AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066194


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066194.t1 MTR_2g064300 95.370 216 10 0 1 216 1 216 7.08e-142 395
MS.gene066194.t1 MTR_7g053520 83.871 217 34 1 1 216 1 217 1.45e-120 341
MS.gene066194.t1 MTR_2g031760 40.606 165 93 3 53 216 30 190 4.58e-33 118
MS.gene066194.t1 MTR_2g031960 47.857 140 66 3 79 216 21 155 7.25e-31 111
MS.gene066194.t1 MTR_8g076780 44.737 152 74 2 74 216 45 195 9.61e-30 109
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066194.t1 AT1G70190 53.182 220 87 3 1 216 1 208 7.28e-66 202
MS.gene066194.t1 AT1G70190 53.182 220 87 3 1 216 1 208 7.28e-66 202
MS.gene066194.t1 AT4G36420 44.211 190 91 4 30 216 2 179 2.21e-34 121
MS.gene066194.t1 AT3G06040 41.611 149 80 1 68 216 45 186 5.29e-28 104
MS.gene066194.t1 AT3G06040 41.611 149 80 1 68 216 45 186 5.29e-28 104
MS.gene066194.t1 AT3G06040 41.611 149 80 1 68 216 45 186 5.29e-28 104
MS.gene066194.t1 AT4G37660 38.587 184 90 3 33 216 7 167 4.12e-25 97.1
MS.gene066194.t1 AT2G03130 57.500 80 34 0 137 216 12 91 1.07e-15 70.5

Find 53 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCTTGATGACTTTAATTT+TGG 0.115213 2.2:-25404947 None:intergenic
CCAGTTTATGAAAGCGTATT+AGG 0.115413 2.2:+25404523 MS.gene066194:CDS
TGGAGGGCCACGATTGTTAT+TGG 0.240332 2.2:-25404683 None:intergenic
GAAAGCAGGGTCTGCAAATT+TGG 0.254350 2.2:+25404828 MS.gene066194:CDS
GTGCGGGGCTTTACCGATTT+AGG 0.299345 2.2:+25404970 MS.gene066194:CDS
CCTAATACGCTTTCATAAAC+TGG 0.317127 2.2:-25404523 None:intergenic
TGAGCTTGCTGTTGAGAATA+AGG 0.322760 2.2:+25404470 MS.gene066194:CDS
GCTAGCTGAAGGTGCGGAAT+TGG 0.332644 2.2:+25404750 MS.gene066194:CDS
CAGTTTATGAAAGCGTATTA+GGG 0.345172 2.2:+25404524 MS.gene066194:CDS
TGCCTCCTTCAAACCTAAAT+CGG 0.380631 2.2:-25404983 None:intergenic
GGAGGGCCACGATTGTTATT+GGG 0.390326 2.2:-25404682 None:intergenic
GGAGGAAGACGTAGAGGAAG+TGG 0.397120 2.2:+25404609 MS.gene066194:CDS
ACTTGGTGCTAATGTTGTTT+TGG 0.411925 2.2:+25405092 MS.gene066194:CDS
CTAGCTGAAGGTGCGGAATT+GGG 0.422415 2.2:+25404751 MS.gene066194:CDS
TTATTGGGATCAAATGTTGC+AGG 0.430449 2.2:-25404667 None:intergenic
CTTTACCGATTTAGGTTTGA+AGG 0.453564 2.2:+25404978 MS.gene066194:CDS
TAAAGTCATCAAGGAGGTGC+GGG 0.464501 2.2:+25404954 MS.gene066194:CDS
GTCTGCAAATTTGGCCGGAA+TGG 0.467477 2.2:+25404837 MS.gene066194:CDS
GCTTTCATATATCCCACATT+GGG 0.475885 2.2:-25404811 None:intergenic
CTCCTCTTGGGCTGCAGTCG+TGG 0.476435 2.2:-25404869 None:intergenic
AAAGGTGTTTCAAAGGAAGA+AGG 0.492660 2.2:+25405042 MS.gene066194:CDS
GTTGCAGGATCAAAATCAGC+TGG 0.495579 2.2:-25404652 None:intergenic
TATAAAGAAAGGTGTTTCAA+AGG 0.503102 2.2:+25405035 MS.gene066194:CDS
ACACCGTCTATTATAAAGAA+AGG 0.512263 2.2:+25405024 MS.gene066194:CDS
TGCTTTCATATATCCCACAT+TGG 0.515923 2.2:-25404812 None:intergenic
TGGTCAAGTTGCAAGAAAAG+AGG 0.520139 2.2:+25404585 MS.gene066194:CDS
GCGTATTAGGGCTTAATGCT+AGG 0.525999 2.2:+25404536 MS.gene066194:CDS
ACACCTTTCTTTATAATAGA+CGG 0.526861 2.2:-25405027 None:intergenic
TTCCAAAATTAAAGTCATCA+AGG 0.526956 2.2:+25404945 MS.gene066194:CDS
AATGTGGGATATATGAAAGC+AGG 0.529942 2.2:+25404814 MS.gene066194:CDS
AGCCTGAAAACTTTCTCTGA+TGG 0.532734 2.2:-25404703 None:intergenic
CTGAAAACTTTCTCTGATGG+AGG 0.535890 2.2:-25404700 None:intergenic
GCAGGGTCTGCAAATTTGGC+CGG 0.545113 2.2:+25404832 MS.gene066194:CDS
TTTCAGGCTTGTTGATGAAG+TGG 0.545631 2.2:+25404717 MS.gene066194:CDS
AGAGGAGGAGGAAGACGTAG+AGG 0.548567 2.2:+25404603 MS.gene066194:CDS
AGTTGCAAGAAAAGAGGAGG+AGG 0.555547 2.2:+25404591 MS.gene066194:CDS
TTTAGGTTTGAAGGAGGCAA+AGG 0.562989 2.2:+25404987 MS.gene066194:CDS
TGAAAACTTTCTCTGATGGA+GGG 0.607842 2.2:-25404699 None:intergenic
GCGTCTCTAACGCTAGCTGA+AGG 0.607910 2.2:+25404739 MS.gene066194:CDS
GATAAAAGAAATGCCCAATG+TGG 0.608771 2.2:+25404798 MS.gene066194:CDS
TTAAAGTCATCAAGGAGGTG+CGG 0.612909 2.2:+25404953 MS.gene066194:CDS
ATAGAGAAAATGAAAGCACT+TGG 0.623385 2.2:+25405075 MS.gene066194:CDS
ATGTGGGATATATGAAAGCA+GGG 0.623877 2.2:+25404815 MS.gene066194:CDS
ATAAAAGAAATGCCCAATGT+GGG 0.625462 2.2:+25404799 MS.gene066194:CDS
TACCGATTTAGGTTTGAAGG+AGG 0.626116 2.2:+25404981 MS.gene066194:CDS
CACGACTGCAGCCCAAGAGG+AGG 0.628136 2.2:+25404870 MS.gene066194:CDS
TTGCAGGATCAAAATCAGCT+GGG 0.640796 2.2:-25404651 None:intergenic
AGCCACGACTGCAGCCCAAG+AGG 0.642383 2.2:+25404867 MS.gene066194:CDS
TCAAGTTGCAAGAAAAGAGG+AGG 0.661992 2.2:+25404588 MS.gene066194:CDS
AAAGTCATCAAGGAGGTGCG+GGG 0.667732 2.2:+25404955 MS.gene066194:CDS
TTTGATCCCAATAACAATCG+TGG 0.681002 2.2:+25404676 MS.gene066194:CDS
TCTAACGCTAGCTGAAGGTG+CGG 0.697298 2.2:+25404744 MS.gene066194:CDS
CAAAATTAAAGTCATCAAGG+AGG 0.704497 2.2:+25404948 MS.gene066194:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTCAAATACAGTTTTTTC+TGG - chr2.2:25404901-25404920 None:intergenic 20.0%
! ACACCTTTCTTTATAATAGA+CGG - chr2.2:25405030-25405049 None:intergenic 25.0%
! TTCCAAAATTAAAGTCATCA+AGG + chr2.2:25404945-25404964 MS.gene066194:CDS 25.0%
!!! AATGTATTTTCGAGAAACTT+TGG + chr2.2:25404565-25404584 MS.gene066194:CDS 25.0%
!!! CTCATTTTGATGAAGAAAAT+GGG + chr2.2:25404775-25404794 MS.gene066194:CDS 25.0%
!!! TATAAAGAAAGGTGTTTCAA+AGG + chr2.2:25405035-25405054 MS.gene066194:CDS 25.0%
!!! TCATTTTGATGAAGAAAATG+GGG + chr2.2:25404776-25404795 MS.gene066194:CDS 25.0%
!!! TCTCATTTTGATGAAGAAAA+TGG + chr2.2:25404774-25404793 MS.gene066194:CDS 25.0%
ACACCGTCTATTATAAAGAA+AGG + chr2.2:25405024-25405043 MS.gene066194:CDS 30.0%
ATAAAAGAAATGCCCAATGT+GGG + chr2.2:25404799-25404818 MS.gene066194:CDS 30.0%
CAAAATTAAAGTCATCAAGG+AGG + chr2.2:25404948-25404967 MS.gene066194:CDS 30.0%
! CAGTTTATGAAAGCGTATTA+GGG + chr2.2:25404524-25404543 MS.gene066194:CDS 30.0%
!! ATAGAGAAAATGAAAGCACT+TGG + chr2.2:25405075-25405094 MS.gene066194:CDS 30.0%
!! CTCCTTGATGACTTTAATTT+TGG - chr2.2:25404950-25404969 None:intergenic 30.0%
AATGTGGGATATATGAAAGC+AGG + chr2.2:25404814-25404833 MS.gene066194:CDS 35.0%
ATGTGGGATATATGAAAGCA+GGG + chr2.2:25404815-25404834 MS.gene066194:CDS 35.0%
CCTAATACGCTTTCATAAAC+TGG - chr2.2:25404526-25404545 None:intergenic 35.0%
GATAAAAGAAATGCCCAATG+TGG + chr2.2:25404798-25404817 MS.gene066194:CDS 35.0%
GCTTTCATATATCCCACATT+GGG - chr2.2:25404814-25404833 None:intergenic 35.0%
TGAAAACTTTCTCTGATGGA+GGG - chr2.2:25404702-25404721 None:intergenic 35.0%
TGCTTTCATATATCCCACAT+TGG - chr2.2:25404815-25404834 None:intergenic 35.0%
TTATTGGGATCAAATGTTGC+AGG - chr2.2:25404670-25404689 None:intergenic 35.0%
TTTGATCCCAATAACAATCG+TGG + chr2.2:25404676-25404695 MS.gene066194:CDS 35.0%
! CCAGTTTATGAAAGCGTATT+AGG + chr2.2:25404523-25404542 MS.gene066194:CDS 35.0%
!! AAAGGTGTTTCAAAGGAAGA+AGG + chr2.2:25405042-25405061 MS.gene066194:CDS 35.0%
!! CTTTACCGATTTAGGTTTGA+AGG + chr2.2:25404978-25404997 MS.gene066194:CDS 35.0%
!!! ACTTGGTGCTAATGTTGTTT+TGG + chr2.2:25405092-25405111 MS.gene066194:CDS 35.0%
AGCCTGAAAACTTTCTCTGA+TGG - chr2.2:25404706-25404725 None:intergenic 40.0%
CTGAAAACTTTCTCTGATGG+AGG - chr2.2:25404703-25404722 None:intergenic 40.0%
TGCCTCCTTCAAACCTAAAT+CGG - chr2.2:25404986-25405005 None:intergenic 40.0%
TTAAAGTCATCAAGGAGGTG+CGG + chr2.2:25404953-25404972 MS.gene066194:CDS 40.0%
TTGCAGGATCAAAATCAGCT+GGG - chr2.2:25404654-25404673 None:intergenic 40.0%
! CTCCATCAGAGAAAGTTTTC+AGG + chr2.2:25404701-25404720 MS.gene066194:CDS 40.0%
! TCAAGTTGCAAGAAAAGAGG+AGG + chr2.2:25404588-25404607 MS.gene066194:CDS 40.0%
! TGGTCAAGTTGCAAGAAAAG+AGG + chr2.2:25404585-25404604 MS.gene066194:CDS 40.0%
! TTTAGGTTTGAAGGAGGCAA+AGG + chr2.2:25404987-25405006 MS.gene066194:CDS 40.0%
!! TACCGATTTAGGTTTGAAGG+AGG + chr2.2:25404981-25405000 MS.gene066194:CDS 40.0%
!! TGAGCTTGCTGTTGAGAATA+AGG + chr2.2:25404470-25404489 MS.gene066194:CDS 40.0%
!! TTTCAGGCTTGTTGATGAAG+TGG + chr2.2:25404717-25404736 MS.gene066194:CDS 40.0%
!!! TTCTGGTTTTACCTCCTCTT+GGG - chr2.2:25404884-25404903 None:intergenic 40.0%
!!! TTTCTGGTTTTACCTCCTCT+TGG - chr2.2:25404885-25404904 None:intergenic 40.0%
AGTTGCAAGAAAAGAGGAGG+AGG + chr2.2:25404591-25404610 MS.gene066194:CDS 45.0%
GAAAGCAGGGTCTGCAAATT+TGG + chr2.2:25404828-25404847 MS.gene066194:CDS 45.0%
GCGTATTAGGGCTTAATGCT+AGG + chr2.2:25404536-25404555 MS.gene066194:CDS 45.0%
GTTGCAGGATCAAAATCAGC+TGG - chr2.2:25404655-25404674 None:intergenic 45.0%
! TAAAGTCATCAAGGAGGTGC+GGG + chr2.2:25404954-25404973 MS.gene066194:CDS 45.0%
GTCTGCAAATTTGGCCGGAA+TGG + chr2.2:25404837-25404856 MS.gene066194:CDS 50.0%
TCTAACGCTAGCTGAAGGTG+CGG + chr2.2:25404744-25404763 MS.gene066194:CDS 50.0%
TGGAGGGCCACGATTGTTAT+TGG - chr2.2:25404686-25404705 None:intergenic 50.0%
! AAAGTCATCAAGGAGGTGCG+GGG + chr2.2:25404955-25404974 MS.gene066194:CDS 50.0%
! CGTGGCTTTTGTTGCCATTC+CGG - chr2.2:25404854-25404873 None:intergenic 50.0%
! CTAGCTGAAGGTGCGGAATT+GGG + chr2.2:25404751-25404770 MS.gene066194:CDS 50.0%
! GGAGGGCCACGATTGTTATT+GGG - chr2.2:25404685-25404704 None:intergenic 50.0%
AGAGGAGGAGGAAGACGTAG+AGG + chr2.2:25404603-25404622 MS.gene066194:CDS 55.0%
GCAGGGTCTGCAAATTTGGC+CGG + chr2.2:25404832-25404851 MS.gene066194:CDS 55.0%
GCGTCTCTAACGCTAGCTGA+AGG + chr2.2:25404739-25404758 MS.gene066194:CDS 55.0%
GGAGGAAGACGTAGAGGAAG+TGG + chr2.2:25404609-25404628 MS.gene066194:CDS 55.0%
! GCTAGCTGAAGGTGCGGAAT+TGG + chr2.2:25404750-25404769 MS.gene066194:CDS 55.0%
!! GTGCGGGGCTTTACCGATTT+AGG + chr2.2:25404970-25404989 MS.gene066194:CDS 55.0%
AGCCACGACTGCAGCCCAAG+AGG + chr2.2:25404867-25404886 MS.gene066194:CDS 65.0%
CACGACTGCAGCCCAAGAGG+AGG + chr2.2:25404870-25404889 MS.gene066194:CDS 65.0%
CTCCTCTTGGGCTGCAGTCG+TGG - chr2.2:25404872-25404891 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 25404469 25405119 25404469 ID=MS.gene066194
chr2.2 mRNA 25404469 25405119 25404469 ID=MS.gene066194.t1;Parent=MS.gene066194
chr2.2 exon 25404469 25405119 25404469 ID=MS.gene066194.t1.exon1;Parent=MS.gene066194.t1
chr2.2 CDS 25404469 25405119 25404469 ID=cds.MS.gene066194.t1;Parent=MS.gene066194.t1
Gene Sequence

>MS.gene066194

ATGAGCTTGCTGTTGAGAATAAGGCATCGTTTACACAATGTTTTGTATAGACAACCAGTTTATGAAAGCGTATTAGGGCTTAATGCTAGGAAATTAAATGTATTTTCGAGAAACTTTGGTCAAGTTGCAAGAAAAGAGGAGGAGGAAGACGTAGAGGAAGTGGAAATTGATCAAAGAAGTCTCCCAGCTGATTTTGATCCTGCAACATTTGATCCCAATAACAATCGTGGCCCTCCATCAGAGAAAGTTTTCAGGCTTGTTGATGAAGTGGCGTCTCTAACGCTAGCTGAAGGTGCGGAATTGGGTCTCATTTTGATGAAGAAAATGGGGATAAAAGAAATGCCCAATGTGGGATATATGAAAGCAGGGTCTGCAAATTTGGCCGGAATGGCAACAAAAGCCACGACTGCAGCCCAAGAGGAGGTAAAACCAGAAAAAACTGTATTTGAATTGAAACTGTTGTCGTATGAAGCAGCTTCCAAAATTAAAGTCATCAAGGAGGTGCGGGGCTTTACCGATTTAGGTTTGAAGGAGGCAAAGGATATTGTCGAAAAAACACCGTCTATTATAAAGAAAGGTGTTTCAAAGGAAGAAGGAGAACAGATAATAGAGAAAATGAAAGCACTTGGTGCTAATGTTGTTTTGGAGTGA

Protein sequence

>MS.gene066194.t1

MSLLLRIRHRLHNVLYRQPVYESVLGLNARKLNVFSRNFGQVARKEEEEDVEEVEIDQRSLPADFDPATFDPNNNRGPPSEKVFRLVDEVASLTLAEGAELGLILMKKMGIKEMPNVGYMKAGSANLAGMATKATTAAQEEVKPEKTVFELKLLSYEAASKIKVIKEVRGFTDLGLKEAKDIVEKTPSIIKKGVSKEEGEQIIEKMKALGANVVLE