AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45085


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45085.t1 MTR_5g035010 93.590 156 10 0 1 156 1 156 2.75e-110 310
MS.gene45085.t1 MTR_8g012550 29.139 151 106 1 1 151 1 150 1.09e-19 80.5
MS.gene45085.t1 MTR_1g030810 31.373 153 98 5 3 151 1 150 1.76e-14 67.0
MS.gene45085.t1 MTR_1g030820 30.323 155 97 6 3 151 1 150 3.17e-13 63.5
MS.gene45085.t1 MTR_1g031640 29.630 135 86 5 9 141 7 134 5.12e-13 62.8
MS.gene45085.t1 MTR_1g030840 31.852 135 82 4 3 130 1 132 3.96e-12 60.8
MS.gene45085.t1 MTR_8g045520 26.490 151 107 4 3 151 1 149 5.26e-12 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45085.t1 AT1G24020 51.678 149 72 0 3 151 1 149 8.77e-56 172
MS.gene45085.t1 AT1G24020 51.678 149 72 0 3 151 1 149 8.77e-56 172
MS.gene45085.t1 AT1G70830 34.211 152 97 2 2 151 19 169 8.41e-22 86.7
MS.gene45085.t1 AT1G70830 34.211 152 97 2 2 151 19 169 1.55e-21 86.7
MS.gene45085.t1 AT1G70840 36.000 150 93 2 4 151 19 167 1.81e-21 85.5
MS.gene45085.t1 AT1G70830 34.211 152 97 2 2 151 19 169 4.73e-21 86.3
MS.gene45085.t1 AT1G70850 33.766 154 99 2 2 153 6 158 8.10e-21 85.5
MS.gene45085.t1 AT1G70830 34.211 152 97 2 2 151 19 169 1.34e-20 86.7
MS.gene45085.t1 AT1G70830 33.333 150 97 2 4 151 183 331 3.16e-19 82.8
MS.gene45085.t1 AT1G70850 33.766 154 99 2 2 153 6 158 2.64e-20 85.5
MS.gene45085.t1 AT1G70850 33.094 139 90 2 15 151 175 312 9.22e-17 75.9
MS.gene45085.t1 AT1G70850 33.766 154 99 2 2 153 6 158 2.64e-20 85.5
MS.gene45085.t1 AT1G70850 33.094 139 90 2 15 151 175 312 9.22e-17 75.9
MS.gene45085.t1 AT1G70890 34.868 152 96 3 2 151 4 154 1.47e-19 80.5
MS.gene45085.t1 AT1G70830 33.333 150 97 2 4 151 136 284 1.49e-19 83.2
MS.gene45085.t1 AT5G28010 31.579 152 101 2 4 153 14 164 3.65e-19 79.3
MS.gene45085.t1 AT5G28010 31.579 152 101 2 4 153 14 164 3.65e-19 79.3
MS.gene45085.t1 AT5G28000 30.921 152 102 2 4 153 12 162 1.03e-16 73.2
MS.gene45085.t1 AT1G70880 30.519 154 104 3 2 153 5 157 2.35e-16 72.0
MS.gene45085.t1 AT1G14930 27.152 151 105 3 3 151 1 148 9.00e-13 62.4
MS.gene45085.t1 AT1G35260 30.201 149 98 4 8 153 5 150 9.63e-13 62.4
MS.gene45085.t1 AT1G23130 30.263 152 102 3 4 153 9 158 2.65e-12 61.2
MS.gene45085.t1 AT1G23120 27.891 147 92 5 9 154 7 140 6.44e-11 57.4

Find 33 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGTCATGTGGGAAGGCCTT+AGG 0.333006 5.3:+23959578 None:intergenic
AATAGTTGTAGAATCCCTTA+TGG 0.338562 5.3:+23959604 None:intergenic
GCAAAATCTTTGACAATAGT+TGG 0.338740 5.3:+23958808 None:intergenic
ATCTCACATCCTTCTCCAAC+TGG 0.381866 5.3:+23958877 None:intergenic
GCAACCTATTGTATAATTGC+AGG 0.424800 5.3:-23958949 MS.gene45085:CDS
CCTTGAATGATTTGTAGTAT+TGG 0.436050 5.3:+23958917 None:intergenic
CCAATACTACAAATCATTCA+AGG 0.446219 5.3:-23958917 MS.gene45085:CDS
ATCTCCTGCAATTATACAAT+AGG 0.447249 5.3:+23958945 None:intergenic
AGTCTAATGCAGACAAGTAC+TGG 0.454231 5.3:-23959631 MS.gene45085:CDS
AGTCATGTGGGAAGGCCTTA+GGG 0.459268 5.3:+23959579 None:intergenic
GAGAAGGATGTGAGATGAAA+TGG 0.470943 5.3:-23958870 MS.gene45085:CDS
ACAAGTACTGGCAAACCATA+AGG 0.476885 5.3:-23959619 MS.gene45085:CDS
GAGGGTGATGGTAAAGCTCC+TGG 0.482745 5.3:-23959536 MS.gene45085:CDS
TCTTTGACAATAGTTGGATC+AGG 0.487708 5.3:+23958814 None:intergenic
GTGAAGTGGCGGATAGAGCC+AGG 0.488549 5.3:+23959518 None:intergenic
AAAAGCATTGAGGTCCTTGA+GGG 0.507266 5.3:-23959554 MS.gene45085:CDS
CAAGTACTGGCAAACCATAA+GGG 0.509772 5.3:-23959618 MS.gene45085:CDS
ATCATGGCTGTAGCTCTTCG+TGG 0.517791 5.3:-23959680 MS.gene45085:CDS
TACCTTCAGCATAAGTGAAG+TGG 0.548909 5.3:+23959504 None:intergenic
TGCAGTCAAGAACTTCATTG+AGG 0.557320 5.3:-23958788 MS.gene45085:CDS
CAAAAGCATTGAGGTCCTTG+AGG 0.558857 5.3:-23959555 MS.gene45085:CDS
CGCCACTTCACTTATGCTGA+AGG 0.559188 5.3:-23959506 MS.gene45085:intron
ATTGAGGTCCTTGAGGGTGA+TGG 0.560374 5.3:-23959548 MS.gene45085:CDS
CATCTTGCTGTAACACCAGT+TGG 0.560972 5.3:-23958892 MS.gene45085:CDS
CAATACTACAAATCATTCAA+GGG 0.584423 5.3:-23958916 MS.gene45085:CDS
GCTGTAACACCAGTTGGAGA+AGG 0.585512 5.3:-23958886 MS.gene45085:CDS
GAGCTTTACCATCACCCTCA+AGG 0.617751 5.3:+23959540 None:intergenic
ATGCTGCTGATGATGAAAAG+AGG 0.618271 5.3:-23958975 MS.gene45085:CDS
AGTCAAGAACTTCATTGAGG+TGG 0.628959 5.3:-23958785 MS.gene45085:CDS
ACAACTCGCAAAGTCTTCGA+CGG 0.637120 5.3:-23959007 MS.gene45085:CDS
CTTCAGCATAAGTGAAGTGG+CGG 0.638511 5.3:+23959507 None:intergenic
AGCTCTTCGTGGAAAGCTAG+AGG 0.660101 5.3:-23959669 MS.gene45085:CDS
ACATGACTACAAAAGCATTG+AGG 0.674108 5.3:-23959564 MS.gene45085:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGATGAAATTCAATAAATA+AGG - chr5.3:23959130-23959149 MS.gene45085:intron 15.0%
!! TGATGAAATTCAATAAATAA+GGG - chr5.3:23959131-23959150 MS.gene45085:intron 15.0%
!!! AATAAATAAGGGTATATCAA+TGG - chr5.3:23959142-23959161 MS.gene45085:intron 20.0%
! AAAGTGAGTATTATGTATGT+CGG + chr5.3:23959058-23959077 None:intergenic 25.0%
! AATTTAGAGACTTTCTTCTT+TGG - chr5.3:23958953-23958972 MS.gene45085:CDS 25.0%
! CAATACTACAAATCATTCAA+GGG - chr5.3:23959517-23959536 MS.gene45085:CDS 25.0%
! CGATGATTAAAATGAGATAT+AGG - chr5.3:23959241-23959260 MS.gene45085:intron 25.0%
! TCATACATTCTTATCTGATT+TGG - chr5.3:23959384-23959403 MS.gene45085:intron 25.0%
AATAGTTGTAGAATCCCTTA+TGG + chr5.3:23958832-23958851 None:intergenic 30.0%
ATCTCCTGCAATTATACAAT+AGG + chr5.3:23959491-23959510 None:intergenic 30.0%
CCAATACTACAAATCATTCA+AGG - chr5.3:23959516-23959535 MS.gene45085:CDS 30.0%
GCAAAATCTTTGACAATAGT+TGG + chr5.3:23959628-23959647 None:intergenic 30.0%
! CCTTGAATGATTTGTAGTAT+TGG + chr5.3:23959519-23959538 None:intergenic 30.0%
! TTCTACAACTATTTTCCCTA+AGG - chr5.3:23958839-23958858 MS.gene45085:CDS 30.0%
!! TACATTCTTATCTGATTTGG+TGG - chr5.3:23959387-23959406 MS.gene45085:intron 30.0%
AAAGCGATACATGAATCTCT+TGG + chr5.3:23959321-23959340 None:intergenic 35.0%
CTTCTTTGGTAGAGAATGAA+GGG - chr5.3:23958967-23958986 MS.gene45085:CDS 35.0%
GAGTTGTGATCCTACAATAT+AGG + chr5.3:23959413-23959432 None:intergenic 35.0%
GCAACCTATTGTATAATTGC+AGG - chr5.3:23959484-23959503 MS.gene45085:intron 35.0%
GTCAAATGCAACGAATATTG+TGG + chr5.3:23959084-23959103 None:intergenic 35.0%
TCTTCTTTGGTAGAGAATGA+AGG - chr5.3:23958966-23958985 MS.gene45085:CDS 35.0%
TCTTTGACAATAGTTGGATC+AGG + chr5.3:23959622-23959641 None:intergenic 35.0%
! CAATGCTTTTGTAGTCATGT+GGG + chr5.3:23958869-23958888 None:intergenic 35.0%
! TCAATGCTTTTGTAGTCATG+TGG + chr5.3:23958870-23958889 None:intergenic 35.0%
!! ACATGACTACAAAAGCATTG+AGG - chr5.3:23958869-23958888 MS.gene45085:CDS 35.0%
!!! TAGAGAATGAAGGGCATTTT+GGG - chr5.3:23958976-23958995 MS.gene45085:CDS 35.0%
AGTCAAGAACTTCATTGAGG+TGG - chr5.3:23959648-23959667 MS.gene45085:CDS 40.0%
AGTCTAATGCAGACAAGTAC+TGG - chr5.3:23958802-23958821 MS.gene45085:CDS 40.0%
GAGAAGGATGTGAGATGAAA+TGG - chr5.3:23959563-23959582 MS.gene45085:CDS 40.0%
TACCTTCAGCATAAGTGAAG+TGG + chr5.3:23958932-23958951 None:intergenic 40.0%
TGCAGTCAAGAACTTCATTG+AGG - chr5.3:23959645-23959664 MS.gene45085:CDS 40.0%
! ATGCTGCTGATGATGAAAAG+AGG - chr5.3:23959458-23959477 MS.gene45085:intron 40.0%
!! AAAAGCATTGAGGTCCTTGA+GGG - chr5.3:23958879-23958898 MS.gene45085:CDS 40.0%
!! ACAAGTACTGGCAAACCATA+AGG - chr5.3:23958814-23958833 MS.gene45085:CDS 40.0%
!! CAAGTACTGGCAAACCATAA+GGG - chr5.3:23958815-23958834 MS.gene45085:CDS 40.0%
!! GATTTGGTGGCCTATATTGT+AGG - chr5.3:23959400-23959419 MS.gene45085:intron 40.0%
!!! GTAGAGAATGAAGGGCATTT+TGG - chr5.3:23958975-23958994 MS.gene45085:CDS 40.0%
ACAACTCGCAAAGTCTTCGA+CGG - chr5.3:23959426-23959445 MS.gene45085:intron 45.0%
ATCTCACATCCTTCTCCAAC+TGG + chr5.3:23959559-23959578 None:intergenic 45.0%
CATGAATCTCTTGGAACGCT+AGG + chr5.3:23959312-23959331 None:intergenic 45.0%
CTTCAGCATAAGTGAAGTGG+CGG + chr5.3:23958929-23958948 None:intergenic 45.0%
! CATCTTGCTGTAACACCAGT+TGG - chr5.3:23959541-23959560 MS.gene45085:CDS 45.0%
! GCTTTTGTAGTCATGTGGGA+AGG + chr5.3:23958865-23958884 None:intergenic 45.0%
!! CAAAAGCATTGAGGTCCTTG+AGG - chr5.3:23958878-23958897 MS.gene45085:CDS 45.0%
AGCTCTTCGTGGAAAGCTAG+AGG - chr5.3:23958764-23958783 MS.gene45085:CDS 50.0%
AGTCATGTGGGAAGGCCTTA+GGG + chr5.3:23958857-23958876 None:intergenic 50.0%
ATTGAGGTCCTTGAGGGTGA+TGG - chr5.3:23958885-23958904 MS.gene45085:CDS 50.0%
CGCCACTTCACTTATGCTGA+AGG - chr5.3:23958927-23958946 MS.gene45085:CDS 50.0%
GAGCTTTACCATCACCCTCA+AGG + chr5.3:23958896-23958915 None:intergenic 50.0%
GCTGTAACACCAGTTGGAGA+AGG - chr5.3:23959547-23959566 MS.gene45085:CDS 50.0%
TAGTCATGTGGGAAGGCCTT+AGG + chr5.3:23958858-23958877 None:intergenic 50.0%
AACGCTAGGCACTAGTGCAG+TGG + chr5.3:23959298-23959317 None:intergenic 55.0%
! GAGGGTGATGGTAAAGCTCC+TGG - chr5.3:23958897-23958916 MS.gene45085:CDS 55.0%
!! GTGAAGTGGCGGATAGAGCC+AGG + chr5.3:23958918-23958937 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 23958756 23959699 23958756 ID=MS.gene45085
chr5.3 mRNA 23958756 23959699 23958756 ID=MS.gene45085.t1;Parent=MS.gene45085
chr5.3 exon 23959507 23959699 23959507 ID=MS.gene45085.t1.exon1;Parent=MS.gene45085.t1
chr5.3 CDS 23959507 23959699 23959507 ID=cds.MS.gene45085.t1;Parent=MS.gene45085.t1
chr5.3 exon 23958756 23959033 23958756 ID=MS.gene45085.t1.exon2;Parent=MS.gene45085.t1
chr5.3 CDS 23958756 23959033 23958756 ID=cds.MS.gene45085.t1;Parent=MS.gene45085.t1
Gene Sequence

>MS.gene45085

ATGGCTGTAGCTCTTCGTGGAAAGCTAGAGGTAGACATTGAACTCAAGTCTAATGCAGACAAGTACTGGCAAACCATAAGGGATTCTACAACTATTTTCCCTAAGGCCTTCCCACATGACTACAAAAGCATTGAGGTCCTTGAGGGTGATGGTAAAGCTCCTGGCTCTATCCGCCACTTCACTTATGCTGAAGGTAAAATTTAGAGACTTTCTTCTTTGGTAGAGAATGAAGGGCATTTTGGGTATAAATGAAAGTTTCATTTATTTTCTGCTTTGTTTTTTTACTCTTATATTGAAAGCCGACATACATAATACTCACTTTGTACCACAATATTCGTTGCATTTGACGATTTCACACAAGTTAAGAAAAAAAAATGATGAAATTCAATAAATAAGGGTATATCAATGGAAAATAATAATAAATTTTGCATTGATATTCTAAAGTGACAATTAATTTGAGACATATATAGAAAAAAATGTTAAATCGATGATTAAAATGAGATATAGGTCATACATTAGATTAGAAAGCTAGACAGTTGCCACTGCACTAGTGCCTAGCGTTCCAAGAGATTCATGTATCGCTTTAGTTTATGTGAGCACTGATAAAAGAGTGAGAGATTGAAAAACTTCATACATTCTTATCTGATTTGGTGGCCTATATTGTAGGATCACAACTCGCAAAGTCTTCGACGGAGAAGATTGATGCTGCTGATGATGAAAAGAGGACAGCAACCTATTGTATAATTGCAGGAGATCTTCTCCAATACTACAAATCATTCAAGGGACATCTTGCTGTAACACCAGTTGGAGAAGGATGTGAGATGAAATGGTGTGCTGAGTATATTAAAGTTAGTAATGATATTCCTGATCCAACTATTGTCAAAGATTTTGCAGTCAAGAACTTCATTGAGGTGGATGACTATGTTCAATCACTTGCTGCATAG

Protein sequence

>MS.gene45085.t1

MAVALRGKLEVDIELKSNADKYWQTIRDSTTIFPKAFPHDYKSIEVLEGDGKAPGSIRHFTYAEGSQLAKSSTEKIDAADDEKRTATYCIIAGDLLQYYKSFKGHLAVTPVGEGCEMKWCAEYIKVSNDIPDPTIVKDFAVKNFIEVDDYVQSLAA