
GAGTCAAGCAGCTGCTTAAA+GGG 0.418662 1.1:+77811215 MS.gene71753:CDS
TGATTTGATGTTCCTTTGGC+AGG 0.443659 1.1:-77811270 None:intergenic
TGCATTGCCAGCGTTTCATA+AGG 0.456199 1.1:+77811087 MS.gene71753:CDS
AAGCTGCGTTTCAAGATAAG+AGG 0.471098 1.1:+77811116 MS.gene71753:CDS
AAGTCAAGACGACGCCGGCT+AGG 0.475973 1.1:-77811430 None:intergenic
AAAACTCCTAAAAGATGTCA+AGG 0.541090 1.1:+77811159 MS.gene71753:CDS
GTCTGTGTTAAAACCCTAGC+CGG 0.541187 1.1:+77811416 MS.gene71753:CDS
CAAAACAAAATAGAGTTCTA+GGG 0.542407 1.1:-77811468 None:intergenic
AGTCAAGACGACGCCGGCTA+GGG 0.544271 1.1:-77811429 None:intergenic
TTGATGTTCCTTTGGCAGGA+AGG 0.546048 1.1:-77811266 None:intergenic
CAAATCAAACTTGAGACCAC+TGG 0.570634 1.1:+77811286 MS.gene71753:CDS
AGCTGCGTTTCAAGATAAGA+GGG 0.579749 1.1:+77811117 MS.gene71753:CDS
AATTTATACAAGACGTTCTG+CGG 0.581560 1.1:+77811189 MS.gene71753:CDS
ATTCAACACCTTCCTGCCAA+AGG 0.618562 1.1:+77811258 MS.gene71753:CDS
TGTACAGCCTTATGAAACGC+TGG 0.625113 1.1:-77811094 None:intergenic
AACAAAAGTCAAGACGACGC+CGG 0.681265 1.1:-77811435 None:intergenic
GCTGCGTTTCAAGATAAGAG+GGG 0.729457 1.1:+77811118 MS.gene71753:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GCTATATATATATAATTCTA+TGG + chr1.1:77811380-77811399 MS.gene71753:intron 15.0%
! AATCATAAATTACTAACCAG+TGG - chr1.1:77811305-77811324 None:intergenic 25.0%
! ACAAAACAAAATAGAGTTCT+AGG - chr1.1:77811472-77811491 None:intergenic 25.0%
! CAAAACAAAATAGAGTTCTA+GGG - chr1.1:77811471-77811490 None:intergenic 25.0%
AAAACTCCTAAAAGATGTCA+AGG + chr1.1:77811159-77811178 MS.gene71753:CDS 30.0%
AATTTATACAAGACGTTCTG+CGG + chr1.1:77811189-77811208 MS.gene71753:CDS 30.0%
! TTTGATCCTTGACATCTTTT+AGG - chr1.1:77811168-77811187 None:intergenic 30.0%
!! AGTTTGATTTGATGTTCCTT+TGG - chr1.1:77811277-77811296 None:intergenic 30.0%
!!! AGGGCATACTGATTTAATTT+TGG + chr1.1:77811234-77811253 MS.gene71753:CDS 30.0%
!!! GGGCATACTGATTTAATTTT+GGG + chr1.1:77811235-77811254 MS.gene71753:CDS 30.0%
AAGCTGCGTTTCAAGATAAG+AGG + chr1.1:77811116-77811135 MS.gene71753:CDS 40.0%
AGCTGCGTTTCAAGATAAGA+GGG + chr1.1:77811117-77811136 MS.gene71753:CDS 40.0%
CAAATCAAACTTGAGACCAC+TGG + chr1.1:77811286-77811305 MS.gene71753:CDS 40.0%
TGATTTGATGTTCCTTTGGC+AGG - chr1.1:77811273-77811292 None:intergenic 40.0%
AACAAAAGTCAAGACGACGC+CGG - chr1.1:77811438-77811457 None:intergenic 45.0%
AGAGTCAAGCAGCTGCTTAA+AGG + chr1.1:77811214-77811233 MS.gene71753:CDS 45.0%
ATTCAACACCTTCCTGCCAA+AGG + chr1.1:77811258-77811277 MS.gene71753:CDS 45.0%
GAGTCAAGCAGCTGCTTAAA+GGG + chr1.1:77811215-77811234 MS.gene71753:CDS 45.0%
GCTGCGTTTCAAGATAAGAG+GGG + chr1.1:77811118-77811137 MS.gene71753:CDS 45.0%
GTCTGTGTTAAAACCCTAGC+CGG + chr1.1:77811416-77811435 MS.gene71753:CDS 45.0%
TGCATTGCCAGCGTTTCATA+AGG + chr1.1:77811087-77811106 MS.gene71753:CDS 45.0%
TTGATGTTCCTTTGGCAGGA+AGG - chr1.1:77811269-77811288 None:intergenic 45.0%
! AATGCATCGTCGCGATTTTG+GGG - chr1.1:77811073-77811092 None:intergenic 45.0%
! CAATGCATCGTCGCGATTTT+GGG - chr1.1:77811074-77811093 None:intergenic 45.0%
! TGTACAGCCTTATGAAACGC+TGG - chr1.1:77811097-77811116 None:intergenic 45.0%
! ATGCATCGTCGCGATTTTGG+GGG - chr1.1:77811072-77811091 None:intergenic 50.0%
! GCAATGCATCGTCGCGATTT+TGG - chr1.1:77811075-77811094 None:intergenic 50.0%
! GGCGTCGTCTTGACTTTTGT+TGG + chr1.1:77811437-77811456 MS.gene71753:CDS 50.0%
! AAGTCAAGACGACGCCGGCT+AGG - chr1.1:77811433-77811452 None:intergenic 60.0%
! AGTCAAGACGACGCCGGCTA+GGG - chr1.1:77811432-77811451 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 77811061 77811505 77811061 ID=MS.gene71753
chr1.1 mRNA 77811061 77811505 77811061 ID=MS.gene71753.t1;Parent=MS.gene71753
chr1.1 exon 77811061 77811307 77811061 ID=MS.gene71753.t1.exon1;Parent=MS.gene71753.t1
chr1.1 CDS 77811061 77811307 77811061 ID=cds.MS.gene71753.t1;Parent=MS.gene71753.t1
chr1.1 exon 77811411 77811505 77811411 ID=MS.gene71753.t1.exon2;Parent=MS.gene71753.t1
chr1.1 CDS 77811411 77811505 77811411 ID=cds.MS.gene71753.t1;Parent=MS.gene71753.t1
Gene Sequence

>MS.gene71753

ATGAAGATCCCCCAAAATCGCGACGATGCATTGCCAGCGTTTCATAAGGCTGTACAAGCTGCGTTTCAAGATAAGAGGGGAGATTACAATGAGCTTTTAAAACTCCTAAAAGATGTCAAGGATCAAACAATTTATACAAGACGTTCTGCGGCAAGAGTCAAGCAGCTGCTTAAAGGGCATACTGATTTAATTTTGGGATTCAACACCTTCCTGCCAAAGGAACATCAAATCAAACTTGAGACCACTGGTTAGTAATTTATGATTATTGATTGCACTTCTCATATCTTGATACTTTTCTGCAGTTAGTATGACTTTTTTTGCTATATATATATAATTCTATGGTGATGTAGTTGATGTCTGTGTTAAAACCCTAGCCGGCGTCGTCTTGACTTTTGTTGGTGTTAAAACCCTAGAACTCTATTTTGTTTTGTCTGATGTTTTGTAA
Protein sequence

>MS.gene71753.t1

MKIPQNRDDALPAFHKAVQAAFQDKRGDYNELLKLLKDVKDQTIYTRRSAARVKQLLKGHTDLILGFNTFLPKEHQIKLETTVDVCVKTLAGVVLTFVGVKTLELYFVLSDVL