AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36391

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36391.t1 MTR_2g100420 100.000 205 0 0 1 205 1 205 2.80e-150 415
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36391.t1 AT1G17730 87.805 205 23 1 1 205 1 203 1.04e-130 366
MS.gene36391.t1 AT1G73030 88.293 205 22 1 1 205 1 203 8.49e-119 335
MS.gene36391.t1 AT2G06530 27.273 165 116 2 19 180 7 170 6.49e-12 62.4
MS.gene36391.t1 AT2G06530 27.273 165 116 2 19 180 28 191 8.56e-12 62.4

Find 50 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTTCAAGCGGAGTTTA+TGG 0.198154 2.2:+2719784 MS.gene36391:CDS
CAACAGGTGGCGGATGATTA+TGG 0.251058 2.2:+2719869 MS.gene36391:CDS
CGAGAAGCAGTTTGTGAATA+TGG 0.254306 2.2:+2719763 MS.gene36391:CDS
GGGAAACATCGTGAAATCTT+TGG 0.350209 2.2:+2719685 MS.gene36391:CDS
GGCGGCTGCTCATGCTGTTC+CGG 0.374454 2.2:+2719919 MS.gene36391:CDS
TGCTCATGCTGTTCCGGTTA+AGG 0.374890 2.2:+2719925 MS.gene36391:CDS
GGAAGTTTCGGTGAATCTTC+CGG 0.375555 2.2:+2719895 MS.gene36391:CDS
TCAGCATCCTTCTCCTTAAC+CGG 0.398938 2.2:-2719938 None:intergenic
CATCCAATCGGGAGGATAAT+CGG 0.409666 2.2:-2719607 None:intergenic
TGATTATGGATTGGAAGTTT+CGG 0.427917 2.2:+2719883 MS.gene36391:CDS
GGTTAATAGTTTGATGCAAC+AGG 0.440152 2.2:+2719853 MS.gene36391:CDS
TTGGAATCGTCGTTGGCGAC+GGG 0.441222 2.2:+2719704 MS.gene36391:CDS
TTCGGTGAATCTTCCGGTGG+CGG 0.464892 2.2:+2719901 MS.gene36391:CDS
AAGCTTCTCTGTGTTTCCCA+TGG 0.476337 2.2:-2719399 None:intergenic
TAGTTTGATGCAACAGGTGG+CGG 0.477361 2.2:+2719859 MS.gene36391:CDS
AAACTATTAACCTCCCCTTC+AGG 0.482512 2.2:-2719842 None:intergenic
GAGCACTCACGGCATCCAAT+CGG 0.483420 2.2:-2719619 None:intergenic
ACAGCATGAGCAGCCGCCAC+CGG 0.500440 2.2:-2719914 None:intergenic
AGCACTCACGGCATCCAATC+GGG 0.502128 2.2:-2719618 None:intergenic
CTTCGCTTTCGACTCCTGAA+GGG 0.513104 2.2:+2719828 MS.gene36391:CDS
ACTTCGCTTTCGACTCCTGA+AGG 0.521847 2.2:+2719827 MS.gene36391:CDS
GTCAACAATCAGCAAATCGA+TGG 0.522743 2.2:+2719664 MS.gene36391:CDS
TGCTGTTCCGGTTAAGGAGA+AGG 0.523122 2.2:+2719931 MS.gene36391:CDS
GAAGCTTCTGAATCAGATCA+TGG 0.534967 2.2:+2719415 MS.gene36391:CDS
GAAATCTTTGGAATCGTCGT+TGG 0.542053 2.2:+2719697 MS.gene36391:CDS
TTTGGAATCGTCGTTGGCGA+CGG 0.545316 2.2:+2719703 MS.gene36391:CDS
TTCGCTTTCGACTCCTGAAG+GGG 0.555513 2.2:+2719829 MS.gene36391:CDS
GCAGAAGATGTCGGAGACGA+TGG 0.561045 2.2:+2719733 MS.gene36391:CDS
TAAGGAGAAGGATGCTGAGA+AGG 0.573843 2.2:+2719943 MS.gene36391:CDS
GGAGTTTATGGAAAGTGCTA+TGG 0.582336 2.2:+2719796 MS.gene36391:CDS
GGTGGCGGATGATTATGGAT+TGG 0.587630 2.2:+2719874 MS.gene36391:CDS
TCACCTCAAAATCTCTTCAA+CGG 0.589140 2.2:+2719447 MS.gene36391:CDS
CTTGCTGAGCTTAAAGCTAG+AGG 0.589782 2.2:+2719992 MS.gene36391:CDS
CCTCCGATTATCCTCCCGAT+TGG 0.590956 2.2:+2719604 MS.gene36391:CDS
GGATGCTGAGAAGGTTGATG+AGG 0.596267 2.2:+2719952 MS.gene36391:CDS
GTTTATGGAAAGTGCTATGG+CGG 0.596862 2.2:+2719799 MS.gene36391:CDS
TGTGAATATGGAGGTTCAAG+CGG 0.607620 2.2:+2719775 MS.gene36391:CDS
TGTATCGAGACGAGCACTCA+CGG 0.607767 2.2:-2719630 None:intergenic
GCTTTCGACTCCTGAAGGGG+AGG 0.608667 2.2:+2719832 MS.gene36391:CDS
TCAACAATCAGCAAATCGAT+GGG 0.616382 2.2:+2719665 MS.gene36391:CDS
TGGAATCGTCGTTGGCGACG+GGG 0.616847 2.2:+2719705 MS.gene36391:CDS
GGGGAATTTGCAGAAGATGT+CGG 0.623637 2.2:+2719724 MS.gene36391:CDS
GAGTGCTCGTCTCGATACAC+AGG 0.631959 2.2:+2719634 MS.gene36391:CDS
TTGATGAGGATGATTTGTCA+AGG 0.632184 2.2:+2719966 MS.gene36391:CDS
TTTATGGAAAGTGCTATGGC+GGG 0.633565 2.2:+2719800 MS.gene36391:CDS
TAATAGTTTGATGCAACAGG+TGG 0.645930 2.2:+2719856 MS.gene36391:CDS
GAAGCAGTTTGTGAATATGG+AGG 0.657749 2.2:+2719766 MS.gene36391:CDS
AGTTTCGGTGAATCTTCCGG+TGG 0.669085 2.2:+2719898 MS.gene36391:CDS
ACTCACGGCATCCAATCGGG+AGG 0.700613 2.2:-2719615 None:intergenic
CCAATCGGGAGGATAATCGG+AGG 0.740590 2.2:-2719604 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTCACCTTAAGTTTTT+CGG - chr2.2:2719504-2719523 None:intergenic 20.0%
AGAGAAATCCGAAAAACTTA+AGG + chr2.2:2719493-2719512 MS.gene36391:CDS 30.0%
GTGAAAAAAGCAATCGAAAA+AGG + chr2.2:2719515-2719534 MS.gene36391:CDS 30.0%
!! TGATTATGGATTGGAAGTTT+CGG + chr2.2:2719883-2719902 MS.gene36391:CDS 30.0%
AGCAATCGAAAAAGGTAACA+TGG + chr2.2:2719523-2719542 MS.gene36391:CDS 35.0%
ATCGAAAAAGGTAACATGGA+CGG + chr2.2:2719527-2719546 MS.gene36391:CDS 35.0%
GGTTAATAGTTTGATGCAAC+AGG + chr2.2:2719853-2719872 MS.gene36391:CDS 35.0%
TAATAGTTTGATGCAACAGG+TGG + chr2.2:2719856-2719875 MS.gene36391:CDS 35.0%
TCAACAATCAGCAAATCGAT+GGG + chr2.2:2719665-2719684 MS.gene36391:CDS 35.0%
TCACCTCAAAATCTCTTCAA+CGG + chr2.2:2719447-2719466 MS.gene36391:CDS 35.0%
! TTGATGAGGATGATTTGTCA+AGG + chr2.2:2719966-2719985 MS.gene36391:CDS 35.0%
AAACTATTAACCTCCCCTTC+AGG - chr2.2:2719845-2719864 None:intergenic 40.0%
CGAGAAGCAGTTTGTGAATA+TGG + chr2.2:2719763-2719782 MS.gene36391:CDS 40.0%
GAAGCAGTTTGTGAATATGG+AGG + chr2.2:2719766-2719785 MS.gene36391:CDS 40.0%
GAAGCTTCTGAATCAGATCA+TGG + chr2.2:2719415-2719434 MS.gene36391:CDS 40.0%
GGGAAACATCGTGAAATCTT+TGG + chr2.2:2719685-2719704 MS.gene36391:CDS 40.0%
GTCAACAATCAGCAAATCGA+TGG + chr2.2:2719664-2719683 MS.gene36391:CDS 40.0%
TGTGAATATGGAGGTTCAAG+CGG + chr2.2:2719775-2719794 MS.gene36391:CDS 40.0%
! TTGCCGTTGAAGAGATTTTG+AGG - chr2.2:2719453-2719472 None:intergenic 40.0%
!! GAAATCTTTGGAATCGTCGT+TGG + chr2.2:2719697-2719716 MS.gene36391:CDS 40.0%
!! GGAGTTTATGGAAAGTGCTA+TGG + chr2.2:2719796-2719815 MS.gene36391:CDS 40.0%
!! GTTTATGGAAAGTGCTATGG+CGG + chr2.2:2719799-2719818 MS.gene36391:CDS 40.0%
!! TTTATGGAAAGTGCTATGGC+GGG + chr2.2:2719800-2719819 MS.gene36391:CDS 40.0%
CATCCAATCGGGAGGATAAT+CGG - chr2.2:2719610-2719629 None:intergenic 45.0%
CTTGCTGAGCTTAAAGCTAG+AGG + chr2.2:2719992-2720011 MS.gene36391:CDS 45.0%
GGAAGTTTCGGTGAATCTTC+CGG + chr2.2:2719895-2719914 MS.gene36391:CDS 45.0%
GGGGAATTTGCAGAAGATGT+CGG + chr2.2:2719724-2719743 MS.gene36391:CDS 45.0%
TAAGGAGAAGGATGCTGAGA+AGG + chr2.2:2719943-2719962 MS.gene36391:CDS 45.0%
TAGTTTGATGCAACAGGTGG+CGG + chr2.2:2719859-2719878 MS.gene36391:CDS 45.0%
TCAGCATCCTTCTCCTTAAC+CGG - chr2.2:2719941-2719960 None:intergenic 45.0%
! TCATCTGCTCTGTGCGTTTT+CGG - chr2.2:2719580-2719599 None:intergenic 45.0%
ACTTCGCTTTCGACTCCTGA+AGG + chr2.2:2719827-2719846 MS.gene36391:CDS 50.0%
AGTTTCGGTGAATCTTCCGG+TGG + chr2.2:2719898-2719917 MS.gene36391:CDS 50.0%
CTTCGCTTTCGACTCCTGAA+GGG + chr2.2:2719828-2719847 MS.gene36391:CDS 50.0%
GGAGGTTCAAGCGGAGTTTA+TGG + chr2.2:2719784-2719803 MS.gene36391:CDS 50.0%
TGCTCATGCTGTTCCGGTTA+AGG + chr2.2:2719925-2719944 MS.gene36391:CDS 50.0%
TGCTGTTCCGGTTAAGGAGA+AGG + chr2.2:2719931-2719950 MS.gene36391:CDS 50.0%
TGTATCGAGACGAGCACTCA+CGG - chr2.2:2719633-2719652 None:intergenic 50.0%
TTCGCTTTCGACTCCTGAAG+GGG + chr2.2:2719829-2719848 MS.gene36391:CDS 50.0%
! TTTGGAATCGTCGTTGGCGA+CGG + chr2.2:2719703-2719722 MS.gene36391:CDS 50.0%
!! CAACAGGTGGCGGATGATTA+TGG + chr2.2:2719869-2719888 MS.gene36391:CDS 50.0%
!! GGATGCTGAGAAGGTTGATG+AGG + chr2.2:2719952-2719971 MS.gene36391:CDS 50.0%
!! GGTGGCGGATGATTATGGAT+TGG + chr2.2:2719874-2719893 MS.gene36391:CDS 50.0%
AGCACTCACGGCATCCAATC+GGG - chr2.2:2719621-2719640 None:intergenic 55.0%
CCAATCGGGAGGATAATCGG+AGG - chr2.2:2719607-2719626 None:intergenic 55.0%
CCTCCGATTATCCTCCCGAT+TGG + chr2.2:2719604-2719623 MS.gene36391:CDS 55.0%
GAGCACTCACGGCATCCAAT+CGG - chr2.2:2719622-2719641 None:intergenic 55.0%
GAGTGCTCGTCTCGATACAC+AGG + chr2.2:2719634-2719653 MS.gene36391:CDS 55.0%
GCAGAAGATGTCGGAGACGA+TGG + chr2.2:2719733-2719752 MS.gene36391:CDS 55.0%
TTCGGTGAATCTTCCGGTGG+CGG + chr2.2:2719901-2719920 MS.gene36391:CDS 55.0%
TTGGAATCGTCGTTGGCGAC+GGG + chr2.2:2719704-2719723 MS.gene36391:CDS 55.0%
ACTCACGGCATCCAATCGGG+AGG - chr2.2:2719618-2719637 None:intergenic 60.0%
GCTTTCGACTCCTGAAGGGG+AGG + chr2.2:2719832-2719851 MS.gene36391:CDS 60.0%
TGGAATCGTCGTTGGCGACG+GGG + chr2.2:2719705-2719724 MS.gene36391:CDS 60.0%
ACAGCATGAGCAGCCGCCAC+CGG - chr2.2:2719917-2719936 None:intergenic 65.0%
GGCGGCTGCTCATGCTGTTC+CGG + chr2.2:2719919-2719938 MS.gene36391:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 2719401 2720018 2719401 ID=MS.gene36391
chr2.2 mRNA 2719401 2720018 2719401 ID=MS.gene36391.t1;Parent=MS.gene36391
chr2.2 exon 2719401 2720018 2719401 ID=MS.gene36391.t1.exon1;Parent=MS.gene36391.t1
chr2.2 CDS 2719401 2720018 2719401 ID=cds.MS.gene36391.t1;Parent=MS.gene36391.t1
Gene Sequence

>MS.gene36391

ATGGGAAACACAGAGAAGCTTCTGAATCAGATCATGGAATTGAAATTCACCTCAAAATCTCTTCAACGGCAAGCAAGAAAATGCGAAAAAGAAGAGAAATCCGAAAAACTTAAGGTGAAAAAAGCAATCGAAAAAGGTAACATGGACGGTGCACGAATCTACGCTGAAAACGCGATCCGAAAACGCACAGAGCAGATGAACTACCTCCGATTATCCTCCCGATTGGATGCCGTGAGTGCTCGTCTCGATACACAGGCGAAGATGTCAACAATCAGCAAATCGATGGGAAACATCGTGAAATCTTTGGAATCGTCGTTGGCGACGGGGAATTTGCAGAAGATGTCGGAGACGATGGATCAATTCGAGAAGCAGTTTGTGAATATGGAGGTTCAAGCGGAGTTTATGGAAAGTGCTATGGCGGGATCGACTTCGCTTTCGACTCCTGAAGGGGAGGTTAATAGTTTGATGCAACAGGTGGCGGATGATTATGGATTGGAAGTTTCGGTGAATCTTCCGGTGGCGGCTGCTCATGCTGTTCCGGTTAAGGAGAAGGATGCTGAGAAGGTTGATGAGGATGATTTGTCAAGGCGTCTTGCTGAGCTTAAAGCTAGAGGTTAA
Protein sequence

>MS.gene36391.t1

MGNTEKLLNQIMELKFTSKSLQRQARKCEKEEKSEKLKVKKAIEKGNMDGARIYAENAIRKRTEQMNYLRLSSRLDAVSARLDTQAKMSTISKSMGNIVKSLESSLATGNLQKMSETMDQFEKQFVNMEVQAEFMESAMAGSTSLSTPEGEVNSLMQQVADDYGLEVSVNLPVAAAHAVPVKEKDAEKVDEDDLSRRLAELKARG