AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058178

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058178.t1 MTR_2g035120 98.101 158 3 0 1 158 1 158 6.17e-111 312
MS.gene058178.t1 MTR_2g035150 89.873 158 16 0 1 158 1 158 7.99e-100 284
MS.gene058178.t1 MTR_2g035100 85.987 157 22 0 1 157 1 157 1.95e-95 273
MS.gene058178.t1 MTR_2g035130 87.261 157 20 0 1 157 1 157 2.25e-95 273
MS.gene058178.t1 MTR_2g035105 84.713 157 24 0 1 157 1 157 3.94e-94 269
MS.gene058178.t1 MTR_6g033450 68.987 158 49 0 1 158 1 158 3.22e-76 224
MS.gene058178.t1 MTR_4g120970 68.987 158 49 0 1 158 1 158 3.22e-76 224
MS.gene058178.t1 MTR_2g035320 59.873 157 63 0 1 157 1 157 2.28e-63 191
MS.gene058178.t1 MTR_2g035190 58.599 157 65 0 1 157 1 157 1.20e-61 187
MS.gene058178.t1 MTR_2g035170 58.599 157 65 0 1 157 1 157 2.06e-60 184
MS.gene058178.t1 MTR_2g035210 57.325 157 67 0 1 157 1 157 6.99e-59 180
MS.gene058178.t1 MTR_2g035220 57.325 157 67 0 1 157 1 157 3.78e-57 176
MS.gene058178.t1 MTR_2g435310 38.462 156 95 1 1 155 1 156 1.23e-36 124
MS.gene058178.t1 MTR_4g120760 38.462 156 95 1 1 155 1 156 1.65e-35 121
MS.gene058178.t1 MTR_4g120760 38.462 156 95 1 1 155 1 156 1.74e-35 121
MS.gene058178.t1 MTR_2g035320 57.576 99 42 0 59 157 24 122 3.12e-35 119
MS.gene058178.t1 MTR_4g120950 45.062 162 82 5 1 158 1 159 4.99e-34 117
MS.gene058178.t1 MTR_4g120940 71.622 74 21 0 85 158 47 120 6.24e-30 105
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 38 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACGAAAGTGAGTTTCTTGA+TGG 0.319436 2.1:+57701794 None:intergenic
TATATGCTTTAGTTGTAATC+AGG 0.341112 2.1:+57701319 None:intergenic
CATCAATAACCTTTGGGATA+AGG 0.348457 2.1:+57701862 None:intergenic
TTGATGACATCAATAACCTT+TGG 0.349255 2.1:+57701855 None:intergenic
ACTTAGTGGATGATGCTAAC+TGG 0.350720 2.1:-57701567 MS.gene058178:CDS
GGCCCTTGAGGGCTACTGTT+TGG 0.362164 2.1:-57701347 MS.gene058178:CDS
TGATGACATCAATAACCTTT+GGG 0.362487 2.1:+57701856 None:intergenic
TTTACACAAAGTTGACTTAG+TGG 0.373457 2.1:-57701581 MS.gene058178:CDS
GAAATCTTCTCTACTGTGTC+TGG 0.378194 2.1:+57701508 None:intergenic
AAGAAACTCACTTTCGTTGA+AGG 0.384811 2.1:-57701789 MS.gene058178:intron
AACTTTGTGTAAATCATACT+TGG 0.427176 2.1:+57701591 None:intergenic
AAAAGTATTGAAATTGTTGA+AGG 0.431416 2.1:-57701834 MS.gene058178:CDS
ATTGAAATTGTTGAAGGAAA+CGG 0.445615 2.1:-57701828 MS.gene058178:CDS
ACTAGGAGTAACATCTCCTT+TGG 0.445892 2.1:+57701417 None:intergenic
GCTTTAGTTGTAATCAGGAT+TGG 0.467799 2.1:+57701324 None:intergenic
GCTTACAACTACAGCATAGT+TGG 0.483791 2.1:-57701544 MS.gene058178:CDS
GTTGAAGGAAACGGTGGCGC+TGG 0.484504 2.1:-57701819 MS.gene058178:CDS
AAAGCTTTGTGAAGTGTAGC+AGG 0.484835 2.1:+57701903 None:intergenic
TTTGAAGCTAAATTGTCTGC+AGG 0.489005 2.1:-57701484 MS.gene058178:CDS
CTTAGTGGATGATGCTAACT+GGG 0.494998 2.1:-57701566 MS.gene058178:CDS
TTTGCAATGGATCCTCCATT+CGG 0.495837 2.1:+57701460 None:intergenic
CTCTTGAGTTCCTCTTCACT+AGG 0.501934 2.1:+57701400 None:intergenic
ACTCAAGAGTGGCAAAGCTA+AGG 0.529920 2.1:-57701386 MS.gene058178:CDS
CTCAAGAGTGGCAAAGCTAA+GGG 0.532020 2.1:-57701385 MS.gene058178:CDS
TTTCACACTAAGCTTTGCAA+TGG 0.532493 2.1:+57701447 None:intergenic
TGGCCAAACAGTAGCCCTCA+AGG 0.536316 2.1:+57701344 None:intergenic
TGTAGCAGGAGCTACAATAG+AGG 0.565152 2.1:+57701917 None:intergenic
AAATTGTCTGCAGGTCCGAA+TGG 0.591580 2.1:-57701475 MS.gene058178:CDS
AGTGGCAAAGCTAAGGGTGA+TGG 0.593000 2.1:-57701379 MS.gene058178:CDS
TACAACTACAGCATAGTTGG+AGG 0.598501 2.1:-57701541 MS.gene058178:CDS
TGCTGACAACCTTATCCCAA+AGG 0.626736 2.1:-57701871 MS.gene058178:CDS
AGATGTTACTCCTAGTGAAG+AGG 0.628737 2.1:-57701410 MS.gene058178:CDS
GGCCAAACAGTAGCCCTCAA+GGG 0.636902 2.1:+57701345 None:intergenic
TTGTCTGCAGGTCCGAATGG+AGG 0.646240 2.1:-57701472 MS.gene058178:CDS
AGTGTGAAATACTTCACCAA+AGG 0.648151 2.1:-57701433 MS.gene058178:CDS
AGCAGGAGCTACAATAGAGG+TGG 0.665165 2.1:+57701920 None:intergenic
GAAATTGTTGAAGGAAACGG+TGG 0.666040 2.1:-57701825 MS.gene058178:CDS
AGTGAAGAGGAACTCAAGAG+TGG 0.684104 2.1:-57701397 MS.gene058178:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACCTAAATAAATCAAGTAA+TGG - chr2.1:57701611-57701630 MS.gene058178:intron 20.0%
!! AATCTTACTTATCAAGATTT+AGG - chr2.1:57701545-57701564 MS.gene058178:CDS 20.0%
!! ATCTTACTTATCAAGATTTA+GGG - chr2.1:57701546-57701565 MS.gene058178:CDS 20.0%
!!! AAAAGTATTGAAATTGTTGA+AGG - chr2.1:57701441-57701460 MS.gene058178:CDS 20.0%
! AACTTTGTGTAAATCATACT+TGG + chr2.1:57701687-57701706 None:intergenic 25.0%
! ATTGAAATTGTTGAAGGAAA+CGG - chr2.1:57701447-57701466 MS.gene058178:CDS 25.0%
! GACCATTACTTGATTTATTT+AGG + chr2.1:57701616-57701635 None:intergenic 25.0%
!! TTATCAAGATTTAGGGTTTA+GGG - chr2.1:57701553-57701572 MS.gene058178:CDS 25.0%
TGATGACATCAATAACCTTT+GGG + chr2.1:57701422-57701441 None:intergenic 30.0%
! CTTATCAAGATTTAGGGTTT+AGG - chr2.1:57701552-57701571 MS.gene058178:CDS 30.0%
! TTGATGACATCAATAACCTT+TGG + chr2.1:57701423-57701442 None:intergenic 30.0%
! TTTACACAAAGTTGACTTAG+TGG - chr2.1:57701694-57701713 MS.gene058178:intron 30.0%
!! TTAGGGTTTAGGGTTATTTT+TGG - chr2.1:57701563-57701582 MS.gene058178:CDS 30.0%
AACGAAAGTGAGTTTCTTGA+TGG + chr2.1:57701484-57701503 None:intergenic 35.0%
AAGAAACTCACTTTCGTTGA+AGG - chr2.1:57701486-57701505 MS.gene058178:CDS 35.0%
AGTGTGAAATACTTCACCAA+AGG - chr2.1:57701842-57701861 MS.gene058178:CDS 35.0%
ATGAATCTATGACATGCAGA+TGG - chr2.1:57701656-57701675 MS.gene058178:intron 35.0%
TTTCACACTAAGCTTTGCAA+TGG + chr2.1:57701831-57701850 None:intergenic 35.0%
! TTTGAAGCTAAATTGTCTGC+AGG - chr2.1:57701791-57701810 MS.gene058178:CDS 35.0%
!! CATCAATAACCTTTGGGATA+AGG + chr2.1:57701416-57701435 None:intergenic 35.0%
ACTAGGAGTAACATCTCCTT+TGG + chr2.1:57701861-57701880 None:intergenic 40.0%
AGATGTTACTCCTAGTGAAG+AGG - chr2.1:57701865-57701884 MS.gene058178:CDS 40.0%
GAAATCTTCTCTACTGTGTC+TGG + chr2.1:57701770-57701789 None:intergenic 40.0%
GAAATTGTTGAAGGAAACGG+TGG - chr2.1:57701450-57701469 MS.gene058178:CDS 40.0%
GCTTACAACTACAGCATAGT+TGG - chr2.1:57701731-57701750 MS.gene058178:intron 40.0%
TACAACTACAGCATAGTTGG+AGG - chr2.1:57701734-57701753 MS.gene058178:intron 40.0%
TTTGCAATGGATCCTCCATT+CGG + chr2.1:57701818-57701837 None:intergenic 40.0%
! AAAGCTTTGTGAAGTGTAGC+AGG + chr2.1:57701375-57701394 None:intergenic 40.0%
! ACTTAGTGGATGATGCTAAC+TGG - chr2.1:57701708-57701727 MS.gene058178:intron 40.0%
! CTTAGTGGATGATGCTAACT+GGG - chr2.1:57701709-57701728 MS.gene058178:intron 40.0%
!! TAAGGGTGATGGTCTTTTCA+AGG - chr2.1:57701907-57701926 MS.gene058178:CDS 40.0%
AAATTGTCTGCAGGTCCGAA+TGG - chr2.1:57701800-57701819 MS.gene058178:CDS 45.0%
ACTCAAGAGTGGCAAAGCTA+AGG - chr2.1:57701889-57701908 MS.gene058178:CDS 45.0%
AGTGAAGAGGAACTCAAGAG+TGG - chr2.1:57701878-57701897 MS.gene058178:CDS 45.0%
CTCAAGAGTGGCAAAGCTAA+GGG - chr2.1:57701890-57701909 MS.gene058178:CDS 45.0%
CTCTTGAGTTCCTCTTCACT+AGG + chr2.1:57701878-57701897 None:intergenic 45.0%
TGCTGACAACCTTATCCCAA+AGG - chr2.1:57701404-57701423 MS.gene058178:CDS 45.0%
TGTAGCAGGAGCTACAATAG+AGG + chr2.1:57701361-57701380 None:intergenic 45.0%
AGCAGGAGCTACAATAGAGG+TGG + chr2.1:57701358-57701377 None:intergenic 50.0%
AGTGGCAAAGCTAAGGGTGA+TGG - chr2.1:57701896-57701915 MS.gene058178:CDS 50.0%
!! GGTCTTTTCAAGGCCCTTGA+GGG - chr2.1:57701917-57701936 MS.gene058178:CDS 50.0%
!! TGGTCTTTTCAAGGCCCTTG+AGG - chr2.1:57701916-57701935 MS.gene058178:CDS 50.0%
GGCCAAACAGTAGCCCTCAA+GGG + chr2.1:57701933-57701952 None:intergenic 55.0%
TGGCCAAACAGTAGCCCTCA+AGG + chr2.1:57701934-57701953 None:intergenic 55.0%
TTGTCTGCAGGTCCGAATGG+AGG - chr2.1:57701803-57701822 MS.gene058178:CDS 55.0%
GGCCCTTGAGGGCTACTGTT+TGG - chr2.1:57701928-57701947 MS.gene058178:CDS 60.0%
GTTGAAGGAAACGGTGGCGC+TGG - chr2.1:57701456-57701475 MS.gene058178:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 57701327 57701970 57701327 ID=MS.gene058178
chr2.1 mRNA 57701327 57701970 57701327 ID=MS.gene058178.t1;Parent=MS.gene058178
chr2.1 exon 57701790 57701970 57701790 ID=MS.gene058178.t1.exon1;Parent=MS.gene058178.t1
chr2.1 CDS 57701790 57701970 57701790 ID=cds.MS.gene058178.t1;Parent=MS.gene058178.t1
chr2.1 exon 57701327 57701622 57701327 ID=MS.gene058178.t1.exon2;Parent=MS.gene058178.t1
chr2.1 CDS 57701327 57701622 57701327 ID=cds.MS.gene058178.t1;Parent=MS.gene058178.t1
Gene Sequence

>MS.gene058178

ATGGGTGTCATCAATTTTGAGGAAGAAACCACCTCTATTGTAGCTCCTGCTACACTTCACAAAGCTTTTGTTACAGATGCTGACAACCTTATCCCAAAGGTTATTGATGTCATCAAAAGTATTGAAATTGTTGAAGGAAACGGTGGCGCTGGAACCATCAAGAAACTCACTTTCGTTGAAGGTCAGTAGAAATATATTTGTTATATTTCTTATAAGCAAATCTTACTTATCAAGATTTAGGGTTTAGGGTTATTTTTGGACAAATTATTGTAGCAATTTTTAAAAACCTAAATAAATCAAGTAATGGTCATGATATTTATGATTGTGAGATGAATCTATGACATGCAGATGGTGAAACCAAGTATGATTTACACAAAGTTGACTTAGTGGATGATGCTAACTGGGCTTACAACTACAGCATAGTTGGAGGTGATAGTCTTCCAGACACAGTAGAGAAGATTTCATTTGAAGCTAAATTGTCTGCAGGTCCGAATGGAGGATCCATTGCAAAGCTTAGTGTGAAATACTTCACCAAAGGAGATGTTACTCCTAGTGAAGAGGAACTCAAGAGTGGCAAAGCTAAGGGTGATGGTCTTTTCAAGGCCCTTGAGGGCTACTGTTTGGCCAATCCTGATTACAACTAA
Protein sequence

>MS.gene058178.t1

MGVINFEEETTSIVAPATLHKAFVTDADNLIPKVIDVIKSIEIVEGNGGAGTIKKLTFVEDGETKYDLHKVDLVDDANWAYNYSIVGGDSLPDTVEKISFEAKLSAGPNGGSIAKLSVKYFTKGDVTPSEEELKSGKAKGDGLFKALEGYCLANPDYN