AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene018783

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene018783.t1 MTR_1g053530 53.226 248 84 9 17 259 16 236 4.49e-66 208
MS.gene018783.t1 MTR_1g046810 31.193 327 137 11 26 312 37 315 4.80e-30 116
MS.gene018783.t1 MTR_1g052185 29.936 314 166 12 5 310 11 278 1.27e-21 92.8
MS.gene018783.t1 MTR_4g073310 26.623 308 134 9 5 311 11 227 6.91e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 59 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATCTGTCAATGCTCTAAA+TGG 0.239919 1.2:-39498614 MS.gene018783:CDS
ATAATTCCAGCTCCGTTTCT+TGG 0.269877 1.2:+39498472 None:intergenic
GAAGAAAGTTGTTGCCTCTA+TGG 0.295075 1.2:+39498720 None:intergenic
AGAGGCAACAACTTTCTTCT+AGG 0.323367 1.2:-39498716 MS.gene018783:CDS
TGAGGAACCAACTCATGAAT+TGG 0.350528 1.2:-39498024 MS.gene018783:CDS
ACTCTCATCACAAACCAAAA+AGG 0.357704 1.2:-39498835 MS.gene018783:CDS
CGATTCCCATCAAGGTTGTT+AGG 0.359090 1.2:+39498392 None:intergenic
GTTCTCTTCATTATCATCAT+TGG 0.362989 1.2:+39498157 None:intergenic
TCTTCGAAGTCGAACCATAT+TGG 0.367921 1.2:+39498573 None:intergenic
ATGAAATCGCACAGCCAATA+TGG 0.368027 1.2:-39498587 MS.gene018783:CDS
TCATCTTCACCAGTGTTGTT+TGG 0.374435 1.2:+39498056 None:intergenic
ATCATTGGAAGCAGATTGAT+TGG 0.381296 1.2:+39498172 None:intergenic
GAGGAACCAACTCATGAATT+GGG 0.382420 1.2:-39498023 MS.gene018783:CDS
AAATACTTTCTCAAATCAAT+TGG 0.400225 1.2:+39498515 None:intergenic
TCATCGTCACCATTGTTGTT+TGG 0.403734 1.2:+39498095 None:intergenic
CGATCACCTAACAACCTTGA+TGG 0.406250 1.2:-39498398 MS.gene018783:CDS
TGCAGAAATGTGGGTGGGAA+TGG 0.425504 1.2:-39498344 MS.gene018783:CDS
TGCCTCTATGGAATGCTTTG+TGG 0.438332 1.2:+39498732 None:intergenic
TTCTTGGTCACATAACTCAT+TGG 0.463818 1.2:+39498488 None:intergenic
TCATGTTGCAAAAGCAATGC+TGG 0.472244 1.2:-39498432 MS.gene018783:CDS
CAATTGGTGGAAATTGATCT+AGG 0.480999 1.2:+39498531 None:intergenic
GGAATCGCCGTGTCACGAAA+AGG 0.483205 1.2:-39498376 MS.gene018783:CDS
TACTTTCTCAAATCAATTGG+TGG 0.486384 1.2:+39498518 None:intergenic
GCAGAAATGTGGGTGGGAAT+GGG 0.488317 1.2:-39498343 MS.gene018783:CDS
GAATGCTTTGTGGCCGCCGA+GGG 0.493083 1.2:+39498742 None:intergenic
TTTAACCCCAATTCATGAGT+TGG 0.505846 1.2:+39498017 None:intergenic
TGACACGGCGATTCCCATCA+AGG 0.521756 1.2:+39498384 None:intergenic
GATCAAACTTTGCAGAAATG+TGG 0.524856 1.2:-39498354 MS.gene018783:CDS
ATATGGTTCGACTTCGAAGA+AGG 0.528018 1.2:-39498570 MS.gene018783:CDS
TTGGTCACATAACTCATTGG+TGG 0.531076 1.2:+39498491 None:intergenic
GATCACCTAACAACCTTGAT+GGG 0.547419 1.2:-39498397 MS.gene018783:CDS
TTCACCACTGGTAACGCCCT+CGG 0.552306 1.2:-39498758 MS.gene018783:CDS
ATCAAACTTTGCAGAAATGT+GGG 0.554714 1.2:-39498353 MS.gene018783:CDS
TGAGTTATGTGACCAAGAAA+CGG 0.560971 1.2:-39498484 MS.gene018783:CDS
AAAAGGAGTGTTGTTGATCA+TGG 0.562216 1.2:-39498818 MS.gene018783:CDS
TGAAACAATTGTGAGAGAGA+AGG 0.568620 1.2:-39498273 MS.gene018783:CDS
TCATCTGCATCATCATCCAC+TGG 0.575486 1.2:+39497963 None:intergenic
AAACAATGAAAAGAACAAGT+TGG 0.575622 1.2:-39498246 MS.gene018783:CDS
AACTTTGCAGAAATGTGGGT+GGG 0.585412 1.2:-39498349 MS.gene018783:CDS
GGAATGCTTTGTGGCCGCCG+AGG 0.588007 1.2:+39498741 None:intergenic
TGAAGATGATGAAGCAAATG+AGG 0.593094 1.2:-39498042 MS.gene018783:CDS
GCAACGGACACATGAATGGT+TGG 0.593203 1.2:+39498649 None:intergenic
TGAAGATGATGAAGCAGATG+AGG 0.595458 1.2:-39498120 MS.gene018783:CDS
CGATTTGAATGAGCTGCCAG+TGG 0.597243 1.2:-39497979 MS.gene018783:CDS
ATGTGACCAAGAAACGGAGC+TGG 0.597485 1.2:-39498478 MS.gene018783:CDS
AAGATGAAGATCAGAGAGCA+AGG 0.598147 1.2:-39498320 MS.gene018783:CDS
TATGGTTCGACTTCGAAGAA+GGG 0.600043 1.2:-39498569 MS.gene018783:CDS
GCCGCCGAGGGCGTTACCAG+TGG 0.610498 1.2:+39498754 None:intergenic
TGCTGCAACGGACACATGAA+TGG 0.613658 1.2:+39498645 None:intergenic
TGTGACAGAGAATTCACCAC+TGG 0.614086 1.2:-39498770 MS.gene018783:CDS
CAATGAAAAGAACAAGTTGG+TGG 0.617009 1.2:-39498243 MS.gene018783:CDS
AAACTTTGCAGAAATGTGGG+TGG 0.628923 1.2:-39498350 MS.gene018783:CDS
AGGAACCAACTCATGAATTG+GGG 0.629510 1.2:-39498022 MS.gene018783:CDS
GGCCACAAAGCATTCCATAG+AGG 0.645608 1.2:-39498734 MS.gene018783:CDS
GTGACGTTAAAGATTCCGAA+TGG 0.669494 1.2:-39498221 MS.gene018783:CDS
GATGAGGAACCAAACAACAC+TGG 0.670709 1.2:-39498065 MS.gene018783:CDS
ACCACTGGTAACGCCCTCGG+CGG 0.680554 1.2:-39498755 MS.gene018783:CDS
TGACGATGATGAAGCAGATG+AGG 0.681101 1.2:-39498081 MS.gene018783:CDS
GATGAGGAACCAAACAACAA+TGG 0.687695 1.2:-39498104 MS.gene018783:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATACTTTCTCAAATCAAT+TGG + chr1.2:39498310-39498329 None:intergenic 20.0%
! AAACAATGAAAAGAACAAGT+TGG - chr1.2:39498576-39498595 MS.gene018783:CDS 25.0%
AACAAAGAAAAACATGCTGA+TGG - chr1.2:39498136-39498155 MS.gene018783:CDS 30.0%
ATCAAACTTTGCAGAAATGT+GGG - chr1.2:39498469-39498488 MS.gene018783:CDS 30.0%
GTTCTCTTCATTATCATCAT+TGG + chr1.2:39498668-39498687 None:intergenic 30.0%
TACTTTCTCAAATCAATTGG+TGG + chr1.2:39498307-39498326 None:intergenic 30.0%
! CATCTGATTTTTGAATGACA+AGG + chr1.2:39498627-39498646 None:intergenic 30.0%
ACTCTCATCACAAACCAAAA+AGG - chr1.2:39497987-39498006 MS.gene018783:CDS 35.0%
ATCATTGGAAGCAGATTGAT+TGG + chr1.2:39498653-39498672 None:intergenic 35.0%
ATGAAAAAGTCTTGCTGCAA+CGG + chr1.2:39498192-39498211 None:intergenic 35.0%
CAATTGGTGGAAATTGATCT+AGG + chr1.2:39498294-39498313 None:intergenic 35.0%
GATCAAACTTTGCAGAAATG+TGG - chr1.2:39498468-39498487 MS.gene018783:CDS 35.0%
TGAAACAATTGTGAGAGAGA+AGG - chr1.2:39498549-39498568 MS.gene018783:CDS 35.0%
TGAAGATGATGAAGCAAATG+AGG - chr1.2:39498780-39498799 MS.gene018783:CDS 35.0%
TGAGTTATGTGACCAAGAAA+CGG - chr1.2:39498338-39498357 MS.gene018783:CDS 35.0%
TTCTTGGTCACATAACTCAT+TGG + chr1.2:39498337-39498356 None:intergenic 35.0%
TTTAACCCCAATTCATGAGT+TGG + chr1.2:39498808-39498827 None:intergenic 35.0%
! CAATGAAAAGAACAAGTTGG+TGG - chr1.2:39498579-39498598 MS.gene018783:CDS 35.0%
! TCATCTGTCAATGCTCTAAA+TGG - chr1.2:39498208-39498227 MS.gene018783:CDS 35.0%
! TGATCAACAACACTCCTTTT+TGG + chr1.2:39498004-39498023 None:intergenic 35.0%
! TTTTGAATGACAAGGCCATT+CGG + chr1.2:39498619-39498638 None:intergenic 35.0%
!! AAAAGGAGTGTTGTTGATCA+TGG - chr1.2:39498004-39498023 MS.gene018783:CDS 35.0%
AAACTTTGCAGAAATGTGGG+TGG - chr1.2:39498472-39498491 MS.gene018783:CDS 40.0%
AACTTTGCAGAAATGTGGGT+GGG - chr1.2:39498473-39498492 MS.gene018783:CDS 40.0%
AAGATGAAGATCAGAGAGCA+AGG - chr1.2:39498502-39498521 MS.gene018783:CDS 40.0%
AGAGGCAACAACTTTCTTCT+AGG - chr1.2:39498106-39498125 MS.gene018783:CDS 40.0%
AGGAACCAACTCATGAATTG+GGG - chr1.2:39498800-39498819 MS.gene018783:CDS 40.0%
ATAATTCCAGCTCCGTTTCT+TGG + chr1.2:39498353-39498372 None:intergenic 40.0%
ATATGGTTCGACTTCGAAGA+AGG - chr1.2:39498252-39498271 MS.gene018783:CDS 40.0%
ATGAAATCGCACAGCCAATA+TGG - chr1.2:39498235-39498254 MS.gene018783:CDS 40.0%
GAAGAAAGTTGTTGCCTCTA+TGG + chr1.2:39498105-39498124 None:intergenic 40.0%
GAGGAACCAACTCATGAATT+GGG - chr1.2:39498799-39498818 MS.gene018783:CDS 40.0%
GATCACCTAACAACCTTGAT+GGG - chr1.2:39498425-39498444 MS.gene018783:CDS 40.0%
GATGAGGAACCAAACAACAA+TGG - chr1.2:39498718-39498737 MS.gene018783:CDS 40.0%
GTGACGTTAAAGATTCCGAA+TGG - chr1.2:39498601-39498620 MS.gene018783:CDS 40.0%
TATGGTTCGACTTCGAAGAA+GGG - chr1.2:39498253-39498272 MS.gene018783:CDS 40.0%
TCATGTTGCAAAAGCAATGC+TGG - chr1.2:39498390-39498409 MS.gene018783:CDS 40.0%
TCTTCGAAGTCGAACCATAT+TGG + chr1.2:39498252-39498271 None:intergenic 40.0%
TGAAGATGATGAAGCAGATG+AGG - chr1.2:39498702-39498721 MS.gene018783:CDS 40.0%
TGAGGAACCAACTCATGAAT+TGG - chr1.2:39498798-39498817 MS.gene018783:CDS 40.0%
TTGGTCACATAACTCATTGG+TGG + chr1.2:39498334-39498353 None:intergenic 40.0%
! GTTTGATCCTTTTCGTGACA+CGG + chr1.2:39498456-39498475 None:intergenic 40.0%
! TCATCGTCACCATTGTTGTT+TGG + chr1.2:39498730-39498749 None:intergenic 40.0%
! TCATCTTCACCAGTGTTGTT+TGG + chr1.2:39498769-39498788 None:intergenic 40.0%
CGATCACCTAACAACCTTGA+TGG - chr1.2:39498424-39498443 MS.gene018783:CDS 45.0%
CGATTCCCATCAAGGTTGTT+AGG + chr1.2:39498433-39498452 None:intergenic 45.0%
GATGAGGAACCAAACAACAC+TGG - chr1.2:39498757-39498776 MS.gene018783:CDS 45.0%
TCATCTGCATCATCATCCAC+TGG + chr1.2:39498862-39498881 None:intergenic 45.0%
TGACGATGATGAAGCAGATG+AGG - chr1.2:39498741-39498760 MS.gene018783:CDS 45.0%
TGCCTCTATGGAATGCTTTG+TGG + chr1.2:39498093-39498112 None:intergenic 45.0%
TGTGACAGAGAATTCACCAC+TGG - chr1.2:39498052-39498071 MS.gene018783:CDS 45.0%
ATGTGACCAAGAAACGGAGC+TGG - chr1.2:39498344-39498363 MS.gene018783:CDS 50.0%
CGATTTGAATGAGCTGCCAG+TGG - chr1.2:39498843-39498862 MS.gene018783:CDS 50.0%
GCAACGGACACATGAATGGT+TGG + chr1.2:39498176-39498195 None:intergenic 50.0%
GCAGAAATGTGGGTGGGAAT+GGG - chr1.2:39498479-39498498 MS.gene018783:CDS 50.0%
TGCAGAAATGTGGGTGGGAA+TGG - chr1.2:39498478-39498497 MS.gene018783:CDS 50.0%
TGCTGCAACGGACACATGAA+TGG + chr1.2:39498180-39498199 None:intergenic 50.0%
! GGCCACAAAGCATTCCATAG+AGG - chr1.2:39498088-39498107 MS.gene018783:CDS 50.0%
GGAATCGCCGTGTCACGAAA+AGG - chr1.2:39498446-39498465 MS.gene018783:CDS 55.0%
TGACACGGCGATTCCCATCA+AGG + chr1.2:39498441-39498460 None:intergenic 55.0%
! TTCACCACTGGTAACGCCCT+CGG - chr1.2:39498064-39498083 MS.gene018783:CDS 55.0%
GAATGCTTTGTGGCCGCCGA+GGG + chr1.2:39498083-39498102 None:intergenic 60.0%
GGAATGCTTTGTGGCCGCCG+AGG + chr1.2:39498084-39498103 None:intergenic 65.0%
! ACCACTGGTAACGCCCTCGG+CGG - chr1.2:39498067-39498086 MS.gene018783:CDS 65.0%
!! GCCGCCGAGGGCGTTACCAG+TGG + chr1.2:39498071-39498090 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 39497950 39498894 39497950 ID=MS.gene018783
chr1.2 mRNA 39497950 39498894 39497950 ID=MS.gene018783.t1;Parent=MS.gene018783
chr1.2 exon 39497950 39498894 39497950 ID=MS.gene018783.t1.exon1;Parent=MS.gene018783.t1
chr1.2 CDS 39497950 39498894 39497950 ID=cds.MS.gene018783.t1;Parent=MS.gene018783.t1
Gene Sequence

>MS.gene018783

ATGAAGCATTTTTTTTCTTCTGCTTCTTCTTCATCTCACTCTCATCACAAACCAAAAAGGAGTGTTGTTGATCATGGTGCAAAACTTCACAAATGTGATTTGTGTGACAGAGAATTCACCACTGGTAACGCCCTCGGCGGCCACAAAGCATTCCATAGAGGCAACAACTTTCTTCTAGGAAAAATCAACAAAGAAAAACATGCTGATGGTATTAAGATCGAAACCAACCATTCATGTGTCCGTTGCAGCAAGACTTTTTCATCTGTCAATGCTCTAAATGGACACATGAAATCGCACAGCCAATATGGTTCGACTTCGAAGAAGGGTAGTAAGATTTATGACCTAGATCAATTTCCACCAATTGATTTGAGAAAGTATTTGCCACCAATGAGTTATGTGACCAAGAAACGGAGCTGGAATTATGTTATTAATGTTGAATCTCATGTTGCAAAAGCAATGCTGGATATGTCACAGCGATCACCTAACAACCTTGATGGGAATCGCCGTGTCACGAAAAGGATCAAACTTTGCAGAAATGTGGGTGGGAATGGGAAGATGAAGATCAGAGAGCAAGGTATTGTGATAAAACATTGTGTTGATGAAACAATTGTGAGAGAGAAGGAGAAAAACAATGAAAAGAACAAGTTGGTGGTGACGTTAAAGATTCCGAATGGCCTTGTCATTCAAAAATCAGATGCTTCCAATCAATCTGCTTCCAATGATGATAATGAAGAGAACAACAACAACACTAGTGAAGATGATGAAGCAGATGAGGAACCAAACAACAATGGTGACGATGATGAAGCAGATGAGGAACCAAACAACACTGGTGAAGATGATGAAGCAAATGAGGAACCAACTCATGAATTGGGGTTAAATGTTGTTCGAGATTTCGATTTGAATGAGCTGCCAGTGGATGATGATGCAGATGAAACCGCCCATTAG
Protein sequence

>MS.gene018783.t1

MKHFFSSASSSSHSHHKPKRSVVDHGAKLHKCDLCDREFTTGNALGGHKAFHRGNNFLLGKINKEKHADGIKIETNHSCVRCSKTFSSVNALNGHMKSHSQYGSTSKKGSKIYDLDQFPPIDLRKYLPPMSYVTKKRSWNYVINVESHVAKAMLDMSQRSPNNLDGNRRVTKRIKLCRNVGGNGKMKIREQGIVIKHCVDETIVREKEKNNEKNKLVVTLKIPNGLVIQKSDASNQSASNDDNEENNNNTSEDDEADEEPNNNGDDDEADEEPNNTGEDDEANEEPTHELGLNVVRDFDLNELPVDDDADETAH