AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032576

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032576.t1 MTR_6g006060 97.790 181 4 0 1 181 1 181 3.48e-124 347
MS.gene032576.t1 MTR_8g076780 34.815 135 70 2 64 180 60 194 2.99e-16 73.2
MS.gene032576.t1 MTR_7g053520 34.351 131 76 2 60 180 86 216 7.95e-15 70.1
MS.gene032576.t1 MTR_2g031960 32.867 143 86 3 48 180 12 154 4.56e-14 66.6
MS.gene032576.t1 MTR_2g031760 49.254 67 34 0 110 176 119 185 2.46e-13 65.5
MS.gene032576.t1 MTR_2g064300 33.333 132 76 2 60 180 85 215 4.57e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032576.t1 AT3G27850 61.170 188 58 5 7 181 2 187 4.72e-53 167
MS.gene032576.t1 AT3G27830 64.596 161 50 3 28 181 31 191 9.06e-52 164
MS.gene032576.t1 AT3G27830 64.596 161 50 3 28 181 31 191 9.06e-52 164
MS.gene032576.t1 AT3G27840 51.497 167 64 3 31 180 26 192 1.34e-44 146
MS.gene032576.t1 AT4G36420 36.301 146 79 3 49 180 33 178 5.41e-18 77.4
MS.gene032576.t1 AT3G06040 46.667 75 40 0 102 176 107 181 5.17e-13 64.7
MS.gene032576.t1 AT3G06040 46.667 75 40 0 102 176 107 181 5.17e-13 64.7
MS.gene032576.t1 AT3G06040 46.667 75 40 0 102 176 107 181 5.17e-13 64.7
MS.gene032576.t1 AT1G70190 34.074 135 75 2 60 180 73 207 6.38e-13 64.7
MS.gene032576.t1 AT1G70190 34.074 135 75 2 60 180 73 207 6.38e-13 64.7
MS.gene032576.t1 AT4G37660 32.258 155 93 3 38 180 12 166 2.49e-12 62.4

Find 52 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGGAGATGGAGAGGGGTT+TGG 0.285418 6.3:+1762215 None:intergenic
GAGGTAGTCGACGAGGTCTT+TGG 0.313141 6.3:+1762098 None:intergenic
TTCAATTACCACATCGAATT+CGG 0.338695 6.3:+1761981 None:intergenic
TTCTTCGACTACTGCGACTT+CGG 0.340678 6.3:+1762008 None:intergenic
GTTAGAGCTTTGACGAGTTT+AGG 0.347699 6.3:-1761919 MS.gene032576:CDS
GCGGTGGTGGTGGTGGGAGA+TGG 0.358819 6.3:+1762203 None:intergenic
GGAGATGGAGAGGGGTTTGG+AGG 0.359975 6.3:+1762218 None:intergenic
GGTGGTGGTGGGAGATGGAG+AGG 0.376909 6.3:+1762208 None:intergenic
TGGTGGTGGGAGATGGAGAG+GGG 0.379049 6.3:+1762210 None:intergenic
GACGAGTGCGGTGGTGGTGG+TGG 0.381640 6.3:+1762196 None:intergenic
ACACCTTCTTTAAATTTCTT+CGG 0.390394 6.3:+1761862 None:intergenic
GGGAAATTGAGAGTGGAGAT+TGG 0.393088 6.3:+1762240 None:intergenic
GTGGTGGTGGGAGATGGAGA+GGG 0.406108 6.3:+1762209 None:intergenic
AGCGGCGACAGTGGCGGCGG+CGG 0.407686 6.3:+1762038 None:intergenic
GCCGCAATTCTCGCGTTACT+AGG 0.408930 6.3:+1761952 None:intergenic
GTCGACGAGGTCTTTGGCTT+GGG 0.415248 6.3:+1762104 None:intergenic
TTCAGTGGCCACGGCGGAGA+TGG 0.416551 6.3:+1762167 None:intergenic
AGATGGAGAGGGGTTTGGAG+GGG 0.419977 6.3:+1762220 None:intergenic
GCGGCGACAGTGGCGGCGGC+GGG 0.421106 6.3:+1762039 None:intergenic
GGCGGCGGGAGCGAAGGAAG+CGG 0.431011 6.3:+1762053 None:intergenic
GGAGACGAGTGCGGTGGTGG+TGG 0.449627 6.3:+1762193 None:intergenic
TGGAGCGGCGACAGTGGCGG+CGG 0.453386 6.3:+1762035 None:intergenic
AGTCGACGAGGTCTTTGGCT+TGG 0.457705 6.3:+1762103 None:intergenic
ACGAGTGCGGTGGTGGTGGT+GGG 0.464166 6.3:+1762197 None:intergenic
GAAGCGAAGGAATTGATTGA+AGG 0.470442 6.3:-1761889 MS.gene032576:CDS
GGCTGGAGCGGCGACAGTGG+CGG 0.474590 6.3:+1762032 None:intergenic
ACTACTGCGACTTCGGCGGC+TGG 0.482100 6.3:+1762015 None:intergenic
GACGGAGACGAGTGCGGTGG+TGG 0.484373 6.3:+1762190 None:intergenic
TGCGACTTCGGCGGCTGGAG+CGG 0.489099 6.3:+1762020 None:intergenic
AGTGGCGGCGGCGGGAGCGA+AGG 0.497332 6.3:+1762047 None:intergenic
TTGCCGAAGAAATTTAAAGA+AGG 0.505106 6.3:-1761865 MS.gene032576:CDS
GAGATGGAGAGGGGTTTGGA+GGG 0.520932 6.3:+1762219 None:intergenic
TCAGTGGCCACGGCGGAGAT+GGG 0.542642 6.3:+1762168 None:intergenic
TCCTAGTAACGCGAGAATTG+CGG 0.544335 6.3:-1761953 MS.gene032576:CDS
GTGGTGAGAAAGTGTGAGGG+TGG 0.553869 6.3:+1762281 None:intergenic
GGCGGCTGGAGCGGCGACAG+TGG 0.556006 6.3:+1762029 None:intergenic
AAGAAACAACTTGAAGCTGC+AGG 0.564071 6.3:-1761814 MS.gene032576:CDS
TGGCCACGGCGGAGATGGGA+CGG 0.564429 6.3:+1762172 None:intergenic
CTTTGGCTTGGGAGAGAGTG+AGG 0.565773 6.3:+1762115 None:intergenic
TTTAGGATTGAAAGAAGCGA+AGG 0.566913 6.3:-1761902 MS.gene032576:CDS
TTTGGAGGGGAAATTGAGAG+TGG 0.570125 6.3:+1762233 None:intergenic
GGCGGGAGCGAAGGAAGCGG+CGG 0.574913 6.3:+1762056 None:intergenic
GGTGTGGTGAGAAAGTGTGA+GGG 0.597396 6.3:+1762278 None:intergenic
GGGTGTGGTGAGAAAGTGTG+AGG 0.603340 6.3:+1762277 None:intergenic
TTCGACTACTGCGACTTCGG+CGG 0.637460 6.3:+1762011 None:intergenic
GAGAATTGCGGCGATTAAAG+CGG 0.638455 6.3:-1761941 MS.gene032576:CDS
TTCTATTTCAGTGGCCACGG+CGG 0.638885 6.3:+1762161 None:intergenic
GGTGGAGATAGTTGTGAAAG+CGG 0.640687 6.3:+1762299 None:intergenic
TCTCCGTCCCATCTCCGCCG+TGG 0.646628 6.3:-1762175 MS.gene032576:CDS
AGATGGGACGGAGACGAGTG+CGG 0.648615 6.3:+1762184 None:intergenic
TTTCTTGGAGGTAGTCGACG+AGG 0.676894 6.3:+1762091 None:intergenic
TGGGACGGAGACGAGTGCGG+TGG 0.682439 6.3:+1762187 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACACCTTCTTTAAATTTCTT+CGG + chr6.3:1762248-1762267 None:intergenic 25.0%
TTCAATTACCACATCGAATT+CGG + chr6.3:1762129-1762148 None:intergenic 30.0%
TTGCCGAAGAAATTTAAAGA+AGG - chr6.3:1762242-1762261 MS.gene032576:CDS 30.0%
AGAAAAAACCGAATTCGATG+TGG - chr6.3:1762118-1762137 MS.gene032576:CDS 35.0%
GCCACTGAAATAGAAAAACT+CGG - chr6.3:1761954-1761973 MS.gene032576:CDS 35.0%
! TTTAGGATTGAAAGAAGCGA+AGG - chr6.3:1762205-1762224 MS.gene032576:CDS 35.0%
! TTTTTCTATTTCAGTGGCCA+CGG + chr6.3:1761952-1761971 None:intergenic 35.0%
!!! AGATTGGTTTTTTTGAGAGG+GGG + chr6.3:1761854-1761873 None:intergenic 35.0%
!!! GAGATTGGTTTTTTTGAGAG+GGG + chr6.3:1761855-1761874 None:intergenic 35.0%
!!! GGAGATTGGTTTTTTTGAGA+GGG + chr6.3:1761856-1761875 None:intergenic 35.0%
!!! TGGAGATTGGTTTTTTTGAG+AGG + chr6.3:1761857-1761876 None:intergenic 35.0%
AAGAAACAACTTGAAGCTGC+AGG - chr6.3:1762293-1762312 MS.gene032576:CDS 40.0%
GAAGCGAAGGAATTGATTGA+AGG - chr6.3:1762218-1762237 MS.gene032576:CDS 40.0%
GACTACCTCCAAGAAAAACT+CGG - chr6.3:1762023-1762042 MS.gene032576:CDS 40.0%
! GCCGAGTTTTTCTATTTCAG+TGG + chr6.3:1761958-1761977 None:intergenic 40.0%
! GTTAGAGCTTTGACGAGTTT+AGG - chr6.3:1762188-1762207 MS.gene032576:CDS 40.0%
!!! GATTGGTTTTTTTGAGAGGG+GGG + chr6.3:1761853-1761872 None:intergenic 40.0%
GAGAATTGCGGCGATTAAAG+CGG - chr6.3:1762166-1762185 MS.gene032576:CDS 45.0%
GGGAAATTGAGAGTGGAGAT+TGG + chr6.3:1761870-1761889 None:intergenic 45.0%
GGTGGAGATAGTTGTGAAAG+CGG + chr6.3:1761811-1761830 None:intergenic 45.0%
TCCTAGTAACGCGAGAATTG+CGG - chr6.3:1762154-1762173 MS.gene032576:CDS 45.0%
TTCTTCGACTACTGCGACTT+CGG + chr6.3:1762102-1762121 None:intergenic 45.0%
TTTGGAGGGGAAATTGAGAG+TGG + chr6.3:1761877-1761896 None:intergenic 45.0%
TTCTATTTCAGTGGCCACGG+CGG + chr6.3:1761949-1761968 None:intergenic 50.0%
TTTCTTGGAGGTAGTCGACG+AGG + chr6.3:1762019-1762038 None:intergenic 50.0%
! GGTGTGGTGAGAAAGTGTGA+GGG + chr6.3:1761832-1761851 None:intergenic 50.0%
! TGACGCCGAGTTTTTCTTGG+AGG + chr6.3:1762031-1762050 None:intergenic 50.0%
!!! GTTTTTTTGAGAGGGGGGTG+TGG + chr6.3:1761848-1761867 None:intergenic 50.0%
AGATGGAGAGGGGTTTGGAG+GGG + chr6.3:1761890-1761909 None:intergenic 55.0%
AGTCGACGAGGTCTTTGGCT+TGG + chr6.3:1762007-1762026 None:intergenic 55.0%
GAGATGGAGAGGGGTTTGGA+GGG + chr6.3:1761891-1761910 None:intergenic 55.0%
GAGGTAGTCGACGAGGTCTT+TGG + chr6.3:1762012-1762031 None:intergenic 55.0%
GCCGCAATTCTCGCGTTACT+AGG + chr6.3:1762158-1762177 None:intergenic 55.0%
TTCGACTACTGCGACTTCGG+CGG + chr6.3:1762099-1762118 None:intergenic 55.0%
! CGGTGACGCCGAGTTTTTCT+TGG + chr6.3:1762034-1762053 None:intergenic 55.0%
! GGGTGTGGTGAGAAAGTGTG+AGG + chr6.3:1761833-1761852 None:intergenic 55.0%
! GTCGACGAGGTCTTTGGCTT+GGG + chr6.3:1762006-1762025 None:intergenic 55.0%
! GTGGTGAGAAAGTGTGAGGG+TGG + chr6.3:1761829-1761848 None:intergenic 55.0%
!! CTTTGGCTTGGGAGAGAGTG+AGG + chr6.3:1761995-1762014 None:intergenic 55.0%
AGATGGGACGGAGACGAGTG+CGG + chr6.3:1761926-1761945 None:intergenic 60.0%
GGAGATGGAGAGGGGTTTGG+AGG + chr6.3:1761892-1761911 None:intergenic 60.0%
GTGGGAGATGGAGAGGGGTT+TGG + chr6.3:1761895-1761914 None:intergenic 60.0%
!! GTGGTGGTGGGAGATGGAGA+GGG + chr6.3:1761901-1761920 None:intergenic 60.0%
!! TGGTGGTGGGAGATGGAGAG+GGG + chr6.3:1761900-1761919 None:intergenic 60.0%
ACTACTGCGACTTCGGCGGC+TGG + chr6.3:1762095-1762114 None:intergenic 65.0%
TCAGTGGCCACGGCGGAGAT+GGG + chr6.3:1761942-1761961 None:intergenic 65.0%
TTCAGTGGCCACGGCGGAGA+TGG + chr6.3:1761943-1761962 None:intergenic 65.0%
!! ACGAGTGCGGTGGTGGTGGT+GGG + chr6.3:1761913-1761932 None:intergenic 65.0%
!! GGTGGTGGTGGGAGATGGAG+AGG + chr6.3:1761902-1761921 None:intergenic 65.0%
GACGGAGACGAGTGCGGTGG+TGG + chr6.3:1761920-1761939 None:intergenic 70.0%
TCTCCGTCCCATCTCCGCCG+TGG - chr6.3:1761932-1761951 MS.gene032576:CDS 70.0%
TGCGACTTCGGCGGCTGGAG+CGG + chr6.3:1762090-1762109 None:intergenic 70.0%
TGGCCACGGCGGAGATGGGA+CGG + chr6.3:1761938-1761957 None:intergenic 70.0%
TGGGACGGAGACGAGTGCGG+TGG + chr6.3:1761923-1761942 None:intergenic 70.0%
! GGAGACGAGTGCGGTGGTGG+TGG + chr6.3:1761917-1761936 None:intergenic 70.0%
!! GACGAGTGCGGTGGTGGTGG+TGG + chr6.3:1761914-1761933 None:intergenic 70.0%
!! GCGGTGGTGGTGGTGGGAGA+TGG + chr6.3:1761907-1761926 None:intergenic 70.0%
GGCGGCGGGAGCGAAGGAAG+CGG + chr6.3:1762057-1762076 None:intergenic 75.0%
GGCGGGAGCGAAGGAAGCGG+CGG + chr6.3:1762054-1762073 None:intergenic 75.0%
GGCTGGAGCGGCGACAGTGG+CGG + chr6.3:1762078-1762097 None:intergenic 75.0%
TGGAGCGGCGACAGTGGCGG+CGG + chr6.3:1762075-1762094 None:intergenic 75.0%
! AGCGGCGACAGTGGCGGCGG+CGG + chr6.3:1762072-1762091 None:intergenic 80.0%
! AGTGGCGGCGGCGGGAGCGA+AGG + chr6.3:1762063-1762082 None:intergenic 80.0%
! GGCGGCTGGAGCGGCGACAG+TGG + chr6.3:1762081-1762100 None:intergenic 80.0%
! GCGGCGACAGTGGCGGCGGC+GGG + chr6.3:1762071-1762090 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 1761792 1762337 1761792 ID=MS.gene032576
chr6.3 mRNA 1761792 1762337 1761792 ID=MS.gene032576.t1;Parent=MS.gene032576
chr6.3 exon 1761792 1762337 1761792 ID=MS.gene032576.t1.exon1;Parent=MS.gene032576.t1
chr6.3 CDS 1761792 1762337 1761792 ID=cds.MS.gene032576.t1;Parent=MS.gene032576.t1
Gene Sequence

>MS.gene032576

ATGGCATTATCAACAACCGCTTTCACAACTATCTCCACCCTCACACTTTCTCACCACACCCCCCTCTCAAAAAAACCAATCTCCACTCTCAATTTCCCCTCCAAACCCCTCTCCATCTCCCACCACCACCACCGCACTCGTCTCCGTCCCATCTCCGCCGTGGCCACTGAAATAGAAAAACTCGGCAACGACATCTCTGACCTCACTCTCTCCCAAGCCAAAGACCTCGTCGACTACCTCCAAGAAAAACTCGGCGTCACCGCCGCTTCCTTCGCTCCCGCCGCCGCCACTGTCGCCGCTCCAGCCGCCGAAGTCGCAGTAGTCGAAGAAAAAACCGAATTCGATGTGGTAATTGAAGATGTTCCTAGTAACGCGAGAATTGCGGCGATTAAAGCGGTTAGAGCTTTGACGAGTTTAGGATTGAAAGAAGCGAAGGAATTGATTGAAGGTTTGCCGAAGAAATTTAAAGAAGGTGTGAGTAAAGATGAAGCTGATGATGCTAAGAAACAACTTGAAGCTGCAGGTGCTAAAGTTACTATTGCTTAA
Protein sequence

>MS.gene032576.t1

MALSTTAFTTISTLTLSHHTPLSKKPISTLNFPSKPLSISHHHHRTRLRPISAVATEIEKLGNDISDLTLSQAKDLVDYLQEKLGVTAASFAPAAATVAAPAAEVAVVEEKTEFDVVIEDVPSNARIAAIKAVRALTSLGLKEAKELIEGLPKKFKEGVSKDEADDAKKQLEAAGAKVTIA