AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64233

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64233.t1 MTR_6g081160 65.000 60 17 1 20 75 1 60 4.74e-17 78.2
MS.gene64233.t1 MTR_6g081160 57.812 64 22 2 114 172 1 64 2.15e-14 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATACAAGGTAGTTATAAT+AGG 0.224337 2.1:+24009856 MS.gene64233:CDS
AAATAATACTATGGCTAGTT+TGG 0.292025 2.1:+24010148 MS.gene64233:CDS
CATGATGAAGTTTCTGCTTA+AGG 0.329845 2.1:-24010088 None:intergenic
AATACAAGGAAATAATACTA+TGG 0.401260 2.1:+24010139 MS.gene64233:CDS
TTTAGCAATGGAAAAGCATT+GGG 0.422284 2.1:+24009762 MS.gene64233:CDS
TTTAGCAAAATAAAAGCATT+GGG 0.424274 2.1:+24010044 MS.gene64233:CDS
AATACAAGGTAGTTATAATA+GGG 0.431054 2.1:+24009857 MS.gene64233:CDS
ACACATCAATGCAATGTTTG+TGG 0.441710 2.1:+24010014 MS.gene64233:CDS
TTATTTCCTTGTATTGAGAA+AGG 0.466446 2.1:-24010131 None:intergenic
TATTTCCTTGTATTGAGAAA+GGG 0.470601 2.1:-24010130 None:intergenic
AGTCAGAAAAGAGGGTGAAA+AGG 0.473192 2.1:+24010210 MS.gene64233:CDS
ATTCTGAAAAGACGATGAAA+AGG 0.473955 2.1:+24009646 MS.gene64233:CDS
ACACATCAGTGCAATGTTTG+TGG 0.475496 2.1:+24009732 MS.gene64233:CDS
CACATCAGTGCAATGTTTGT+GGG 0.483344 2.1:+24009733 MS.gene64233:CDS
AGTCTGAAAAGAGGATAAAG+AGG 0.489348 2.1:+24009928 MS.gene64233:CDS
TTTGATAAAGATAGTAAGCA+TGG 0.491925 2.1:+24009885 MS.gene64233:CDS
GATACCCCTTTCTCAATACA+AGG 0.503509 2.1:+24010125 MS.gene64233:CDS
ACTTCATCATGATTCACAAA+AGG 0.507116 2.1:+24010100 MS.gene64233:CDS
AACTACCTTGTATTGAGAGA+GGG 0.509993 2.1:-24009848 None:intergenic
AATTAATCATCGTTCACAAA+AGG 0.518691 2.1:+24009818 MS.gene64233:CDS
GCTTAAGGAAGTGAGATCTT+CGG 0.523012 2.1:-24010073 None:intergenic
CAAACCCCTCTCTCAATACA+AGG 0.526964 2.1:+24009843 MS.gene64233:CDS
AGAATCTACACATCAGTGCT+AGG 0.545184 2.1:+24010289 MS.gene64233:CDS
TCTTAAGAAAGTGAGATCTC+CGG 0.549197 2.1:-24009791 None:intergenic
CCCGTGAAGAGTCTGAAAAG+AGG 0.549764 2.1:+24009919 MS.gene64233:CDS
ATTTCCTTGTATTGAGAAAG+GGG 0.553284 2.1:-24010129 None:intergenic
GAAAAGCATTGGGTGGTCAC+CGG 0.556634 2.1:+24009772 MS.gene64233:CDS
CTATGAAGAGTCAGAAAAGA+GGG 0.570873 2.1:+24010202 MS.gene64233:CDS
CCTATGAAGAGTCAGAAAAG+AGG 0.578028 2.1:+24010201 MS.gene64233:CDS
AAGCGATGAAGATGATGCTA+AGG 0.582770 2.1:+24010250 MS.gene64233:CDS
TGAAGATGATGCTAAGGATG+AGG 0.590398 2.1:+24010256 MS.gene64233:CDS
ACTACCTTGTATTGAGAGAG+GGG 0.593179 2.1:-24009847 None:intergenic
TAACTACCTTGTATTGAGAG+AGG 0.601425 2.1:-24009849 None:intergenic
AGCAAAATAAAAGCATTGGG+TGG 0.607881 2.1:+24010047 MS.gene64233:CDS
TAGTGATGAAGATGATGCTA+AGG 0.613974 2.1:+24009686 MS.gene64233:CDS
AGCAATGGAAAAGCATTGGG+TGG 0.615604 2.1:+24009765 MS.gene64233:CDS
AAGTGATGAAGATGATGCTA+AGG 0.616457 2.1:+24009968 MS.gene64233:CDS
ATGGATAAAGATCATAAGCA+TGG 0.623190 2.1:+24009603 MS.gene64233:CDS
TGAAGATGATGCTAAGGATG+AGG 0.644459 2.1:+24009692 MS.gene64233:CDS
AGATCATAAGCATGATCACG+AGG 0.690275 2.1:+24010175 MS.gene64233:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACAAGGAAATAATACTA+TGG + chr2.1:24010139-24010158 MS.gene64233:CDS 20.0%
!! AATACAAGGTAGTTATAATA+GGG + chr2.1:24009857-24009876 MS.gene64233:CDS 20.0%
!!! TTTAGCAAAATAAAAGCATT+GGG + chr2.1:24010044-24010063 MS.gene64233:CDS 20.0%
!!! TTTTAGCAAAATAAAAGCAT+TGG + chr2.1:24010043-24010062 MS.gene64233:CDS 20.0%
! AATTAATCATCGTTCACAAA+AGG + chr2.1:24009818-24009837 MS.gene64233:CDS 25.0%
! CAATACAAGGTAGTTATAAT+AGG + chr2.1:24009856-24009875 MS.gene64233:CDS 25.0%
! TATTTCCTTGTATTGAGAAA+GGG - chr2.1:24010133-24010152 None:intergenic 25.0%
! TTATTTCCTTGTATTGAGAA+AGG - chr2.1:24010134-24010153 None:intergenic 25.0%
! TTTGATAAAGATAGTAAGCA+TGG + chr2.1:24009885-24009904 MS.gene64233:CDS 25.0%
!! AAATAATACTATGGCTAGTT+TGG + chr2.1:24010148-24010167 MS.gene64233:CDS 25.0%
ACTTCATCATGATTCACAAA+AGG + chr2.1:24010100-24010119 MS.gene64233:CDS 30.0%
ATGGATAAAGATCATAAGCA+TGG + chr2.1:24009603-24009622 MS.gene64233:CDS 30.0%
ATTTCCTTGTATTGAGAAAG+GGG - chr2.1:24010132-24010151 None:intergenic 30.0%
! ATTCTGAAAAGACGATGAAA+AGG + chr2.1:24009646-24009665 MS.gene64233:CDS 30.0%
!! TTTAGCAATGGAAAAGCATT+GGG + chr2.1:24009762-24009781 MS.gene64233:CDS 30.0%
!! TTTTAGCAATGGAAAAGCAT+TGG + chr2.1:24009761-24009780 MS.gene64233:CDS 30.0%
!!! TGTGGGAAAATTTTTAGCAA+TGG + chr2.1:24009750-24009769 MS.gene64233:CDS 30.0%
AACTACCTTGTATTGAGAGA+GGG - chr2.1:24009851-24009870 None:intergenic 35.0%
AAGTGATGAAGATGATGCTA+AGG + chr2.1:24009968-24009987 MS.gene64233:CDS 35.0%
ACACATCAATGCAATGTTTG+TGG + chr2.1:24010014-24010033 MS.gene64233:CDS 35.0%
AGTCTGAAAAGAGGATAAAG+AGG + chr2.1:24009928-24009947 MS.gene64233:CDS 35.0%
CATGATGAAGTTTCTGCTTA+AGG - chr2.1:24010091-24010110 None:intergenic 35.0%
CTATGAAGAGTCAGAAAAGA+GGG + chr2.1:24010202-24010221 MS.gene64233:CDS 35.0%
TAACTACCTTGTATTGAGAG+AGG - chr2.1:24009852-24009871 None:intergenic 35.0%
TAGTGATGAAGATGATGCTA+AGG + chr2.1:24009686-24009705 MS.gene64233:CDS 35.0%
TCTTAAGAAAGTGAGATCTC+CGG - chr2.1:24009794-24009813 None:intergenic 35.0%
! CGTCTTTTCAGAATCTTCAT+AGG - chr2.1:24009640-24009659 None:intergenic 35.0%
!! AGCAAAATAAAAGCATTGGG+TGG + chr2.1:24010047-24010066 MS.gene64233:CDS 35.0%
AAGCGATGAAGATGATGCTA+AGG + chr2.1:24010250-24010269 MS.gene64233:CDS 40.0%
ACACATCAGTGCAATGTTTG+TGG + chr2.1:24009732-24009751 MS.gene64233:CDS 40.0%
ACTACCTTGTATTGAGAGAG+GGG - chr2.1:24009850-24009869 None:intergenic 40.0%
AGATCATAAGCATGATCACG+AGG + chr2.1:24010175-24010194 MS.gene64233:CDS 40.0%
AGTCAGAAAAGAGGGTGAAA+AGG + chr2.1:24010210-24010229 MS.gene64233:CDS 40.0%
CACATCAGTGCAATGTTTGT+GGG + chr2.1:24009733-24009752 MS.gene64233:CDS 40.0%
CCTATGAAGAGTCAGAAAAG+AGG + chr2.1:24010201-24010220 MS.gene64233:CDS 40.0%
GATACCCCTTTCTCAATACA+AGG + chr2.1:24010125-24010144 MS.gene64233:CDS 40.0%
GCTTAAGGAAGTGAGATCTT+CGG - chr2.1:24010076-24010095 None:intergenic 40.0%
TGAAGATGATGCTAAGGATG+AGG + chr2.1:24009692-24009711 MS.gene64233:CDS 40.0%
! CCTCTTTTCTGACTCTTCAT+AGG - chr2.1:24010204-24010223 None:intergenic 40.0%
! TCCTCTTTTCAGACTCTTCA+CGG - chr2.1:24009923-24009942 None:intergenic 40.0%
CAAACCCCTCTCTCAATACA+AGG + chr2.1:24009843-24009862 MS.gene64233:CDS 45.0%
! CCTCTTTTCAGACTCTTCAC+GGG - chr2.1:24009922-24009941 None:intergenic 45.0%
!! AGCAATGGAAAAGCATTGGG+TGG + chr2.1:24009765-24009784 MS.gene64233:CDS 45.0%
CCCGTGAAGAGTCTGAAAAG+AGG + chr2.1:24009919-24009938 MS.gene64233:CDS 50.0%
!! GAAAAGCATTGGGTGGTCAC+CGG + chr2.1:24009772-24009791 MS.gene64233:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 24009603 24010310 24009603 ID=MS.gene64233
chr2.1 mRNA 24009603 24010310 24009603 ID=MS.gene64233.t1;Parent=MS.gene64233
chr2.1 exon 24009603 24010310 24009603 ID=MS.gene64233.t1.exon1;Parent=MS.gene64233.t1
chr2.1 CDS 24009603 24010310 24009603 ID=cds.MS.gene64233.t1;Parent=MS.gene64233.t1
Gene Sequence

>MS.gene64233

ATGGATAAAGATCATAAGCATGGTTATGAGAAAACCTATGAAGATTCTGAAAAGACGATGAAAAGGTCTTCATGTTCACTATCTAGTGATGAAGATGATGCTAAGGATGAGGTTTCTGTTCAAGAATCTACACATCAGTGCAATGTTTGTGGGAAAATTTTTAGCAATGGAAAAGCATTGGGTGGTCACCGGAGATCTCACTTTCTTAAGAAGAAAATTAATCATCGTTCACAAAAGGTACAAACCCCTCTCTCAATACAAGGTAGTTATAATAGGGCTAGTTTTGATAAAGATAGTAAGCATGGTTTTGAGAACACCCGTGAAGAGTCTGAAAAGAGGATAAAGAGGTCTTTTAGTTCTCTATCAAGTGATGAAGATGATGCTAAGGATGAGCTTTCTATTCAAGAAACTACACATCAATGCAATGTTTGTGGAAAAACTTTTAGCAAAATAAAAGCATTGGGTGGTCACCGAAGATCTCACTTCCTTAAGCAGAAACTTCATCATGATTCACAAAAGGTTGATACCCCTTTCTCAATACAAGGAAATAATACTATGGCTAGTTTGGATAAAGATCATAAGCATGATCACGAGGATACCTATGAAGAGTCAGAAAAGAGGGTGAAAAGGTCAGCTTGTTCTCTATCAAGCGATGAAGATGATGCTAAGGATGAGGTTTCTGTTCAAGAATCTACACATCAGTGCTAG
Protein sequence

>MS.gene64233.t1

MDKDHKHGYEKTYEDSEKTMKRSSCSLSSDEDDAKDEVSVQESTHQCNVCGKIFSNGKALGGHRRSHFLKKKINHRSQKVQTPLSIQGSYNRASFDKDSKHGFENTREESEKRIKRSFSSLSSDEDDAKDELSIQETTHQCNVCGKTFSKIKALGGHRRSHFLKQKLHHDSQKVDTPFSIQGNNTMASLDKDHKHDHEDTYEESEKRVKRSACSLSSDEDDAKDEVSVQESTHQC