AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76525


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76525.t1 MTR_2g101380 97.382 191 5 0 1 191 1 191 2.32e-139 386
MS.gene76525.t1 MTR_1g011510 53.846 104 46 2 72 174 60 162 1.80e-24 94.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76525.t1 AT3G16250 62.567 187 57 5 12 186 14 199 1.97e-77 230
MS.gene76525.t1 AT4G32590 53.846 104 46 2 72 174 70 172 1.69e-25 97.4
MS.gene76525.t1 AT4G32590 53.763 93 41 2 72 163 70 161 3.82e-19 80.9

Find 43 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGCCAACTGCTCTAATTT+TGG 0.198239 2.3:-2670851 None:intergenic
CATGCTAATCTCCAATTCTT+TGG 0.246574 2.3:-2671669 None:intergenic
GAGAGAGGTGTGAATGCATT+AGG 0.302699 2.3:-2670778 None:intergenic
AGAGAGGTGTGAATGCATTA+GGG 0.321006 2.3:-2670777 None:intergenic
GACAAATGCAAAACCTATAG+AGG 0.334673 2.3:-2670923 None:intergenic
CTTTATAGAAACCAAAGAAT+TGG 0.359961 2.3:+2671658 MS.gene76525:intron
GATTCTAACATTGAACTCTA+TGG 0.373731 2.3:+2671174 MS.gene76525:CDS
TAGGGGTTAGTTTGAGTTGG+AGG 0.393377 2.3:-2670759 None:intergenic
TCTAATGACCCTCCCTCTAT+AGG 0.394740 2.3:+2670910 MS.gene76525:CDS
CTTGTAAAGAGTGTTGTGTT+TGG 0.421734 2.3:-2670826 None:intergenic
CATTCATGTCCTTTCCACTC+TGG 0.430702 2.3:-2671875 None:intergenic
TGCACATCTGGTGTTCCATC+TGG 0.437999 2.3:-2671105 None:intergenic
CATTAGGGGTTAGTTTGAGT+TGG 0.450485 2.3:-2670762 None:intergenic
ATTTGCTATTAGGTTCTTGA+AGG 0.451453 2.3:+2671433 MS.gene76525:intron
GCTGTACGATAATGCACATC+TGG 0.480063 2.3:-2671117 None:intergenic
GTGGGTGAAGCAGATTCTAC+AGG 0.486617 2.3:+2671702 MS.gene76525:CDS
CTATTAGGTTCTTGAAGGCA+AGG 0.503895 2.3:+2671438 MS.gene76525:intron
GAAGCTTAGGAACATAATGT+TGG 0.511451 2.3:+2671152 MS.gene76525:CDS
CTTGTGGTGGACAGAAGCTT+AGG 0.512735 2.3:+2671139 MS.gene76525:CDS
ACATGAATGGAAATATGAAA+AGG 0.521149 2.3:+2671889 MS.gene76525:CDS
CAGAGTGGAAAGGACATGAA+TGG 0.529406 2.3:+2671876 MS.gene76525:CDS
TGGCACTGTCCCTGAAAAGA+AGG 0.529530 2.3:+2670867 MS.gene76525:CDS
AGAACCAAAATTAGAGCAGT+TGG 0.532011 2.3:+2670847 MS.gene76525:CDS
TTATGTGAGGAAGAAGAGAG+AGG 0.539445 2.3:-2670793 None:intergenic
TGGAACTTGTGCTACATGTA+TGG 0.561485 2.3:+2671312 MS.gene76525:CDS
TAGTCTGTGTTGCTACCAGA+TGG 0.569681 2.3:+2671090 MS.gene76525:intron
TGGGTGAAGCAGATTCTACA+GGG 0.575014 2.3:+2671703 MS.gene76525:CDS
TCTTTCTCTTTGTCAGTGCG+AGG 0.589508 2.3:-2671472 None:intergenic
GAGAGGTGTGAATGCATTAG+GGG 0.595781 2.3:-2670776 None:intergenic
TTAGCATGTCAAACAACTGT+GGG 0.604116 2.3:+2671684 MS.gene76525:CDS
TTGTGCTACATGTATGGTAG+AGG 0.614537 2.3:+2671318 MS.gene76525:CDS
ACAAATGCAAAACCTATAGA+GGG 0.622761 2.3:-2670922 None:intergenic
GACTCAGCAGACTCTTTGTG+AGG 0.642468 2.3:+2671920 MS.gene76525:CDS
GTGCATTATCGTACAGCTTG+TGG 0.644594 2.3:+2671123 MS.gene76525:CDS
CAACAATTACCAGAGTGGAA+AGG 0.648231 2.3:+2671866 MS.gene76525:CDS
TGAAGCAGATTCTACAGGGG+TGG 0.651914 2.3:+2671707 MS.gene76525:CDS
ATGCAAAACCTATAGAGGGA+GGG 0.653145 2.3:-2670918 None:intergenic
AATGCAAAACCTATAGAGGG+AGG 0.655010 2.3:-2670919 None:intergenic
ATTAGCATGTCAAACAACTG+TGG 0.658456 2.3:+2671683 MS.gene76525:CDS
TGATTCAACAATTACCAGAG+TGG 0.670303 2.3:+2671861 MS.gene76525:CDS
CATTATCGTACAGCTTGTGG+TGG 0.680953 2.3:+2671126 MS.gene76525:CDS
AGGGTCATTAGAGTCACTAG+TGG 0.691443 2.3:-2670899 None:intergenic
GGGTGAAGCAGATTCTACAG+GGG 0.770570 2.3:+2671704 MS.gene76525:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTATTTTTAAGCAATAAT+TGG + chr2.3:2671229-2671248 MS.gene76525:intron 10.0%
!!! TTTTTTTTTAATTTGCTATT+AGG + chr2.3:2671423-2671442 MS.gene76525:intron 10.0%
!! CAGATTAGAAATTAATAAAA+TGG + chr2.3:2671764-2671783 MS.gene76525:intron 15.0%
!! ATTTATGTTGAGCAATATAT+TGG + chr2.3:2671809-2671828 MS.gene76525:intron 20.0%
!! TAATTCTACTTATATCTAGT+TGG + chr2.3:2671016-2671035 MS.gene76525:intron 20.0%
!!! AATTAATCTCTAATGTTTTG+TGG + chr2.3:2671065-2671084 MS.gene76525:intron 20.0%
!!! AGCAAAAATACACATTTTAT+TGG + chr2.3:2671370-2671389 MS.gene76525:intron 20.0%
!!! GCAAAAATACACATTTTATT+GGG + chr2.3:2671371-2671390 MS.gene76525:intron 20.0%
!!! GTTAGTACTACTAATTTTTT+GGG + chr2.3:2671729-2671748 MS.gene76525:intron 20.0%
! AAGAGAAAGAAAAACTTAAG+AGG + chr2.3:2671485-2671504 MS.gene76525:CDS 25.0%
! AATTTAACAAAATTCTACCC+TGG - chr2.3:2671282-2671301 None:intergenic 25.0%
! ACATGAATGGAAATATGAAA+AGG + chr2.3:2671889-2671908 MS.gene76525:CDS 25.0%
! AGAGAAAGAAAAACTTAAGA+GGG + chr2.3:2671486-2671505 MS.gene76525:CDS 25.0%
! CTTTATAGAAACCAAAGAAT+TGG + chr2.3:2671658-2671677 MS.gene76525:intron 25.0%
! GTTAGTGAGATAATTACATA+AGG - chr2.3:2671201-2671220 None:intergenic 25.0%
!! AATTTTGTTAAATTGTGGAG+GGG + chr2.3:2671288-2671307 MS.gene76525:CDS 25.0%
!! AGAATTTTGTTAAATTGTGG+AGG + chr2.3:2671286-2671305 MS.gene76525:CDS 25.0%
!! GAATTTTGTTAAATTGTGGA+GGG + chr2.3:2671287-2671306 MS.gene76525:CDS 25.0%
!! GGTAGAATTTTGTTAAATTG+TGG + chr2.3:2671283-2671302 MS.gene76525:CDS 25.0%
!!! ATTTTGTTGTTGATTTTTCC+AGG + chr2.3:2671261-2671280 MS.gene76525:intron 25.0%
!!! GGTTAGTACTACTAATTTTT+TGG + chr2.3:2671728-2671747 MS.gene76525:intron 25.0%
!!! TTTTGTTGTTGATTTTTCCA+GGG + chr2.3:2671262-2671281 MS.gene76525:intron 25.0%
ACAAATGCAAAACCTATAGA+GGG - chr2.3:2670925-2670944 None:intergenic 30.0%
GATTCTAACATTGAACTCTA+TGG + chr2.3:2671174-2671193 MS.gene76525:CDS 30.0%
! ATTTTGTTAAATTGTGGAGG+GGG + chr2.3:2671289-2671308 MS.gene76525:CDS 30.0%
!! ATTTGCTATTAGGTTCTTGA+AGG + chr2.3:2671433-2671452 MS.gene76525:intron 30.0%
!!! TGGTCTGAATTTTTTATGTG+AGG - chr2.3:2670809-2670828 None:intergenic 30.0%
ACTTTCATTCCATGTGATGT+AGG + chr2.3:2671835-2671854 MS.gene76525:intron 35.0%
AGAACCAAAATTAGAGCAGT+TGG + chr2.3:2670847-2670866 MS.gene76525:CDS 35.0%
ATGTGAAATGTGAACTCTTG+TGG + chr2.3:2671601-2671620 MS.gene76525:intron 35.0%
ATTAGCATGTCAAACAACTG+TGG + chr2.3:2671683-2671702 MS.gene76525:CDS 35.0%
CATGCTAATCTCCAATTCTT+TGG - chr2.3:2671672-2671691 None:intergenic 35.0%
GAAGCTTAGGAACATAATGT+TGG + chr2.3:2671152-2671171 MS.gene76525:CDS 35.0%
GACAAATGCAAAACCTATAG+AGG - chr2.3:2670926-2670945 None:intergenic 35.0%
TGATTCAACAATTACCAGAG+TGG + chr2.3:2671861-2671880 MS.gene76525:CDS 35.0%
TTAGCATGTCAAACAACTGT+GGG + chr2.3:2671684-2671703 MS.gene76525:CDS 35.0%
! TCTCTGAATCCTTCTTTTCA+GGG - chr2.3:2670879-2670898 None:intergenic 35.0%
!! CTTGTAAAGAGTGTTGTGTT+TGG - chr2.3:2670829-2670848 None:intergenic 35.0%
AATGCAAAACCTATAGAGGG+AGG - chr2.3:2670922-2670941 None:intergenic 40.0%
ATGCAAAACCTATAGAGGGA+GGG - chr2.3:2670921-2670940 None:intergenic 40.0%
CAACAATTACCAGAGTGGAA+AGG + chr2.3:2671866-2671885 MS.gene76525:CDS 40.0%
CTATTAGGTTCTTGAAGGCA+AGG + chr2.3:2671438-2671457 MS.gene76525:intron 40.0%
GAATCACAACCTACATCACA+TGG - chr2.3:2671847-2671866 None:intergenic 40.0%
TGGAACTTGTGCTACATGTA+TGG + chr2.3:2671312-2671331 MS.gene76525:CDS 40.0%
TTATGTGAGGAAGAAGAGAG+AGG - chr2.3:2670796-2670815 None:intergenic 40.0%
TTGTGCTACATGTATGGTAG+AGG + chr2.3:2671318-2671337 MS.gene76525:CDS 40.0%
! AGAGAGGTGTGAATGCATTA+GGG - chr2.3:2670780-2670799 None:intergenic 40.0%
! AGTGCCAACTGCTCTAATTT+TGG - chr2.3:2670854-2670873 None:intergenic 40.0%
! GTCTCTGAATCCTTCTTTTC+AGG - chr2.3:2670880-2670899 None:intergenic 40.0%
!! CATTAGGGGTTAGTTTGAGT+TGG - chr2.3:2670765-2670784 None:intergenic 40.0%
AGGGTCATTAGAGTCACTAG+TGG - chr2.3:2670902-2670921 None:intergenic 45.0%
CAGAGTGGAAAGGACATGAA+TGG + chr2.3:2671876-2671895 MS.gene76525:CDS 45.0%
CATTATCGTACAGCTTGTGG+TGG + chr2.3:2671126-2671145 MS.gene76525:CDS 45.0%
CATTCATGTCCTTTCCACTC+TGG - chr2.3:2671878-2671897 None:intergenic 45.0%
GCTGTACGATAATGCACATC+TGG - chr2.3:2671120-2671139 None:intergenic 45.0%
GTGCATTATCGTACAGCTTG+TGG + chr2.3:2671123-2671142 MS.gene76525:CDS 45.0%
TCTAATGACCCTCCCTCTAT+AGG + chr2.3:2670910-2670929 MS.gene76525:CDS 45.0%
TCTTTCTCTTTGTCAGTGCG+AGG - chr2.3:2671475-2671494 None:intergenic 45.0%
TGGGTGAAGCAGATTCTACA+GGG + chr2.3:2671703-2671722 MS.gene76525:CDS 45.0%
TTGTTAAATTGTGGAGGGGG+TGG + chr2.3:2671292-2671311 MS.gene76525:CDS 45.0%
! GAGAGAGGTGTGAATGCATT+AGG - chr2.3:2670781-2670800 None:intergenic 45.0%
! GAGAGGTGTGAATGCATTAG+GGG - chr2.3:2670779-2670798 None:intergenic 45.0%
! TAGTCTGTGTTGCTACCAGA+TGG + chr2.3:2671090-2671109 MS.gene76525:intron 45.0%
!! TAGGGGTTAGTTTGAGTTGG+AGG - chr2.3:2670762-2670781 None:intergenic 45.0%
GGGTGAAGCAGATTCTACAG+GGG + chr2.3:2671704-2671723 MS.gene76525:CDS 50.0%
GTGGGTGAAGCAGATTCTAC+AGG + chr2.3:2671702-2671721 MS.gene76525:CDS 50.0%
TGAAGCAGATTCTACAGGGG+TGG + chr2.3:2671707-2671726 MS.gene76525:CDS 50.0%
TGCACATCTGGTGTTCCATC+TGG - chr2.3:2671108-2671127 None:intergenic 50.0%
TGGCACTGTCCCTGAAAAGA+AGG + chr2.3:2670867-2670886 MS.gene76525:CDS 50.0%
!! CTTGTGGTGGACAGAAGCTT+AGG + chr2.3:2671139-2671158 MS.gene76525:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 2670751 2671940 2670751 ID=MS.gene76525
chr2.3 mRNA 2670751 2671940 2670751 ID=MS.gene76525.t1;Parent=MS.gene76525
chr2.3 exon 2670751 2670948 2670751 ID=MS.gene76525.t1.exon1;Parent=MS.gene76525.t1
chr2.3 CDS 2670751 2670948 2670751 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
chr2.3 exon 2671093 2671203 2671093 ID=MS.gene76525.t1.exon2;Parent=MS.gene76525.t1
chr2.3 CDS 2671093 2671203 2671093 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
chr2.3 exon 2671283 2671339 2671283 ID=MS.gene76525.t1.exon3;Parent=MS.gene76525.t1
chr2.3 CDS 2671283 2671339 2671283 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
chr2.3 exon 2671445 2671507 2671445 ID=MS.gene76525.t1.exon4;Parent=MS.gene76525.t1
chr2.3 CDS 2671445 2671507 2671445 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
chr2.3 exon 2671666 2671728 2671666 ID=MS.gene76525.t1.exon5;Parent=MS.gene76525.t1
chr2.3 CDS 2671666 2671728 2671666 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
chr2.3 exon 2671857 2671940 2671857 ID=MS.gene76525.t1.exon6;Parent=MS.gene76525.t1
chr2.3 CDS 2671857 2671940 2671857 ID=cds.MS.gene76525.t1;Parent=MS.gene76525.t1
Gene Sequence

>MS.gene76525

ATGTCACTCCTCCAACTCAAACTAACCCCTAATGCATTCACACCTCTCTCTTCTTCCTCACATAAAAAATTCAGACCAAACACAACACTCTTTACAAGAACCAAAATTAGAGCAGTTGGCACTGTCCCTGAAAAGAAGGATTCAGAGACCACTAGTGACTCTAATGACCCTCCCTCTATAGGTTTTGCATTTGTCAGTGTAAGTTCAAATTCATAATACTATACTAAATGTACATACATGTAACATAACATAACATGTAACTAATTAATTCTACTTATATCTAGTTGGTTTTACATTTATTATTAAATTTATGAAATTAATCTCTAATGTTTTGTGGATTAGTCTGTGTTGCTACCAGATGGAACACCAGATGTGCATTATCGTACAGCTTGTGGTGGACAGAAGCTTAGGAACATAATGTTGGATTCTAACATTGAACTCTATGGACCTTATGTAATTATCTCACTAACTTAAATTATTTTATTTTTAAGCAATAATTGGATGATAATTATTTTGTTGTTGATTTTTCCAGGGTAGAATTTTGTTAAATTGTGGAGGGGGTGGAACTTGTGCTACATGTATGGTAGAGGTGAGCTATAATAATCTTATATAATTTTCTAGCAAAAATACACATTTTATTGGGTAGTATATAGTTATATAGTACTTATTGTATTTTTTTTTAATTTGCTATTAGGTTCTTGAAGGCAAGGAGCTTCTGAGTCCTCGCACTGACAAAGAGAAAGAAAAACTTAAGAGGGTAAATGATTAAATCTTAACTTGATTAATGTTATTTTTTAATAAGAACTTAATTGTCATATTGAAAGAAAGAACAAACTTTTAGCATAAGTATATGTGAAATGTGAACTCTTGTGGTAAGAAAGATTACAATTATGATATCTTGTGTTTTCTTTATAGAAACCAAAGAATTGGAGATTAGCATGTCAAACAACTGTGGGTGAAGCAGATTCTACAGGGGTGGTTAGTACTACTAATTTTTTGGGTTAATTAATATACAGATTAGAAATTAATAAAATGGCTGTATTTATTATTTATGCTTAATTTATGTTGAGCAATATATTGGTACACTTTCATTCCATGTGATGTAGGTTGTGATTCAACAATTACCAGAGTGGAAAGGACATGAATGGAAATATGAAAAGGATGATGATGACTCAGCAGACTCTTTGTGA

Protein sequence

>MS.gene76525.t1

MSLLQLKLTPNAFTPLSSSSHKKFRPNTTLFTRTKIRAVGTVPEKKDSETTSDSNDPPSIGFAFVSSVLLPDGTPDVHYRTACGGQKLRNIMLDSNIELYGPYGRILLNCGGGGTCATCMVEVLEGKELLSPRTDKEKEKLKRKPKNWRLACQTTVGEADSTGVVVIQQLPEWKGHEWKYEKDDDDSADSL