AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051789


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051789.t1 MTR_7g108130 94.767 172 8 1 1 171 1 172 2.05e-116 327
MS.gene051789.t1 MTR_4g118810 42.373 177 91 2 1 166 1 177 2.11e-44 145
MS.gene051789.t1 MTR_2g020060 43.836 146 75 2 31 170 26 170 1.91e-34 120
MS.gene051789.t1 MTR_8g089300 30.409 171 109 4 2 166 4 170 1.87e-20 84.0
MS.gene051789.t1 MTR_4g118800 33.333 147 91 3 26 170 26 167 3.72e-20 83.2
MS.gene051789.t1 MTR_4g081880 30.000 150 100 3 21 168 22 168 1.32e-15 71.2
MS.gene051789.t1 MTR_0097s0070 29.771 131 86 2 45 169 44 174 1.48e-14 68.6
MS.gene051789.t1 MTR_7g083120 29.078 141 94 3 31 169 33 169 1.09e-13 65.9
MS.gene051789.t1 MTR_5g041900 29.655 145 97 3 26 168 26 167 1.15e-13 65.9
MS.gene051789.t1 MTR_7g011090 27.632 152 105 3 20 169 20 168 7.58e-12 61.2
MS.gene051789.t1 MTR_0004s0210 28.369 141 91 3 29 169 9 139 3.04e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051789.t1 AT4G15630 38.636 176 101 2 1 170 1 175 2.86e-38 129
MS.gene051789.t1 AT4G15620 37.500 176 103 2 1 170 1 175 6.03e-36 124
MS.gene051789.t1 AT4G15610 30.994 171 114 3 1 167 1 171 1.70e-23 92.0
MS.gene051789.t1 AT3G06390 34.074 135 85 2 29 159 38 172 4.66e-18 77.8
MS.gene051789.t1 AT4G15610 31.250 112 71 2 63 168 5 116 1.20e-16 72.8
MS.gene051789.t1 AT4G20390 36.090 133 79 3 32 158 22 154 1.89e-16 73.6
MS.gene051789.t1 AT5G44550 33.793 145 88 3 32 169 22 165 5.26e-16 72.4
MS.gene051789.t1 AT5G15290 27.211 147 100 3 21 164 21 163 2.04e-15 70.5
MS.gene051789.t1 AT1G14160 28.571 140 97 3 26 164 49 186 3.12e-11 59.7

Find 0 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAATATGTTAGTTAATAA+CGG - 51715:6207-6226 MS.gene051789:intron 10.0%
!! TTTAAAAAATTGTAAAAGAA+AGG + 51715:5924-5943 None:intergenic 10.0%
!!! TTTTTCTTCAAAAAAATTAA+TGG + 51715:6527-6546 None:intergenic 10.0%
!! AAAAAAATATAAAACAAACG+AGG + 51715:6864-6883 None:intergenic 15.0%
!! AATACATTTATATTCCAAAT+AGG + 51715:6676-6695 None:intergenic 15.0%
!! AGTGACTAAAAATAAAATAA+AGG + 51715:6188-6207 None:intergenic 15.0%
!! ATACATTTATATTCCAAATA+GGG + 51715:6675-6694 None:intergenic 15.0%
!! TTCATTAACAAATGTTATAA+GGG - 51715:5863-5882 MS.gene051789:intron 15.0%
!! TTTCATTAACAAATGTTATA+AGG - 51715:5862-5881 MS.gene051789:intron 15.0%
!!! AAATGTTTTAAGAAAGTAAA+TGG - 51715:6111-6130 MS.gene051789:intron 15.0%
!!! ATATATTGATTGATTACTAA+TGG + 51715:6300-6319 None:intergenic 15.0%
!!! ATTTAGTTTTTGAAATGTTA+AGG - 51715:5738-5757 MS.gene051789:intron 15.0%
!!! GATGAATTAATTTTTTTGAA+AGG + 51715:6439-6458 None:intergenic 15.0%
!!! GTATATAGTTTTGAAAATTT+AGG + 51715:6088-6107 None:intergenic 15.0%
!!! TATTTGGAATATAAATGTAT+TGG - 51715:6675-6694 MS.gene051789:intron 15.0%
!!! TATTTTTTTGAAAATGTTTC+TGG - 51715:5986-6005 MS.gene051789:intron 15.0%
!!! TTTAGTTTTTGAAATGTTAA+GGG - 51715:5739-5758 MS.gene051789:intron 15.0%
!! AAAAAATTGTAAAAGAAAGG+TGG + 51715:5921-5940 None:intergenic 20.0%
!! AAGATAATGTAGTGAATATT+TGG + 51715:6036-6055 None:intergenic 20.0%
!! AGATAATGTAGTGAATATTT+GGG + 51715:6035-6054 None:intergenic 20.0%
!! ATAAATAAAGTGATGTTGAT+TGG + 51715:6629-6648 None:intergenic 20.0%
!! TAATGACAGACTTTAATTAA+TGG + 51715:6557-6576 None:intergenic 20.0%
!! TCAAAAACTAAATTATCTAG+TGG + 51715:5731-5750 None:intergenic 20.0%
!!! ATGTATTGGTATTTTTTAAG+AGG - 51715:6689-6708 MS.gene051789:intron 20.0%
!!! CATCACTTTATTTATCATAT+TGG - 51715:6634-6653 MS.gene051789:intron 20.0%
!!! TTTCTTAATTAGTGCTATTA+GGG + 51715:5816-5835 None:intergenic 20.0%
!!! TTTTCTTAATTAGTGCTATT+AGG + 51715:5817-5836 None:intergenic 20.0%
!! CGGTATATTTTTCATTCAAA+AGG - 51715:6251-6270 MS.gene051789:intron 25.0%
!! TATTTGGGATAAAGATAAGA+TGG + 51715:6020-6039 None:intergenic 25.0%
!! TGTTTTGTATTTTCCTTCAT+AGG - 51715:5775-5794 MS.gene051789:intron 25.0%
!! TTGATTGGTTAAGCTTTAAT+GGG + 51715:6614-6633 None:intergenic 25.0%
!!! TTTTTAAGAGGTGTGATATT+TGG - 51715:6701-6720 MS.gene051789:intron 25.0%
AATAAAAACACTATGTGCTG+AGG + 51715:6157-6176 None:intergenic 30.0%
AATGCTAGACCTAGTTATAA+TGG - 51715:7038-7057 MS.gene051789:CDS 30.0%
ACAATTTCACAAAGATGCAT+TGG - 51715:6467-6486 MS.gene051789:intron 30.0%
ACTTAACAAATCAAATCAGC+TGG - 51715:6588-6607 MS.gene051789:intron 30.0%
AGAGTAATGCCATTATAACT+AGG + 51715:7050-7069 None:intergenic 30.0%
CATTTATATTCCAAATAGGG+AGG + 51715:6672-6691 None:intergenic 30.0%
TTCATATGCTGCAATTTCTA+TGG - 51715:6960-6979 MS.gene051789:intron 30.0%
! ATTCTCTCTTAGGTTTTTCT+TGG - 51715:6918-6937 MS.gene051789:intron 30.0%
! GTTGATTGGTTAAGCTTTAA+TGG + 51715:6615-6634 None:intergenic 30.0%
!! CAGTCACTTTGAAATTACTT+AGG + 51715:6893-6912 None:intergenic 30.0%
!! TGTTTATGATGTGTTGCTTA+GGG - 51715:5533-5552 MS.gene051789:CDS 30.0%
AAGGTGGTAGTACAAATGAA+AGG + 51715:5905-5924 None:intergenic 35.0%
AATTCAAAGCTACTGCTAAG+TGG - 51715:5640-5659 MS.gene051789:CDS 35.0%
ATGTACTTAAGCTTGTGAGT+AGG - 51715:6339-6358 MS.gene051789:intron 35.0%
ATTCAAAGCTACTGCTAAGT+GGG - 51715:5641-5660 MS.gene051789:CDS 35.0%
TATATTCCAAATAGGGAGGA+AGG + 51715:6668-6687 None:intergenic 35.0%
TGTACTTAAGCTTGTGAGTA+GGG - 51715:6340-6359 MS.gene051789:intron 35.0%
! AGAAAGAGCATATAGTAGAG+AGG + 51715:5706-5725 None:intergenic 35.0%
! CTTGTTAACTTGACCTATGA+AGG + 51715:5791-5810 None:intergenic 35.0%
! GACTGACTTTATTCTCTCTT+AGG - 51715:6908-6927 MS.gene051789:intron 35.0%
! TTCTTGGTGACAAATGCTAT+AGG - 51715:6934-6953 MS.gene051789:intron 35.0%
!! GTGTTTATGATGTGTTGCTT+AGG - 51715:5532-5551 MS.gene051789:CDS 35.0%
!!! TAGTGCTGTTTTATTTCCAC+TGG + 51715:7007-7026 None:intergenic 35.0%
AAACCAGTCAAAGACAAGTG+TGG - 51715:5461-5480 MS.gene051789:CDS 40.0%
AACAGTCATGTGACGACAAT+AGG + 51715:7166-7185 None:intergenic 40.0%
CTCACTGCTACTATCATTGT+GGG - 51715:5576-5595 MS.gene051789:CDS 40.0%
GCTTTGGTCCTATCTATCAT+TGG - 51715:7186-7205 MS.gene051789:CDS 40.0%
TCAACAATTGCAAGAACCAG+TGG - 51715:6988-7007 MS.gene051789:intron 40.0%
TCTCACTGCTACTATCATTG+TGG - 51715:5575-5594 MS.gene051789:CDS 40.0%
TGTGAGTAGGGTTTAGTAGT+TGG - 51715:6352-6371 MS.gene051789:intron 40.0%
! GCTACTATCATTGTGGGTTT+TGG - 51715:5582-5601 MS.gene051789:CDS 40.0%
!! TATCATTGTGGGTTTTGGCA+AGG - 51715:5587-5606 MS.gene051789:CDS 40.0%
CAGTCAAAGACAAGTGTGGA+TGG - 51715:5465-5484 MS.gene051789:CDS 45.0%
CATCCACACTTGTCTTTGAC+TGG + 51715:5467-5486 None:intergenic 45.0%
GCATTACTCTTCTCAGCCAA+TGG - 51715:7060-7079 MS.gene051789:CDS 45.0%
TCACAGCGATGTGAAGGTTA+TGG - 51715:5491-5510 MS.gene051789:CDS 45.0%
! TCGTCACATGACTGTTGCTT+TGG - 51715:7170-7189 MS.gene051789:CDS 45.0%
!! GATGTGTTGCTTAGGGTTCT+TGG - 51715:5540-5559 MS.gene051789:CDS 45.0%
!!! ATATTTTTCAAAAAAAAAAA+CGG - 51715:6231-6250 MS.gene051789:intron 5.0%
AAGGAAACTCGCACGTGCAA+TGG - 51715:7115-7134 MS.gene051789:CDS 50.0%
GTAGCTCCTTCCTCCCTATT+TGG - 51715:6659-6678 MS.gene051789:intron 50.0%
TGGAGTTCACAGCGATGTGA+AGG - 51715:5485-5504 MS.gene051789:CDS 50.0%
!! GGGTTTTGGCAAGGAGACTA+AGG - 51715:5596-5615 MS.gene051789:CDS 50.0%
!! GTGGGAGTGTTAGGACAGAA+AGG - 51715:7096-7115 MS.gene051789:CDS 50.0%
AATGGAGCTGCTGGTGCAGT+GGG - 51715:7078-7097 MS.gene051789:CDS 55.0%
TTCTCAGCCAATGGAGCTGC+TGG - 51715:7069-7088 MS.gene051789:CDS 55.0%
CAATGGAGCTGCTGGTGCAG+TGG - 51715:7077-7096 MS.gene051789:CDS 60.0%
CACTGCACCAGCAGCTCCAT+TGG + 51715:7079-7098 None:intergenic 60.0%
!! GCTGGTGCAGTGGGAGTGTT+AGG - 51715:7087-7106 MS.gene051789:CDS 60.0%


Chromosome Type Strat End Strand Name
51715 gene 5456 7215 5456 ID=MS.gene051789
51715 mRNA 5456 7215 5456 ID=MS.gene051789.t1;Parent=MS.gene051789
51715 exon 6989 7215 6989 ID=MS.gene051789.t1.exon1;Parent=MS.gene051789.t1
51715 CDS 6989 7215 6989 ID=cds.MS.gene051789.t1;Parent=MS.gene051789.t1
51715 exon 5456 5741 5456 ID=MS.gene051789.t1.exon2;Parent=MS.gene051789.t1
51715 CDS 5456 5741 5456 ID=cds.MS.gene051789.t1;Parent=MS.gene051789.t1
Gene Sequence

>MS.gene051789

ATGGGAAACCAGTCAAAGACAAGTGTGGATGGAGTTCACAGCGATGTGAAGGTTATGGAGATGAGAACTAGAAGTAGTGTTTATGATGTGTTGCTTAGGGTTCTTGGTTTCTTGCTTACTCTCACTGCTACTATCATTGTGGGTTTTGGCAAGGAGACTAAGGTCATTTCATATGCTTCATTGCAATTCAAAGCTACTGCTAAGTGGGAATATATGTCTGCTATTGTGTAAGCTCATCACATCTCTTCCTCTCTACTATATGCTCTTTCTCACCACTAGATAATTTAGTTTTTGAAATGTTAAGGGAAAGTAGTTCTCATGTTTTGTATTTTCCTTCATAGGTCAAGTTAACAAGTGCCCTAATAGCACTAATTAAGAAAACAAAAAATTGAAATTTCTAAATTTATTTCATTAACAAATGTTATAAGGGTACTCTTTAACATTTTCCTTTCATTTGTACTACCACCTTTCTTTTACAATTTTTTAAAACAGATCTTACATTTTTAAAATAAAAGATGTCAAAATATATATATTTTTTTGAAAATGTTTCTGGTTTGCTTTCCATCTTATCTTTATCCCAAATATTCACTACATTATCTTTTATCTCATTGATAACAATTTAAAATAAACCTAAATTTTCAAAACTATATACTGAAAATGTTTTAAGAAAGTAAATGGAGTCTAAATATGTTTTGAATCCTCAGCACATAGTGTTTTTATTTTTTTGAACCTTTATTTTATTTTTAGTCACTATAATATGTTAGTTAATAACGGTATATTTTTCAAAAAAAAAAACGGTATATTTTTCATTCAAAAGGTTTTTTTTAATATATAAGAAAATCCATTAGTAATCAATCAATATATAAGATGTGACGCAAATAGTATGTACTTAAGCTTGTGAGTAGGGTTTAGTAGTTGGTAAAAACAGTTGTTCTACTATATCAACATCTTAAATGAATTTTAATTAACTCGTGATATCTCCTTTCAAAAAAATTAATTCATCATATCTCTACAATTTCACAAAGATGCATTGGTTAACAAAAAAAATTATCTATTTCAAAAATAAAACCATTAATTTTTTTGAAGAAAAAAATAAAACCATTAATTAAAGTCTGTCATTATCAAATCTAAAACTTAACAAATCAAATCAGCTGGCCCATTAAAGCTTAACCAATCAACATCACTTTATTTATCATATTGGTCGTAGCTCCTTCCTCCCTATTTGGAATATAAATGTATTGGTATTTTTTAAGAGGTGTGATATTTGGACATTCTCAATTCAAATCTGTATTCGACACTTTATAAAATATAACTTAGATGTGTGTAATGTTAGAAGCGATGAGAGAAAAAATAATATAAAAATCGAAAACAGTATATACATATAGTGTTGATGTCAGATTTTGTGCCTCGTTTGTTTTATATTTTTTTTGTCTTCCTAAGTAATTTCAAAGTGACTGACTTTATTCTCTCTTAGGTTTTTCTTGGTGACAAATGCTATAGGATGTTCATATGCTGCAATTTCTATGGTGATTTCAACAATTGCAAGAACCAGTGGAAATAAAACAGCACTATTGATGATATCAATGCTAGACCTAGTTATAATGGCATTACTCTTCTCAGCCAATGGAGCTGCTGGTGCAGTGGGAGTGTTAGGACAGAAAGGAAACTCGCACGTGCAATGGATGAAAGTGTGCAATGTATTTGATGCCTATTGTCGTCACATGACTGTTGCTTTGGTCCTATCTATCATTGGTTCCACT

Protein sequence

>MS.gene051789.t1

MGNQSKTSVDGVHSDVKVMEMRTRSSVYDVLLRVLGFLLTLTATIIVGFGKETKVISYASLQFKATAKWEYMSAIVFFLVTNAIGCSYAAISMVISTIARTSGNKTALLMISMLDLVIMALLFSANGAAGAVGVLGQKGNSHVQWMKVCNVFDAYCRHMTVALVLSIIGST