AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063503


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063503.t1 MTR_4g109660 96.743 307 5 5 1 304 1 305 0.0 583
MS.gene063503.t1 MTR_3g026050 43.478 368 128 14 4 297 3 364 2.82e-61 199
MS.gene063503.t1 MTR_7g015010 61.017 118 45 1 1 117 1 118 1.64e-43 152
MS.gene063503.t1 MTR_6g015350 71.429 84 24 0 38 121 31 114 1.49e-37 136
MS.gene063503.t1 MTR_8g463380 52.809 89 42 0 29 117 27 115 3.20e-22 96.7
MS.gene063503.t1 MTR_4g079580 54.321 81 37 0 49 129 15 95 4.94e-22 94.7
MS.gene063503.t1 MTR_2g090960 61.765 68 26 0 50 117 18 85 2.97e-21 92.4
MS.gene063503.t1 MTR_2g078200 58.824 68 28 0 50 117 14 81 3.67e-20 89.0
MS.gene063503.t1 MTR_1g103380 50.000 60 30 0 55 114 200 259 2.52e-12 67.4
MS.gene063503.t1 MTR_7g018500 49.123 57 29 0 58 114 122 178 4.08e-12 66.6
MS.gene063503.t1 MTR_6g017055 48.276 58 30 0 57 114 127 184 6.09e-12 66.2
MS.gene063503.t1 MTR_4g111935 48.276 58 30 0 57 114 133 190 7.93e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063503.t1 AT5G60970 80.682 88 16 1 39 125 45 132 3.51e-46 160
MS.gene063503.t1 AT3G02150 38.652 282 124 11 10 267 28 284 3.05e-44 154
MS.gene063503.t1 AT3G02150 44.019 209 100 7 10 201 28 236 3.37e-44 152
MS.gene063503.t1 AT5G08070 63.810 105 34 2 21 125 2 102 6.45e-40 140
MS.gene063503.t1 AT5G08070 63.810 105 34 2 21 125 2 102 6.45e-40 140
MS.gene063503.t1 AT1G30210 55.752 113 44 3 8 118 4 112 3.35e-30 117
MS.gene063503.t1 AT1G30210 55.752 113 44 3 8 118 4 112 3.35e-30 117
MS.gene063503.t1 AT4G18390 68.493 73 23 0 46 118 32 104 2.63e-28 112
MS.gene063503.t1 AT4G18390 68.493 73 23 0 46 118 32 104 2.63e-28 112
MS.gene063503.t1 AT1G53230 58.228 79 30 1 50 125 43 121 2.24e-23 99.4
MS.gene063503.t1 AT1G53230 58.228 79 30 1 50 125 43 121 2.24e-23 99.4
MS.gene063503.t1 AT3G15030 61.765 68 26 0 50 117 39 106 3.49e-22 96.3
MS.gene063503.t1 AT3G15030 61.765 68 26 0 50 117 39 106 3.49e-22 96.3
MS.gene063503.t1 AT3G15030 61.765 68 26 0 50 117 39 106 3.49e-22 96.3
MS.gene063503.t1 AT3G15030 61.765 68 26 0 50 117 39 106 3.49e-22 96.3
MS.gene063503.t1 AT2G31070 61.538 65 25 0 50 114 23 87 2.19e-20 90.5
MS.gene063503.t1 AT1G68800 46.269 67 36 0 48 114 104 170 1.10e-14 73.9
MS.gene063503.t1 AT1G68800 46.269 67 36 0 48 114 104 170 1.16e-14 73.9
MS.gene063503.t1 AT1G67260 41.429 70 41 0 45 114 76 145 5.94e-14 72.0
MS.gene063503.t1 AT1G67260 41.429 70 41 0 45 114 76 145 5.94e-14 72.0
MS.gene063503.t1 AT1G67260 41.429 70 41 0 45 114 76 145 7.28e-14 71.6
MS.gene063503.t1 AT3G18550 39.024 82 49 1 33 114 126 206 1.72e-12 67.8
MS.gene063503.t1 AT3G18550 39.024 82 49 1 33 114 126 206 1.76e-12 67.8
MS.gene063503.t1 AT3G18550 39.024 82 49 1 33 114 126 206 1.76e-12 67.8
MS.gene063503.t1 AT3G18550 39.024 82 49 1 33 114 126 206 2.25e-12 67.8

Find 52 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTCTAAACGGCGAATTTAT+TGG 0.202116 8.4:+17992641 None:intergenic
GAAATAAATTACCATGATTA+TGG 0.231308 8.4:+17992906 None:intergenic
ACTCTATCTTTATCACAATT+TGG 0.233467 8.4:-17992932 MS.gene063503:CDS
CGTGACACTCTCACTATTCT+TGG 0.252002 8.4:+17993352 None:intergenic
TACTACCTGGTTGCTGAAAT+AGG 0.258592 8.4:+17993101 None:intergenic
CTACCATAACTACCCATTTC+TGG 0.267833 8.4:+17992568 None:intergenic
AGCAAAGTTTGCACAATTAG+AGG 0.305586 8.4:-17993304 MS.gene063503:CDS
TGATGTAGCTATTGCTTTGT+TGG 0.307657 8.4:+17993399 None:intergenic
CTTGAAGGATCCAAGTTATA+TGG 0.309016 8.4:+17992956 None:intergenic
GTGAGAGTGTCACGTTCTTT+AGG 0.317533 8.4:-17993343 MS.gene063503:CDS
GATCATAATAACACCAGAAA+TGG 0.326102 8.4:-17992581 MS.gene063503:CDS
ACTTTCAGCTTCTTTACCTT+TGG 0.338139 8.4:+17993036 None:intergenic
GATTAAGAGACCGTAGGATT+AGG 0.348209 8.4:-17993282 MS.gene063503:CDS
TGTGAATTACCAGATGAATT+AGG 0.362279 8.4:+17992818 None:intergenic
ACTACCTGGTTGCTGAAATA+GGG 0.363637 8.4:+17993102 None:intergenic
AATACTAATTATTCATCAAA+TGG 0.403938 8.4:-17992989 MS.gene063503:CDS
CTAGTACTTATTTGATAAGA+AGG 0.404054 8.4:+17992884 None:intergenic
TTTATTGGAAGATGAATAGT+TGG 0.406511 8.4:+17992656 None:intergenic
ATATCACTACTTTCCATTGA+AGG 0.421398 8.4:+17992734 None:intergenic
AGAAGCTGAAAGTTCAGAAA+AGG 0.433467 8.4:-17993026 MS.gene063503:CDS
TACTCTGAATGCTCCTTCAA+TGG 0.440393 8.4:-17992747 MS.gene063503:CDS
TTGACAGTACCTAATTCATC+TGG 0.458238 8.4:-17992827 MS.gene063503:CDS
AACCTAGCAAAGTTGTTGAA+TGG 0.462940 8.4:-17993201 MS.gene063503:CDS
AGTGTTGGATGGCGTCTAAA+CGG 0.463809 8.4:+17992629 None:intergenic
GGATCCAAGTTATATGGAAA+AGG 0.479271 8.4:+17992962 None:intergenic
ATCATAATAACACCAGAAAT+GGG 0.498797 8.4:-17992580 MS.gene063503:CDS
TGTTGCTGAGTGAAACTTTG+AGG 0.500197 8.4:+17993127 None:intergenic
ATGATCTGAATCAAGAAGCT+TGG 0.500537 8.4:+17992598 None:intergenic
ATTCAAGATCTGAACATGGT+TGG 0.505156 8.4:+17992700 None:intergenic
AGAAGGTGAACATGGAAGAA+TGG 0.508923 8.4:-17993437 MS.gene063503:CDS
GATAAAGATAGAGTACTTGA+AGG 0.512410 8.4:+17992941 None:intergenic
AACCATTCAACAACTTTGCT+AGG 0.525009 8.4:+17993199 None:intergenic
GAAGCTGAAAGTTCAGAAAA+GGG 0.530447 8.4:-17993025 MS.gene063503:CDS
AGCTTGGAACTAAACAGTGT+TGG 0.544286 8.4:+17992614 None:intergenic
TCATATAACTGAATTGCTGT+TGG 0.568969 8.4:+17993250 None:intergenic
AGAGTGTCACGTTCTTTAGG+AGG 0.573587 8.4:-17993340 MS.gene063503:CDS
TATGGTATGAATCAAACCAA+AGG 0.575151 8.4:-17993052 MS.gene063503:CDS
CAATTTGGAAGCCATAATCA+TGG 0.577888 8.4:-17992917 MS.gene063503:CDS
TATGATCTTCAAGATAGACT+TGG 0.589871 8.4:-17993232 MS.gene063503:CDS
ACAAAACAAGAAGGTGAACA+TGG 0.590894 8.4:-17993445 MS.gene063503:CDS
AAAGAAGCAACAAAACAAGA+AGG 0.599775 8.4:-17993454 MS.gene063503:CDS
GTACAGACAACCTAATCCTA+CGG 0.604529 8.4:+17993272 None:intergenic
TCTTATCAAATAAGTACTAG+TGG 0.608228 8.4:-17992881 MS.gene063503:CDS
TGGAATGAAAGAACTAGTTG+AGG 0.611182 8.4:+17992676 None:intergenic
GATGGCAATGGCATAACAGA+AGG 0.624451 8.4:+17992782 None:intergenic
TGGAACTAAACAGTGTTGGA+TGG 0.631286 8.4:+17992618 None:intergenic
AAACTTTGAGGAATATCAAG+TGG 0.636206 8.4:+17993139 None:intergenic
CAATAGCTACATCAAGACAA+TGG 0.639730 8.4:-17993390 MS.gene063503:CDS
CTTTGAGGAATATCAAGTGG+TGG 0.640320 8.4:+17993142 None:intergenic
CAAACCCTATTTCAGCAACC+AGG 0.642234 8.4:-17993106 MS.gene063503:CDS
TTAGAGGATTAAGAGACCGT+AGG 0.643012 8.4:-17993288 MS.gene063503:CDS
AGGAATTCAAGATCTGAACA+TGG 0.663463 8.4:+17992696 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACTAATTATTCATCAAA+TGG - chr8.4:17993072-17993091 MS.gene063503:CDS 15.0%
!! GAAATAAATTACCATGATTA+TGG + chr8.4:17993158-17993177 None:intergenic 20.0%
! ACTCTATCTTTATCACAATT+TGG - chr8.4:17993129-17993148 MS.gene063503:CDS 25.0%
! ATCATAATAACACCAGAAAT+GGG - chr8.4:17993481-17993500 MS.gene063503:CDS 25.0%
! CTAGTACTTATTTGATAAGA+AGG + chr8.4:17993180-17993199 None:intergenic 25.0%
! TCTTATCAAATAAGTACTAG+TGG - chr8.4:17993180-17993199 MS.gene063503:CDS 25.0%
! TTTATTGGAAGATGAATAGT+TGG + chr8.4:17993408-17993427 None:intergenic 25.0%
!! TTTTCCTTTTCCATATAACT+TGG - chr8.4:17993095-17993114 MS.gene063503:CDS 25.0%
AAAGAAGCAACAAAACAAGA+AGG - chr8.4:17992607-17992626 MS.gene063503:CDS 30.0%
ATATCACTACTTTCCATTGA+AGG + chr8.4:17993330-17993349 None:intergenic 30.0%
GATCATAATAACACCAGAAA+TGG - chr8.4:17993480-17993499 MS.gene063503:CDS 30.0%
TATGATCTTCAAGATAGACT+TGG - chr8.4:17992829-17992848 MS.gene063503:CDS 30.0%
TATGGTATGAATCAAACCAA+AGG - chr8.4:17993009-17993028 MS.gene063503:CDS 30.0%
TCATATAACTGAATTGCTGT+TGG + chr8.4:17992814-17992833 None:intergenic 30.0%
TGTGAATTACCAGATGAATT+AGG + chr8.4:17993246-17993265 None:intergenic 30.0%
! AAACTTTGAGGAATATCAAG+TGG + chr8.4:17992925-17992944 None:intergenic 30.0%
! AGAGTACTAGTAAAAAGTGA+TGG + chr8.4:17993300-17993319 None:intergenic 30.0%
! GATAAAGATAGAGTACTTGA+AGG + chr8.4:17993123-17993142 None:intergenic 30.0%
AACCATTCAACAACTTTGCT+AGG + chr8.4:17992865-17992884 None:intergenic 35.0%
AACCTAGCAAAGTTGTTGAA+TGG - chr8.4:17992860-17992879 MS.gene063503:CDS 35.0%
ACAAAACAAGAAGGTGAACA+TGG - chr8.4:17992616-17992635 MS.gene063503:CDS 35.0%
ACTTTCAGCTTCTTTACCTT+TGG + chr8.4:17993028-17993047 None:intergenic 35.0%
AGAAGCTGAAAGTTCAGAAA+AGG - chr8.4:17993035-17993054 MS.gene063503:CDS 35.0%
AGAGAAAAACAAGTACTACC+TGG + chr8.4:17992976-17992995 None:intergenic 35.0%
AGCAAAGTTTGCACAATTAG+AGG - chr8.4:17992757-17992776 MS.gene063503:CDS 35.0%
AGGAATTCAAGATCTGAACA+TGG + chr8.4:17993368-17993387 None:intergenic 35.0%
ATGATCTGAATCAAGAAGCT+TGG + chr8.4:17993466-17993485 None:intergenic 35.0%
ATTCAAGATCTGAACATGGT+TGG + chr8.4:17993364-17993383 None:intergenic 35.0%
CAATAGCTACATCAAGACAA+TGG - chr8.4:17992671-17992690 MS.gene063503:CDS 35.0%
CAATTTGGAAGCCATAATCA+TGG - chr8.4:17993144-17993163 MS.gene063503:CDS 35.0%
CTAGTAAAAAGTGATGGCAA+TGG + chr8.4:17993294-17993313 None:intergenic 35.0%
CTTGAAGGATCCAAGTTATA+TGG + chr8.4:17993108-17993127 None:intergenic 35.0%
GAAGCTGAAAGTTCAGAAAA+GGG - chr8.4:17993036-17993055 MS.gene063503:CDS 35.0%
GGATCCAAGTTATATGGAAA+AGG + chr8.4:17993102-17993121 None:intergenic 35.0%
TGATGTAGCTATTGCTTTGT+TGG + chr8.4:17992665-17992684 None:intergenic 35.0%
TGGAATGAAAGAACTAGTTG+AGG + chr8.4:17993388-17993407 None:intergenic 35.0%
TTGACAGTACCTAATTCATC+TGG - chr8.4:17993234-17993253 MS.gene063503:CDS 35.0%
!! AGTACTTGTTTTTCTCTTGG+AGG - chr8.4:17992979-17992998 MS.gene063503:CDS 35.0%
!! GGTAGTACTTGTTTTTCTCT+TGG - chr8.4:17992976-17992995 MS.gene063503:CDS 35.0%
ACTACCTGGTTGCTGAAATA+GGG + chr8.4:17992962-17992981 None:intergenic 40.0%
AGAAGGTGAACATGGAAGAA+TGG - chr8.4:17992624-17992643 MS.gene063503:CDS 40.0%
AGCTTGGAACTAAACAGTGT+TGG + chr8.4:17993450-17993469 None:intergenic 40.0%
CGTCTAAACGGCGAATTTAT+TGG + chr8.4:17993423-17993442 None:intergenic 40.0%
GATTAAGAGACCGTAGGATT+AGG - chr8.4:17992779-17992798 MS.gene063503:CDS 40.0%
GTACAGACAACCTAATCCTA+CGG + chr8.4:17992792-17992811 None:intergenic 40.0%
TACTACCTGGTTGCTGAAAT+AGG + chr8.4:17992963-17992982 None:intergenic 40.0%
TACTCTGAATGCTCCTTCAA+TGG - chr8.4:17993314-17993333 MS.gene063503:CDS 40.0%
TGTTGCTGAGTGAAACTTTG+AGG + chr8.4:17992937-17992956 None:intergenic 40.0%
TTAGAGGATTAAGAGACCGT+AGG - chr8.4:17992773-17992792 MS.gene063503:CDS 40.0%
! CTTTGAGGAATATCAAGTGG+TGG + chr8.4:17992922-17992941 None:intergenic 40.0%
! TCTCTTGGAGGTGGTTTTTA+TGG - chr8.4:17992991-17993010 MS.gene063503:CDS 40.0%
! TGGAACTAAACAGTGTTGGA+TGG + chr8.4:17993446-17993465 None:intergenic 40.0%
!! ACTTGTTTTTCTCTTGGAGG+TGG - chr8.4:17992982-17993001 MS.gene063503:CDS 40.0%
CAAACCCTATTTCAGCAACC+AGG - chr8.4:17992955-17992974 MS.gene063503:CDS 45.0%
CGTGACACTCTCACTATTCT+TGG + chr8.4:17992712-17992731 None:intergenic 45.0%
GATGGCAATGGCATAACAGA+AGG + chr8.4:17993282-17993301 None:intergenic 45.0%
! AGAGTGTCACGTTCTTTAGG+AGG - chr8.4:17992721-17992740 MS.gene063503:CDS 45.0%
! AGTGTTGGATGGCGTCTAAA+CGG + chr8.4:17993435-17993454 None:intergenic 45.0%
!! GTGAGAGTGTCACGTTCTTT+AGG - chr8.4:17992718-17992737 MS.gene063503:CDS 45.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 17992577 17993506 17992577 ID=MS.gene063503
chr8.4 mRNA 17992577 17993506 17992577 ID=MS.gene063503.t1;Parent=MS.gene063503
chr8.4 exon 17992577 17993506 17992577 ID=MS.gene063503.t1.exon1;Parent=MS.gene063503.t1
chr8.4 CDS 17992577 17993506 17992577 ID=cds.MS.gene063503.t1;Parent=MS.gene063503.t1
Gene Sequence

>MS.gene063503

ATGATAGAAAGTTCAAGTAAAGATTATAACAAAGAAGCAACAAAACAAGAAGGTGAACATGGAAGAATGGAATCAGAGAAATTCTCCAACAAAGCAATAGCTACATCAAGACAATGGACATCATTAAGAAATCCAAGAATAGTGAGAGTGTCACGTTCTTTAGGAGGAAAAGATAGACACAGCAAAGTTTGCACAATTAGAGGATTAAGAGACCGTAGGATTAGGTTGTCTGTACCAACAGCAATTCAGTTATATGATCTTCAAGATAGACTTGGTTTAAGTCAACCTAGCAAAGTTGTTGAATGGTTAATTGAAGCAACTCAATCTGATATTGATAAATTACCACCACTTGATATTCCTCAAAGTTTCACTCAGCAACAAACCCTATTTCAGCAACCAGGTAGTACTTGTTTTTCTCTTGGAGGTGGTTTTTATGGTATGAATCAAACCAAAGGTAAAGAAGCTGAAAGTTCAGAAAAGGGTAATAATTATTATAATACTAATTATTCATCAAATGGTTTTCCTTTTCCATATAACTTGGATCCTTCAAGTACTCTATCTTTATCACAATTTGGAAGCCATAATCATGGTAATTTATTTCCTTCTTATCAAATAAGTACTAGTGGCAGTGATATGCAATTTTCATCATCTTCAAATTTGACAGTACCTAATTCATCTGGTAATTCACAGTTACTTTTTTGTCCTTCTGTTATGCCATTGCCATCACTTTTTACTAGTACTCTGAATGCTCCTTCAATGGAAAGTAGTGATATTCAAAGACAATCCAACCATGTTCAGATCTTGAATTCCTCAACTAGTTCTTTCATTCCAACTATTCATCTTCCAATAAATTCGCCGTTTAGACGCCATCCAACACTGTTTAGTTCCAAGCTTCTTGATTCAGATCATAATAACACCAGAAATGGGTAG

Protein sequence

>MS.gene063503.t1

MIESSSKDYNKEATKQEGEHGRMESEKFSNKAIATSRQWTSLRNPRIVRVSRSLGGKDRHSKVCTIRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVVEWLIEATQSDIDKLPPLDIPQSFTQQQTLFQQPGSTCFSLGGGFYGMNQTKGKEAESSEKGNNYYNTNYSSNGFPFPYNLDPSSTLSLSQFGSHNHGNLFPSYQISTSGSDMQFSSSSNLTVPNSSGNSQLLFCPSVMPLPSLFTSTLNAPSMESSDIQRQSNHVQILNSSTSSFIPTIHLPINSPFRRHPTLFSSKLLDSDHNNTRNG