AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene92525

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92525.t1 MTR_3g084750 90.980 255 14 2 1 253 1 248 5.68e-171 476
MS.gene92525.t1 MTR_3g084750 90.980 255 14 2 1 253 53 300 1.82e-170 476
MS.gene92525.t1 MTR_1g015930 47.619 210 108 2 44 253 50 257 2.18e-57 187
MS.gene92525.t1 MTR_1g019050 33.333 225 118 7 37 253 43 243 3.33e-23 96.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92525.t1 AT4G12240 63.721 215 77 1 38 252 30 243 3.57e-97 289
MS.gene92525.t1 AT5G52010 48.585 212 105 3 42 253 71 278 5.14e-58 189

Find 69 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGCTATTCTGAGCTTAT+TGG 0.177466 4.2:-81675750 None:intergenic
AGCTGAAACGGGCAGGGTTT+TGG 0.228799 4.2:+81676146 MS.gene92525:CDS
TATGTAGAGTAGGGCTGTTC+TGG 0.246065 4.2:+81675681 MS.gene92525:CDS
AGAATAGCTGCAGCTTCTTT+TGG 0.246225 4.2:+81675761 MS.gene92525:CDS
AGGGAGTAGAAAGGTGAAAT+TGG 0.313386 4.2:+81676036 MS.gene92525:CDS
TGAGACGACACTGTCATTCT+TGG 0.314624 4.2:+81675618 MS.gene92525:CDS
GAGACGACACTGTCATTCTT+GGG 0.319372 4.2:+81675619 MS.gene92525:CDS
GGGTAAGTATGCTATGAAAA+TGG 0.326589 4.2:+81676060 MS.gene92525:CDS
TTCATAAGGTGGGATTGAAT+TGG 0.333130 4.2:-81675723 None:intergenic
TCATAGGCGGGTTGAGTGTT+TGG 0.351038 4.2:+81676240 MS.gene92525:CDS
AGCTTATTGGCAACTTCATA+AGG 0.365446 4.2:-81675737 None:intergenic
ACAGGAACTGTTGTATCGTT+TGG 0.373770 4.2:+81675865 MS.gene92525:CDS
GTTGTATCGTTTGGAGGATA+AGG 0.381598 4.2:+81675874 MS.gene92525:CDS
CTCATGTTTGTCGTGTTTGT+GGG 0.391232 4.2:+81675918 MS.gene92525:CDS
GGGTTCAAACTGTGTTAGAT+AGG 0.398462 4.2:+81676167 MS.gene92525:CDS
CCTCATGTTTGTCGTGTTTG+TGG 0.413883 4.2:+81675917 MS.gene92525:CDS
GCCAAACCATACCCAACTTT+AGG 0.418960 4.2:-81676118 None:intergenic
TCCTAAAGTTGGGTATGGTT+TGG 0.425982 4.2:+81676117 MS.gene92525:CDS
TTGACTCCTAAAGTTGGGTA+TGG 0.429889 4.2:+81676112 MS.gene92525:CDS
TCATAAGGTGGGATTGAATT+GGG 0.443856 4.2:-81675722 None:intergenic
TTGTATCGTTTGGAGGATAA+GGG 0.462961 4.2:+81675875 MS.gene92525:CDS
GCTGATGAGCTGAAACGGGC+AGG 0.464292 4.2:+81676139 MS.gene92525:CDS
TGGTGGATATGATGGATCAT+AGG 0.472905 4.2:+81676224 MS.gene92525:CDS
ATTGCTAAAAGTGTGGCTAT+TGG 0.475645 4.2:-81675810 None:intergenic
TGAGTGTTTGGTTCTTGTAT+CGG 0.489683 4.2:+81676252 MS.gene92525:CDS
TATTGCATTGCAAAAGCATA+TGG 0.499781 4.2:+81676204 MS.gene92525:CDS
CACTGTCATTCTTGGGGTCA+CGG 0.505218 4.2:+81675626 MS.gene92525:CDS
ACTCTACATAGCTTCTCATT+CGG 0.506498 4.2:-81675668 None:intergenic
ATGTAGAGTAGGGCTGTTCT+GGG 0.518539 4.2:+81675682 MS.gene92525:CDS
GTTTGGCTGATGAGCTGAAA+CGG 0.521781 4.2:+81676134 MS.gene92525:CDS
AAAGCATATGGTGGATATGA+TGG 0.523680 4.2:+81676216 MS.gene92525:CDS
GTCATTCTTGGGGTCACGGA+AGG 0.525218 4.2:+81675630 MS.gene92525:CDS
GGAACTGTTGTATCGTTTGG+AGG 0.537669 4.2:+81675868 MS.gene92525:CDS
GAAAATGGAAAAGTATAAGA+AGG 0.542297 4.2:+81676075 MS.gene92525:CDS
TCGTGAGAGGAGGAAAGAAC+AGG 0.542932 4.2:+81675847 MS.gene92525:CDS
AATGAGAAGCTATGTAGAGT+AGG 0.549536 4.2:+81675671 MS.gene92525:CDS
AAGGCGGAATCAGATAGAAT+CGG 0.553848 4.2:+81676009 MS.gene92525:CDS
TATTGGCAACTTCATAAGGT+GGG 0.553988 4.2:-81675733 None:intergenic
CTATTGTGTAGAATATTCTA+CGG 0.555084 4.2:-81675565 None:intergenic
TTTGGCTGATGAGCTGAAAC+GGG 0.555204 4.2:+81676135 MS.gene92525:CDS
TGGAGTTGTTCGACATATGG+TGG 0.559762 4.2:+81675781 MS.gene92525:CDS
ATGAGAAGCTATGTAGAGTA+GGG 0.561703 4.2:+81675672 MS.gene92525:CDS
CTGATGAGCTGAAACGGGCA+GGG 0.566688 4.2:+81676140 MS.gene92525:CDS
ATCGGCTAGAGGGAGTAGAA+AGG 0.569230 4.2:+81676027 MS.gene92525:CDS
AGAATATTCTACGGAACTTG+AGG 0.572133 4.2:-81675556 None:intergenic
GGATATGATGGATCATAGGC+GGG 0.572337 4.2:+81676228 MS.gene92525:CDS
GAGTAGAAAGGTGAAATTGG+TGG 0.573655 4.2:+81676039 MS.gene92525:CDS
ATCAGATAGAATCGGCTAGA+GGG 0.575206 4.2:+81676017 MS.gene92525:CDS
TCCTCCACGTTGTTCGTGAG+AGG 0.575941 4.2:+81675834 MS.gene92525:CDS
ATGAGCGTGAGCATGCGAAA+AGG 0.580807 4.2:+81675990 MS.gene92525:CDS
TCCACGTTGTTCGTGAGAGG+AGG 0.596741 4.2:+81675837 MS.gene92525:CDS
TAAGGTGGGATTGAATTGGG+TGG 0.598304 4.2:-81675719 None:intergenic
AACAAATGTTTGAATGCCAG+TGG 0.602266 4.2:-81675591 None:intergenic
AGAATGACAGTGTCGTCTCA+AGG 0.604787 4.2:-81675615 None:intergenic
AATGCAATATCCGCAGCTTG+CGG 0.606975 4.2:-81676190 None:intergenic
AGACGACACTGTCATTCTTG+GGG 0.607766 4.2:+81675620 MS.gene92525:CDS
AGTAGAAAGGTGAAATTGGT+GGG 0.609374 4.2:+81676040 MS.gene92525:CDS
TGCATTGCAAAAGCATATGG+TGG 0.610349 4.2:+81676207 MS.gene92525:CDS
TTCTACACAATAGAAGCCAC+TGG 0.610989 4.2:+81675575 MS.gene92525:CDS
TTATTGGCAACTTCATAAGG+TGG 0.612373 4.2:-81675734 None:intergenic
AATCAGATAGAATCGGCTAG+AGG 0.623094 4.2:+81676016 MS.gene92525:CDS
ATGTTTGTCGTGTTTGTGGG+AGG 0.623967 4.2:+81675921 MS.gene92525:CDS
AGCGTGAGCATGCGAAAAGG+CGG 0.626856 4.2:+81675993 MS.gene92525:CDS
GTTAGATAGGCCGCAAGCTG+CGG 0.632475 4.2:+81676180 MS.gene92525:CDS
TGGATATGATGGATCATAGG+CGG 0.652070 4.2:+81676227 MS.gene92525:CDS
CCACAAACACGACAAACATG+AGG 0.661362 4.2:-81675917 None:intergenic
GGAGGACATTGCTAAAAGTG+TGG 0.679997 4.2:-81675817 None:intergenic
TCCTCTCACGAACAACGTGG+AGG 0.693864 4.2:-81675835 None:intergenic
TCCTCCTCTCACGAACAACG+TGG 0.717532 4.2:-81675838 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTATTGTGTAGAATATTCTA+CGG - chr4.2:81675568-81675587 None:intergenic 25.0%
!! GAAAATGGAAAAGTATAAGA+AGG + chr4.2:81676075-81676094 MS.gene92525:CDS 25.0%
! TATTGCATTGCAAAAGCATA+TGG + chr4.2:81676204-81676223 MS.gene92525:CDS 30.0%
AACAAATGTTTGAATGCCAG+TGG - chr4.2:81675594-81675613 None:intergenic 35.0%
AATGAGAAGCTATGTAGAGT+AGG + chr4.2:81675671-81675690 MS.gene92525:CDS 35.0%
ACTCTACATAGCTTCTCATT+CGG - chr4.2:81675671-81675690 None:intergenic 35.0%
AGAATATTCTACGGAACTTG+AGG - chr4.2:81675559-81675578 None:intergenic 35.0%
AGCTTATTGGCAACTTCATA+AGG - chr4.2:81675740-81675759 None:intergenic 35.0%
AGTAGAAAGGTGAAATTGGT+GGG + chr4.2:81676040-81676059 MS.gene92525:CDS 35.0%
ATGAGAAGCTATGTAGAGTA+GGG + chr4.2:81675672-81675691 MS.gene92525:CDS 35.0%
GGGTAAGTATGCTATGAAAA+TGG + chr4.2:81676060-81676079 MS.gene92525:CDS 35.0%
TATTGGCAACTTCATAAGGT+GGG - chr4.2:81675736-81675755 None:intergenic 35.0%
TCATAAGGTGGGATTGAATT+GGG - chr4.2:81675725-81675744 None:intergenic 35.0%
TTATTGGCAACTTCATAAGG+TGG - chr4.2:81675737-81675756 None:intergenic 35.0%
TTCATAAGGTGGGATTGAAT+TGG - chr4.2:81675726-81675745 None:intergenic 35.0%
TTGTATCGTTTGGAGGATAA+GGG + chr4.2:81675875-81675894 MS.gene92525:CDS 35.0%
! ATTGCTAAAAGTGTGGCTAT+TGG - chr4.2:81675813-81675832 None:intergenic 35.0%
!! AAAGCATATGGTGGATATGA+TGG + chr4.2:81676216-81676235 MS.gene92525:CDS 35.0%
!! TGAGTGTTTGGTTCTTGTAT+CGG + chr4.2:81676252-81676271 MS.gene92525:CDS 35.0%
!!! CTGTTTTGACTCCTAAAGTT+GGG + chr4.2:81676107-81676126 MS.gene92525:CDS 35.0%
!!! TTTTGGAGTTGTTCGACATA+TGG + chr4.2:81675778-81675797 MS.gene92525:CDS 35.0%
AAGGCGGAATCAGATAGAAT+CGG + chr4.2:81676009-81676028 MS.gene92525:CDS 40.0%
AATCAGATAGAATCGGCTAG+AGG + chr4.2:81676016-81676035 MS.gene92525:CDS 40.0%
ACAGGAACTGTTGTATCGTT+TGG + chr4.2:81675865-81675884 MS.gene92525:CDS 40.0%
AGGGAGTAGAAAGGTGAAAT+TGG + chr4.2:81676036-81676055 MS.gene92525:CDS 40.0%
ATCAGATAGAATCGGCTAGA+GGG + chr4.2:81676017-81676036 MS.gene92525:CDS 40.0%
CTCATGTTTGTCGTGTTTGT+GGG + chr4.2:81675918-81675937 MS.gene92525:CDS 40.0%
GAGTAGAAAGGTGAAATTGG+TGG + chr4.2:81676039-81676058 MS.gene92525:CDS 40.0%
GGGTTCAAACTGTGTTAGAT+AGG + chr4.2:81676167-81676186 MS.gene92525:CDS 40.0%
GTTGTATCGTTTGGAGGATA+AGG + chr4.2:81675874-81675893 MS.gene92525:CDS 40.0%
TCCTAAAGTTGGGTATGGTT+TGG + chr4.2:81676117-81676136 MS.gene92525:CDS 40.0%
TGCAGCTATTCTGAGCTTAT+TGG - chr4.2:81675753-81675772 None:intergenic 40.0%
TTCTACACAATAGAAGCCAC+TGG + chr4.2:81675575-81675594 MS.gene92525:CDS 40.0%
TTGACTCCTAAAGTTGGGTA+TGG + chr4.2:81676112-81676131 MS.gene92525:CDS 40.0%
! AGAATAGCTGCAGCTTCTTT+TGG + chr4.2:81675761-81675780 MS.gene92525:CDS 40.0%
! TGCATTGCAAAAGCATATGG+TGG + chr4.2:81676207-81676226 MS.gene92525:CDS 40.0%
!! TGGATATGATGGATCATAGG+CGG + chr4.2:81676227-81676246 MS.gene92525:CDS 40.0%
!! TGGTGGATATGATGGATCAT+AGG + chr4.2:81676224-81676243 MS.gene92525:CDS 40.0%
!!! GCTGTTTTGACTCCTAAAGT+TGG + chr4.2:81676106-81676125 MS.gene92525:CDS 40.0%
AATGCAATATCCGCAGCTTG+CGG - chr4.2:81676193-81676212 None:intergenic 45.0%
AGAATGACAGTGTCGTCTCA+AGG - chr4.2:81675618-81675637 None:intergenic 45.0%
AGACGACACTGTCATTCTTG+GGG + chr4.2:81675620-81675639 MS.gene92525:CDS 45.0%
ATGTAGAGTAGGGCTGTTCT+GGG + chr4.2:81675682-81675701 MS.gene92525:CDS 45.0%
ATGTTTGTCGTGTTTGTGGG+AGG + chr4.2:81675921-81675940 MS.gene92525:CDS 45.0%
CCACAAACACGACAAACATG+AGG - chr4.2:81675920-81675939 None:intergenic 45.0%
CCTCATGTTTGTCGTGTTTG+TGG + chr4.2:81675917-81675936 MS.gene92525:CDS 45.0%
GAGACGACACTGTCATTCTT+GGG + chr4.2:81675619-81675638 MS.gene92525:CDS 45.0%
GCCAAACCATACCCAACTTT+AGG - chr4.2:81676121-81676140 None:intergenic 45.0%
GGAACTGTTGTATCGTTTGG+AGG + chr4.2:81675868-81675887 MS.gene92525:CDS 45.0%
GGAGGACATTGCTAAAAGTG+TGG - chr4.2:81675820-81675839 None:intergenic 45.0%
GTTTGGCTGATGAGCTGAAA+CGG + chr4.2:81676134-81676153 MS.gene92525:CDS 45.0%
TAAGGTGGGATTGAATTGGG+TGG - chr4.2:81675722-81675741 None:intergenic 45.0%
TATGTAGAGTAGGGCTGTTC+TGG + chr4.2:81675681-81675700 MS.gene92525:CDS 45.0%
TGAGACGACACTGTCATTCT+TGG + chr4.2:81675618-81675637 MS.gene92525:CDS 45.0%
TGGAGTTGTTCGACATATGG+TGG + chr4.2:81675781-81675800 MS.gene92525:CDS 45.0%
TTTGGCTGATGAGCTGAAAC+GGG + chr4.2:81676135-81676154 MS.gene92525:CDS 45.0%
!! GGATATGATGGATCATAGGC+GGG + chr4.2:81676228-81676247 MS.gene92525:CDS 45.0%
ATCGGCTAGAGGGAGTAGAA+AGG + chr4.2:81676027-81676046 MS.gene92525:CDS 50.0%
ATGAGCGTGAGCATGCGAAA+AGG + chr4.2:81675990-81676009 MS.gene92525:CDS 50.0%
CACTGTCATTCTTGGGGTCA+CGG + chr4.2:81675626-81675645 MS.gene92525:CDS 50.0%
TCGTGAGAGGAGGAAAGAAC+AGG + chr4.2:81675847-81675866 MS.gene92525:CDS 50.0%
!! TCATAGGCGGGTTGAGTGTT+TGG + chr4.2:81676240-81676259 MS.gene92525:CDS 50.0%
AGCGTGAGCATGCGAAAAGG+CGG + chr4.2:81675993-81676012 MS.gene92525:CDS 55.0%
CTGATGAGCTGAAACGGGCA+GGG + chr4.2:81676140-81676159 MS.gene92525:CDS 55.0%
GTCATTCTTGGGGTCACGGA+AGG + chr4.2:81675630-81675649 MS.gene92525:CDS 55.0%
GTTAGATAGGCCGCAAGCTG+CGG + chr4.2:81676180-81676199 MS.gene92525:CDS 55.0%
TCCACGTTGTTCGTGAGAGG+AGG + chr4.2:81675837-81675856 MS.gene92525:CDS 55.0%
TCCTCCACGTTGTTCGTGAG+AGG + chr4.2:81675834-81675853 MS.gene92525:CDS 55.0%
TCCTCCTCTCACGAACAACG+TGG - chr4.2:81675841-81675860 None:intergenic 55.0%
TCCTCTCACGAACAACGTGG+AGG - chr4.2:81675838-81675857 None:intergenic 55.0%
! AGCTGAAACGGGCAGGGTTT+TGG + chr4.2:81676146-81676165 MS.gene92525:CDS 55.0%
! GCTGAAACGGGCAGGGTTTT+GGG + chr4.2:81676147-81676166 MS.gene92525:CDS 55.0%
GCTGATGAGCTGAAACGGGC+AGG + chr4.2:81676139-81676158 MS.gene92525:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 81675545 81676306 81675545 ID=MS.gene92525
chr4.2 mRNA 81675545 81676306 81675545 ID=MS.gene92525.t1;Parent=MS.gene92525
chr4.2 exon 81675545 81676306 81675545 ID=MS.gene92525.t1.exon1;Parent=MS.gene92525.t1
chr4.2 CDS 81675545 81676306 81675545 ID=cds.MS.gene92525.t1;Parent=MS.gene92525.t1
Gene Sequence

>MS.gene92525

ATGGTTTCAATCCTCAAGTTCCGTAGAATATTCTACACAATAGAAGCCACTGGCATTCAAACATTTGTTGCCTTGAGACGACACTGTCATTCTTGGGGTCACGGAAGGATTTCAGATAAAAATCCGAATGAGAAGCTATGTAGAGTAGGGCTGTTCTGGGACTTAGACAACAAACCACCCAATTCAATCCCACCTTATGAAGTTGCCAATAAGCTCAGAATAGCTGCAGCTTCTTTTGGAGTTGTTCGACATATGGTGGCTTATGCCAATAGCCACACTTTTAGCAATGTCCTCCACGTTGTTCGTGAGAGGAGGAAAGAACAGGAACTGTTGTATCGTTTGGAGGATAAGGGTGTGATTAAGCGTAATGAGCCTCATGTTTGTCGTGTTTGTGGGAGGAAATTTTACACGAATGAAAAGCTTGTTAATCATTTCAAGCAATTGCATGAGCGTGAGCATGCGAAAAGGCGGAATCAGATAGAATCGGCTAGAGGGAGTAGAAAGGTGAAATTGGTGGGTAAGTATGCTATGAAAATGGAAAAGTATAAGAAGGCTGCAAGTGCTGTTTTGACTCCTAAAGTTGGGTATGGTTTGGCTGATGAGCTGAAACGGGCAGGGTTTTGGGTTCAAACTGTGTTAGATAGGCCGCAAGCTGCGGATATTGCATTGCAAAAGCATATGGTGGATATGATGGATCATAGGCGGGTTGAGTGTTTGGTTCTTGTATCGGATGATTCTGATTTTGTCGATGTTATGCAATAA
Protein sequence

>MS.gene92525.t1

MVSILKFRRIFYTIEATGIQTFVALRRHCHSWGHGRISDKNPNEKLCRVGLFWDLDNKPPNSIPPYEVANKLRIAAASFGVVRHMVAYANSHTFSNVLHVVRERRKEQELLYRLEDKGVIKRNEPHVCRVCGRKFYTNEKLVNHFKQLHEREHAKRRNQIESARGSRKVKLVGKYAMKMEKYKKAASAVLTPKVGYGLADELKRAGFWVQTVLDRPQAADIALQKHMVDMMDHRRVECLVLVSDDSDFVDVMQ