AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95652

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95652.t1 MTR_7g069590 91.195 159 8 1 1 159 1 153 6.70e-90 258
MS.gene95652.t1 MTR_3g101810 60.294 68 27 0 18 85 163 230 1.44e-23 93.6
MS.gene95652.t1 MTR_8g093500 60.606 66 26 0 22 87 110 175 5.54e-22 89.4
MS.gene95652.t1 MTR_5g079500 64.151 53 19 0 33 85 225 277 4.14e-17 76.6
MS.gene95652.t1 MTR_5g017210 58.108 74 31 0 18 91 129 202 7.43e-17 75.1
MS.gene95652.t1 MTR_1g018090 50.000 66 29 1 22 87 274 335 1.98e-16 75.5
MS.gene95652.t1 MTR_5g005110 56.667 60 26 0 28 87 226 285 3.22e-16 74.3
MS.gene95652.t1 MTR_1g106460 51.471 68 30 1 20 87 235 299 4.15e-16 74.3
MS.gene95652.t1 MTR_1g106470 50.769 65 31 1 23 87 194 257 2.95e-15 71.2
MS.gene95652.t1 MTR_8g015450 55.405 74 33 0 23 96 325 398 4.10e-15 71.6
MS.gene95652.t1 MTR_2g100490 48.718 78 40 0 22 99 286 363 1.24e-14 70.5
MS.gene95652.t1 MTR_3g103030 49.231 65 29 1 23 87 230 290 1.57e-14 69.7
MS.gene95652.t1 MTR_4g131160 36.782 87 51 1 3 85 169 255 3.64e-12 63.2
MS.gene95652.t1 MTR_4g131160 36.782 87 51 1 3 85 172 258 3.69e-12 63.2
MS.gene95652.t1 MTR_1g060700 41.935 62 36 0 33 94 354 415 2.10e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95652.t1 AT5G01305 65.060 83 29 0 15 97 26 108 3.93e-34 118
MS.gene95652.t1 AT3G21330 46.591 88 47 0 22 109 265 352 2.97e-21 89.0
MS.gene95652.t1 AT4G00120 53.030 66 31 0 22 87 108 173 1.43e-19 81.3
MS.gene95652.t1 AT5G43175 38.655 119 57 3 2 105 102 219 5.42e-19 80.5
MS.gene95652.t1 AT1G27740 42.241 116 53 4 12 124 150 254 1.21e-17 77.4
MS.gene95652.t1 AT4G33880 51.515 66 28 1 22 87 266 327 8.70e-17 76.3
MS.gene95652.t1 AT5G67060 61.765 68 26 0 18 85 114 181 9.06e-17 75.1
MS.gene95652.t1 AT5G67060 61.765 68 26 0 18 85 102 169 1.01e-16 74.7
MS.gene95652.t1 AT3G50330 61.765 68 26 0 18 85 111 178 1.60e-16 73.9
MS.gene95652.t1 AT5G09750 65.152 66 23 0 22 87 115 180 4.36e-16 72.8
MS.gene95652.t1 AT1G66470 47.059 85 43 2 3 85 170 254 4.94e-16 73.6
MS.gene95652.t1 AT2G14760 43.750 80 37 1 28 99 239 318 1.04e-15 73.2
MS.gene95652.t1 AT5G37800 58.824 51 21 0 35 85 210 260 2.90e-15 71.6
MS.gene95652.t1 AT4G30980 42.667 75 39 1 11 85 119 189 3.75e-13 65.9
MS.gene95652.t1 AT4G30980 42.667 75 39 1 11 85 167 237 4.90e-13 65.9
MS.gene95652.t1 AT2G24260 50.909 55 27 0 33 87 42 96 1.22e-12 63.9
MS.gene95652.t1 AT2G14760 36.364 99 38 3 22 99 237 331 2.40e-12 63.9
MS.gene95652.t1 AT2G24260 52.830 53 25 0 33 85 145 197 2.77e-12 63.5
MS.gene95652.t1 AT5G58010 42.029 69 36 1 17 85 94 158 2.93e-11 60.5

Find 23 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACACTTTCTCTTATTCTTA+TGG 0.169939 7.4:+34148451 MS.gene95652:CDS
ATTAACTTTGTTGATGATAT+TGG 0.283073 7.4:+34148715 MS.gene95652:CDS
TCTCTAGCTGCAACACTTTG+TGG 0.303892 7.4:-34148547 None:intergenic
ACACTTTCTCTTATTCTTAT+GGG 0.318721 7.4:+34148452 MS.gene95652:CDS
TAGACTCAAATGAACCTAAA+AGG 0.329354 7.4:-34148807 None:intergenic
GATCCCTGGTGGAAGTAAAT+TGG 0.340425 7.4:+34148615 MS.gene95652:CDS
AAGTTTCACTGAACTTCCTT+TGG 0.367586 7.4:-34148515 None:intergenic
AGTTTCTTAAGAAACAGATT+TGG 0.417653 7.4:+34148677 MS.gene95652:CDS
ACCTAAAAGGTTGTGCTGAA+TGG 0.469930 7.4:-34148794 None:intergenic
TTTCATAGTGGCATCAAAGA+TGG 0.476710 7.4:-34148893 None:intergenic
ATTGGACACTGTTTCAATGT+TGG 0.489547 7.4:+34148633 MS.gene95652:CDS
GAAGACATAGAATCAGTGAT+AGG 0.495589 7.4:+34148572 MS.gene95652:CDS
GGACACTGTTTCAATGTTGG+AGG 0.517367 7.4:+34148636 MS.gene95652:CDS
TGGGTCATGTTCAAAGAGAA+AGG 0.518124 7.4:+34148471 MS.gene95652:CDS
TTTCTTAGCTAGCACATGGA+TGG 0.556000 7.4:+34148427 None:intergenic
GGCTAATTAATATTTCATAG+TGG 0.574341 7.4:-34148905 None:intergenic
TGAAAACAGAACTGCTCTAG+TGG 0.577339 7.4:-34148850 None:intergenic
GTGTCCAATTTACTTCCACC+AGG 0.595621 7.4:-34148619 None:intergenic
TCATTTGAAGAATAATCTTG+AGG 0.620010 7.4:-34148757 None:intergenic
ATTCTTCTGAGTATGATCCC+TGG 0.621408 7.4:+34148601 MS.gene95652:CDS
CTTCTGAGTATGATCCCTGG+TGG 0.662169 7.4:+34148604 MS.gene95652:CDS
AACTGCTCTAGTGGTAACTG+TGG 0.687966 7.4:-34148841 None:intergenic
TGTCCAATTTACTTCCACCA+GGG 0.712775 7.4:-34148618 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTAACTTTGTTGATGATAT+TGG + chr7.4:34148715-34148734 MS.gene95652:CDS 20.0%
! AACACTTTCTCTTATTCTTA+TGG + chr7.4:34148451-34148470 MS.gene95652:CDS 25.0%
! ACACTTTCTCTTATTCTTAT+GGG + chr7.4:34148452-34148471 MS.gene95652:CDS 25.0%
! AGTTTCTTAAGAAACAGATT+TGG + chr7.4:34148677-34148696 MS.gene95652:CDS 25.0%
! TCATTTGAAGAATAATCTTG+AGG - chr7.4:34148760-34148779 None:intergenic 25.0%
TAGACTCAAATGAACCTAAA+AGG - chr7.4:34148810-34148829 None:intergenic 30.0%
TCAAAGAGAAAGGAGAAAAA+AGG + chr7.4:34148481-34148500 MS.gene95652:CDS 30.0%
! AAAGGTGTGAAAAAATCCAA+AGG + chr7.4:34148499-34148518 MS.gene95652:CDS 30.0%
AAGTTTCACTGAACTTCCTT+TGG - chr7.4:34148518-34148537 None:intergenic 35.0%
ATTGGACACTGTTTCAATGT+TGG + chr7.4:34148633-34148652 MS.gene95652:CDS 35.0%
GAAGACATAGAATCAGTGAT+AGG + chr7.4:34148572-34148591 MS.gene95652:CDS 35.0%
TTTCATAGTGGCATCAAAGA+TGG - chr7.4:34148896-34148915 None:intergenic 35.0%
ACCTAAAAGGTTGTGCTGAA+TGG - chr7.4:34148797-34148816 None:intergenic 40.0%
ATTCTTCTGAGTATGATCCC+TGG + chr7.4:34148601-34148620 MS.gene95652:CDS 40.0%
TGAAAACAGAACTGCTCTAG+TGG - chr7.4:34148853-34148872 None:intergenic 40.0%
TGGGTCATGTTCAAAGAGAA+AGG + chr7.4:34148471-34148490 MS.gene95652:CDS 40.0%
TGTCCAATTTACTTCCACCA+GGG - chr7.4:34148621-34148640 None:intergenic 40.0%
! CTAGAGCAGTTCTGTTTTCA+AGG + chr7.4:34148853-34148872 MS.gene95652:CDS 40.0%
! TCCATTCAGCACAACCTTTT+AGG + chr7.4:34148793-34148812 MS.gene95652:CDS 40.0%
AACTGCTCTAGTGGTAACTG+TGG - chr7.4:34148844-34148863 None:intergenic 45.0%
GATCCCTGGTGGAAGTAAAT+TGG + chr7.4:34148615-34148634 MS.gene95652:CDS 45.0%
GGACACTGTTTCAATGTTGG+AGG + chr7.4:34148636-34148655 MS.gene95652:CDS 45.0%
GTGTCCAATTTACTTCCACC+AGG - chr7.4:34148622-34148641 None:intergenic 45.0%
TCTCTAGCTGCAACACTTTG+TGG - chr7.4:34148550-34148569 None:intergenic 45.0%
CTTCTGAGTATGATCCCTGG+TGG + chr7.4:34148604-34148623 MS.gene95652:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 34148442 34148921 34148442 ID=MS.gene95652
chr7.4 mRNA 34148442 34148921 34148442 ID=MS.gene95652.t1;Parent=MS.gene95652
chr7.4 exon 34148442 34148921 34148442 ID=MS.gene95652.t1.exon1;Parent=MS.gene95652.t1
chr7.4 CDS 34148442 34148921 34148442 ID=cds.MS.gene95652.t1;Parent=MS.gene95652.t1
Gene Sequence

>MS.gene95652

ATGGATGGTAACACTTTCTCTTATTCTTATGGGTCATGTTCAAAGAGAAAGGAGAAAAAAGGTGTGAAAAAATCCAAAGGAAGTTCAGTGAAACTTTCAACTGATCCACAAAGTGTTGCAGCTAGAGAAAGAAGACATAGAATCAGTGATAGGTTCAAGATTCTTCTGAGTATGATCCCTGGTGGAAGTAAATTGGACACTGTTTCAATGTTGGAGGAAGCTATTCATTATGTTAAGTTTCTTAAGAAACAGATTTGGCTTCATGAAACATTGATTAACTTTGTTGATGATATTGGTGAGTCACACATGTTGCTTCCTCAAGATTATTCTTCAAATGATAAAAATATTCATTCCATTCAGCACAACCTTTTAGGTTCATTTGAGTCTATGCAGAATTTGCCACAGTTACCACTAGAGCAGTTCTGTTTTCAAGGAGATGAAGATATGAAAACCATCTTTGATGCCACTATGAAATATTAA
Protein sequence

>MS.gene95652.t1

MDGNTFSYSYGSCSKRKEKKGVKKSKGSSVKLSTDPQSVAARERRHRISDRFKILLSMIPGGSKLDTVSMLEEAIHYVKFLKKQIWLHETLINFVDDIGESHMLLPQDYSSNDKNIHSIQHNLLGSFESMQNLPQLPLEQFCFQGDEDMKTIFDATMKY