AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73794

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73794.t1 MTR_4g079110 95.513 156 6 1 1 156 1 155 1.98e-108 305
MS.gene73794.t1 MTR_2g090755 69.492 118 34 2 40 156 24 140 4.15e-51 160
MS.gene73794.t1 MTR_2g014760 50.641 156 48 4 1 156 1 127 1.75e-42 137
MS.gene73794.t1 MTR_7g026770 51.515 99 46 2 59 156 27 124 8.96e-29 107
MS.gene73794.t1 MTR_7g022550 38.400 125 77 0 32 156 8 132 6.63e-27 98.6
MS.gene73794.t1 MTR_7g022690 38.400 125 77 0 32 156 8 132 1.19e-26 97.8
MS.gene73794.t1 MTR_2g048970 38.983 118 66 3 43 156 18 133 2.08e-26 97.1
MS.gene73794.t1 MTR_7g022710 36.800 125 79 0 32 156 8 132 1.75e-25 94.7
MS.gene73794.t1 MTR_4g119050 44.660 103 47 3 59 156 6 103 2.40e-25 93.6
MS.gene73794.t1 MTR_4g119030 44.660 103 47 3 59 156 6 103 2.40e-25 93.6
MS.gene73794.t1 MTR_4g119040 44.660 103 47 3 59 156 6 103 2.40e-25 93.6
MS.gene73794.t1 MTR_2g019900 40.404 99 56 2 59 156 6 102 1.89e-22 86.3
MS.gene73794.t1 MTR_1g015890 40.741 108 63 1 50 156 42 149 1.06e-21 85.5
MS.gene73794.t1 MTR_1g088905 39.216 102 59 2 56 156 3 102 1.94e-21 83.6
MS.gene73794.t1 MTR_7g108250 39.394 99 57 2 59 156 6 102 2.07e-20 80.9
MS.gene73794.t1 MTR_3g104510 38.318 107 59 3 50 155 17 117 1.61e-19 79.0
MS.gene73794.t1 MTR_2g019950 40.816 98 57 1 59 156 6 102 2.40e-19 78.2
MS.gene73794.t1 MTR_5g077550 40.476 84 49 1 74 156 40 123 2.26e-17 73.6
MS.gene73794.t1 MTR_7g108200 38.776 98 55 3 53 149 2 95 2.63e-16 70.5
MS.gene73794.t1 MTR_1g088925 37.374 99 55 3 53 149 2 95 5.06e-16 69.3
MS.gene73794.t1 MTR_1g088920 37.374 99 55 3 53 149 2 95 8.47e-16 68.9
MS.gene73794.t1 MTR_1g088910 33.333 99 63 2 59 156 6 102 2.91e-14 65.1
MS.gene73794.t1 MTR_7g108210 31.683 101 63 2 59 156 6 103 1.61e-12 60.5
MS.gene73794.t1 MTR_7g108220 31.683 101 63 2 59 156 6 103 1.97e-12 60.5
MS.gene73794.t1 MTR_7g108260 28.431 102 70 2 56 156 3 102 2.84e-11 57.4
MS.gene73794.t1 MTR_7g035245 38.542 96 56 2 60 154 9 102 3.50e-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.gene73794.t1 AT1G28480 58.730 126 46 3 34 156 15 137 1.84e-45 145
MS.gene73794.t1 AT1G03850 43.038 158 80 5 1 156 1 150 3.64e-33 115
MS.gene73794.t1 AT4G15690 43.137 102 53 2 57 156 4 102 1.58e-27 99.0
MS.gene73794.t1 AT5G14070 38.235 136 77 2 28 156 5 140 2.02e-27 100
MS.gene73794.t1 AT4G15700 45.098 102 51 2 57 156 4 102 3.89e-27 98.2
MS.gene73794.t1 AT4G15670 42.157 102 54 2 57 156 4 102 4.25e-26 95.5
MS.gene73794.t1 AT4G15680 42.157 102 54 2 57 156 4 102 5.05e-26 95.1
MS.gene73794.t1 AT4G15660 43.564 101 52 2 58 156 5 102 8.51e-26 94.7
MS.gene73794.t1 AT5G18600 42.718 103 54 2 56 156 3 102 6.41e-25 92.4
MS.gene73794.t1 AT3G02000 38.060 134 73 2 33 156 3 136 8.87e-25 93.2
MS.gene73794.t1 AT1G03850 38.926 149 81 5 1 147 1 141 1.41e-23 90.9
MS.gene73794.t1 AT4G33040 39.669 121 61 3 44 156 28 144 1.71e-22 87.4
MS.gene73794.t1 AT1G06830 41.837 98 52 3 53 149 2 95 4.86e-20 79.7
MS.gene73794.t1 AT3G21460 39.394 99 57 2 59 156 6 102 1.26e-19 79.0
MS.gene73794.t1 AT2G30540 40.816 98 53 3 53 149 2 95 1.45e-19 79.0
MS.gene73794.t1 AT5G11930 40.816 98 47 3 59 155 60 147 2.00e-18 77.0
MS.gene73794.t1 AT1G03020 36.275 102 60 2 57 156 4 102 3.31e-18 75.1
MS.gene73794.t1 AT3G62950 33.333 99 66 0 58 156 5 103 5.12e-18 74.7
MS.gene73794.t1 AT2G47880 38.776 98 55 3 53 149 2 95 9.72e-18 73.9
MS.gene73794.t1 AT2G47870 33.000 100 65 2 58 156 5 103 6.21e-17 72.0
MS.gene73794.t1 AT3G62960 37.755 98 56 3 53 149 2 95 1.58e-16 70.9
MS.gene73794.t1 AT3G62930 31.000 100 66 2 58 156 5 102 2.88e-16 70.1
MS.gene73794.t1 AT5G63030 42.268 97 51 2 60 154 25 118 1.12e-13 64.3
MS.gene73794.t1 AT1G03850 40.196 102 56 3 1 100 1 99 6.62e-13 62.8

Find 42 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAAGCAGGGGCTTTA+TGG 0.170216 4.3:+30037424 MS.gene73794:CDS
ATTATGGCCACTCATATTTC+TGG 0.199212 4.3:+30037384 MS.gene73794:CDS
GTCTTCATTATTAATATTAA+AGG 0.230975 4.3:-30037115 None:intergenic
TGGAGGATTGGATCGAATTA+TGG 0.271553 4.3:+30037368 MS.gene73794:CDS
CAATTTCCAGCAGTGTTTAT+AGG 0.295791 4.3:+30037333 MS.gene73794:CDS
GTCGTGAAACGGCTGCTTCT+TGG 0.301361 4.3:+30037216 MS.gene73794:CDS
CACTCATATTTCTGGTGAAT+TGG 0.303072 4.3:+30037392 MS.gene73794:CDS
TGGAAATTTGTTTGGAGGAT+TGG 0.319423 4.3:+30037356 MS.gene73794:CDS
AAACGGCTGCTTCTTGGTCT+TGG 0.351602 4.3:+30037222 MS.gene73794:CDS
AAATTGAACCTTCTCTTCAT+TGG 0.354213 4.3:-30037316 None:intergenic
TTTATAGGTGGAAATTTGTT+TGG 0.357345 4.3:+30037348 MS.gene73794:CDS
TGCAACAAGCAATTCCTTAT+AGG 0.385406 4.3:+30036983 MS.gene73794:CDS
AGTTGATGTGGTTAAAGAAT+TGG 0.396997 4.3:+30037284 MS.gene73794:CDS
GCCCCTGCTTGTTTGAGAAT+GGG 0.400721 4.3:-30037417 None:intergenic
AGCCCCTGCTTGTTTGAGAA+TGG 0.433305 4.3:-30037418 None:intergenic
CAATTGATGAGTCGTCTCAT+AGG 0.453844 4.3:+30037085 MS.gene73794:CDS
TTTCCACCTATAAACACTGC+TGG 0.456783 4.3:-30037339 None:intergenic
TTGTGTGTCCATGACCTATA+AGG 0.458940 4.3:-30036997 None:intergenic
ATTATTAATATTAAAGGAGG+AGG 0.469367 4.3:-30037109 None:intergenic
TCTTCAACCTCATGTACAGC+AGG 0.474880 4.3:-30037252 None:intergenic
GTCCCCATTCTCAAACAAGC+AGG 0.490903 4.3:+30037414 MS.gene73794:CDS
ATAGGTGGAAATTTGTTTGG+AGG 0.495571 4.3:+30037351 MS.gene73794:CDS
CAAAGTAATGTTTCATAACA+TGG 0.538713 4.3:+30037140 MS.gene73794:CDS
TTCATTATTAATATTAAAGG+AGG 0.541338 4.3:-30037112 None:intergenic
CCCCTGCTTGTTTGAGAATG+GGG 0.546193 4.3:-30037416 None:intergenic
ATCAATTGCCAATGAAGAGA+AGG 0.549243 4.3:+30037308 MS.gene73794:CDS
AAGCAATTCCTTATAGGTCA+TGG 0.551328 4.3:+30036989 MS.gene73794:CDS
TTTCCAGCAGTGTTTATAGG+TGG 0.559439 4.3:+30037336 MS.gene73794:CDS
GTTATAGTCTTTGCTAGACA+TGG 0.560272 4.3:+30037177 MS.gene73794:CDS
GAAGCAGCCGTTTCACGACA+TGG 0.561102 4.3:-30037212 None:intergenic
ACGACTCATCAATTGTATTG+TGG 0.570210 4.3:-30037077 None:intergenic
TTAGTTGTAGTTAATATGTG+TGG 0.577269 4.3:-30037051 None:intergenic
TTATTAATATTAAAGGAGGA+GGG 0.588006 4.3:-30037108 None:intergenic
GTATGAGCCATGTCGTGAAA+CGG 0.596782 4.3:+30037205 MS.gene73794:CDS
TCCCCATTCTCAAACAAGCA+GGG 0.600876 4.3:+30037415 MS.gene73794:CDS
CCCCATTCTCAAACAAGCAG+GGG 0.607397 4.3:+30037416 MS.gene73794:CDS
TGTTAATCCTGCTGTACATG+AGG 0.609818 4.3:+30037245 MS.gene73794:CDS
TTTGATAACATTGAAGTGAG+TGG 0.609915 4.3:-30037028 None:intergenic
ATAAGGAATTGCTTGTTGCA+TGG 0.616362 4.3:-30036980 None:intergenic
GATAACATTGAAGTGAGTGG+TGG 0.650872 4.3:-30037025 None:intergenic
AGAGAAAGATGAAGTTGATG+TGG 0.652903 4.3:+30037272 MS.gene73794:CDS
CAATTCACCAGAAATATGAG+TGG 0.719379 4.3:-30037391 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTCTTCATTATTAATATTAA+AGG - chr4.3:30037118-30037137 None:intergenic 15.0%
!! TTCATTATTAATATTAAAGG+AGG - chr4.3:30037115-30037134 None:intergenic 15.0%
!! ATTATTAATATTAAAGGAGG+AGG - chr4.3:30037112-30037131 None:intergenic 20.0%
!! TTATTAATATTAAAGGAGGA+GGG - chr4.3:30037111-30037130 None:intergenic 20.0%
! CAAAGTAATGTTTCATAACA+TGG + chr4.3:30037140-30037159 MS.gene73794:CDS 25.0%
! TTAGTTGTAGTTAATATGTG+TGG - chr4.3:30037054-30037073 None:intergenic 25.0%
!! TTTATAGGTGGAAATTTGTT+TGG + chr4.3:30037348-30037367 MS.gene73794:CDS 25.0%
AAATTGAACCTTCTCTTCAT+TGG - chr4.3:30037319-30037338 None:intergenic 30.0%
! AGTTGATGTGGTTAAAGAAT+TGG + chr4.3:30037284-30037303 MS.gene73794:CDS 30.0%
! TTTGATAACATTGAAGTGAG+TGG - chr4.3:30037031-30037050 None:intergenic 30.0%
AAGCAATTCCTTATAGGTCA+TGG + chr4.3:30036989-30037008 MS.gene73794:CDS 35.0%
ACGACTCATCAATTGTATTG+TGG - chr4.3:30037080-30037099 None:intergenic 35.0%
ATCAATTGCCAATGAAGAGA+AGG + chr4.3:30037308-30037327 MS.gene73794:CDS 35.0%
ATTATGGCCACTCATATTTC+TGG + chr4.3:30037384-30037403 MS.gene73794:CDS 35.0%
CAATTCACCAGAAATATGAG+TGG - chr4.3:30037394-30037413 None:intergenic 35.0%
CAATTTCCAGCAGTGTTTAT+AGG + chr4.3:30037333-30037352 MS.gene73794:CDS 35.0%
GTTATAGTCTTTGCTAGACA+TGG + chr4.3:30037177-30037196 MS.gene73794:CDS 35.0%
TGCAACAAGCAATTCCTTAT+AGG + chr4.3:30036983-30037002 MS.gene73794:CDS 35.0%
! ATAGGTGGAAATTTGTTTGG+AGG + chr4.3:30037351-30037370 MS.gene73794:CDS 35.0%
! TGGAAATTTGTTTGGAGGAT+TGG + chr4.3:30037356-30037375 MS.gene73794:CDS 35.0%
!! AGAGAAAGATGAAGTTGATG+TGG + chr4.3:30037272-30037291 MS.gene73794:CDS 35.0%
!! CACTCATATTTCTGGTGAAT+TGG + chr4.3:30037392-30037411 MS.gene73794:CDS 35.0%
CAATTGATGAGTCGTCTCAT+AGG + chr4.3:30037085-30037104 MS.gene73794:CDS 40.0%
GATAACATTGAAGTGAGTGG+TGG - chr4.3:30037028-30037047 None:intergenic 40.0%
TGGAGGATTGGATCGAATTA+TGG + chr4.3:30037368-30037387 MS.gene73794:CDS 40.0%
TGTTAATCCTGCTGTACATG+AGG + chr4.3:30037245-30037264 MS.gene73794:CDS 40.0%
TTGTGTGTCCATGACCTATA+AGG - chr4.3:30037000-30037019 None:intergenic 40.0%
TTTCCACCTATAAACACTGC+TGG - chr4.3:30037342-30037361 None:intergenic 40.0%
TTTCCAGCAGTGTTTATAGG+TGG + chr4.3:30037336-30037355 MS.gene73794:CDS 40.0%
GTATGAGCCATGTCGTGAAA+CGG + chr4.3:30037205-30037224 MS.gene73794:CDS 45.0%
TCAAACAAGCAGGGGCTTTA+TGG + chr4.3:30037424-30037443 MS.gene73794:CDS 45.0%
TCCCCATTCTCAAACAAGCA+GGG + chr4.3:30037415-30037434 MS.gene73794:CDS 45.0%
TCTTCAACCTCATGTACAGC+AGG - chr4.3:30037255-30037274 None:intergenic 45.0%
AAACGGCTGCTTCTTGGTCT+TGG + chr4.3:30037222-30037241 MS.gene73794:CDS 50.0%
AGCCCCTGCTTGTTTGAGAA+TGG - chr4.3:30037421-30037440 None:intergenic 50.0%
CCCCATTCTCAAACAAGCAG+GGG + chr4.3:30037416-30037435 MS.gene73794:CDS 50.0%
CCCCTGCTTGTTTGAGAATG+GGG - chr4.3:30037419-30037438 None:intergenic 50.0%
GCCCCTGCTTGTTTGAGAAT+GGG - chr4.3:30037420-30037439 None:intergenic 50.0%
GTCCCCATTCTCAAACAAGC+AGG + chr4.3:30037414-30037433 MS.gene73794:CDS 50.0%
GAAGCAGCCGTTTCACGACA+TGG - chr4.3:30037215-30037234 None:intergenic 55.0%
GTCGTGAAACGGCTGCTTCT+TGG + chr4.3:30037216-30037235 MS.gene73794:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 30036982 30037452 30036982 ID=MS.gene73794
chr4.3 mRNA 30036982 30037452 30036982 ID=MS.gene73794.t1;Parent=MS.gene73794
chr4.3 exon 30036982 30037452 30036982 ID=MS.gene73794.t1.exon1;Parent=MS.gene73794.t1
chr4.3 CDS 30036982 30037452 30036982 ID=cds.MS.gene73794.t1;Parent=MS.gene73794.t1
Gene Sequence

>MS.gene73794

ATGCAACAAGCAATTCCTTATAGGTCATGGACACACAACACTTCCACCACTCACTTCAATGTTATCAAACCACACATATTAACTACAACTAAAATCCACAATACAATTGATGAGTCGTCTCATAGGCCCTCCTCCTTTAATATTAATAATGAAGACGACAAAGTAATGTTTCATAACATGGTATCAGAGAACGCAGTTATAGTCTTTGCTAGACATGGATGTTGTATGAGCCATGTCGTGAAACGGCTGCTTCTTGGTCTTGGTGTTAATCCTGCTGTACATGAGGTTGAAGAGAAAGATGAAGTTGATGTGGTTAAAGAATTGGAATCAATTGCCAATGAAGAGAAGGTTCAATTTCCAGCAGTGTTTATAGGTGGAAATTTGTTTGGAGGATTGGATCGAATTATGGCCACTCATATTTCTGGTGAATTGGTCCCCATTCTCAAACAAGCAGGGGCTTTATGGCTTTGA
Protein sequence

>MS.gene73794.t1

MQQAIPYRSWTHNTSTTHFNVIKPHILTTTKIHNTIDESSHRPSSFNINNEDDKVMFHNMVSENAVIVFARHGCCMSHVVKRLLLGLGVNPAVHEVEEKDEVDVVKELESIANEEKVQFPAVFIGGNLFGGLDRIMATHISGELVPILKQAGALWL