AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006607.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006607.01.T01 MTR_2g011720 100.000 70 0 0 1 70 71 140 1.77e-47 147
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006607.01.T01 AT4G21445 84.286 70 11 0 1 70 85 154 3.72e-40 129

Find 46 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAACTTCATCAACAGAAAA+AGG 0.207487 2:+4003349 MsG0280006607.01.T01:three_prime_UTR
TTATCTTCCTTTGTGCTATC+AGG 0.244792 2:-4002687 None:intergenic
TGTTTGAAGACATGATTTAT+AGG 0.337289 2:-4002609 None:intergenic
TTTAACTTAATGTGAGAGAT+TGG 0.338033 2:-4002490 None:intergenic
CCAGCATTGAGCTCCTCTAT+TGG 0.349335 2:-4003016 None:intergenic
TCAATTGTACTTTCATGAAT+CGG 0.362350 2:+4003311 MsG0280006607.01.T01:three_prime_UTR
GTTCCTTGCTGCAATGCACT+TGG 0.386945 2:-4002537 None:intergenic
TGTTCTTCAGTGGGATGATT+CGG 0.397395 2:+4003099 MsG0280006607.01.T01:CDS
CAATTGTACTTTCATGAATC+GGG 0.400814 2:+4003312 MsG0280006607.01.T01:three_prime_UTR
TCCTAAAAGACAAGCTCAAA+AGG 0.401395 2:+4003056 MsG0280006607.01.T01:CDS
TTCCTTGCTGCAATGCACTT+GGG 0.401443 2:-4002536 None:intergenic
GCTGGTTTGGTTGAGATGTC+TGG 0.414517 2:+4002787 MsG0280006607.01.T01:exon
GACACTGGAAGAAGCTGGTT+TGG 0.416136 2:+4002774 MsG0280006607.01.T01:five_prime_UTR
TGAAAAGAATCAGCAATAGA+AGG 0.425165 2:-4003218 None:intergenic
GTTTGAAGACATGATTTATA+GGG 0.432921 2:-4002608 None:intergenic
TGATTTGTAACAAGGTTTGA+AGG 0.448700 2:-4002647 None:intergenic
CTTTGTGTGGAGGAGGGTGA+TGG 0.454412 2:-4002441 None:intergenic
TCCTTGCTGCAATGCACTTG+GGG 0.462604 2:-4002535 None:intergenic
CCAATAGAGGAGCTCAATGC+TGG 0.463757 2:+4003016 MsG0280006607.01.T01:CDS
CTCTTGTGTTATTCTAAACA+AGG 0.466068 2:-4003276 None:intergenic
CTGTTAGCTTTGTGTGGAGG+AGG 0.467927 2:-4002448 None:intergenic
CCTTATCTGTTAGCTTTGTG+TGG 0.479941 2:-4002454 None:intergenic
TGATTCTGCTGTTCTTCAGT+GGG 0.485721 2:+4003090 MsG0280006607.01.T01:CDS
ACAAGAAGGGTGTCCAATAG+AGG 0.502902 2:+4003003 MsG0280006607.01.T01:CDS
TTCAATTATAACTATGTAGT+GGG 0.505484 2:-4003172 None:intergenic
GATTTGTAACAAGGTTTGAA+GGG 0.518410 2:-4002646 None:intergenic
CAGAAGAGAAGAAGAGTGAG+AGG 0.523957 2:+4002740 MsG0280006607.01.T01:five_prime_UTR
TGAGAGATTGGAATGGGTTG+AGG 0.528179 2:-4002478 None:intergenic
TTGATTCTGCTGTTCTTCAG+TGG 0.529384 2:+4003089 MsG0280006607.01.T01:CDS
CCACACAAAGCTAACAGATA+AGG 0.541206 2:+4002454 MsG0280006607.01.T01:five_prime_UTR
TTTGTGTGGAGGAGGGTGAT+GGG 0.541825 2:-4002440 None:intergenic
AAGAAATGATATGGAGAACA+TGG 0.543069 2:-4003385 None:intergenic
TATCTGTTAGCTTTGTGTGG+AGG 0.550231 2:-4002451 None:intergenic
ATTCAATTATAACTATGTAG+TGG 0.555175 2:-4003173 None:intergenic
CTTAATGTGAGAGATTGGAA+TGG 0.560459 2:-4002485 None:intergenic
TGTTAGCTTTGTGTGGAGGA+GGG 0.565168 2:-4002447 None:intergenic
CCTAAAAGACAAGCTCAAAA+GGG 0.568726 2:+4003057 MsG0280006607.01.T01:CDS
TTAATGTGAGAGATTGGAAT+GGG 0.577438 2:-4002484 None:intergenic
GAGAGATTGGAATGGGTTGA+GGG 0.578878 2:-4002477 None:intergenic
AGAGGAGCTCAATGCTGGAA+AGG 0.583143 2:+4003021 MsG0280006607.01.T01:CDS
ATGCTGGAAAGGTATGTGAT+TGG 0.593475 2:+4003032 MsG0280006607.01.T01:CDS
AAGTGATATCAGAACAAGAA+GGG 0.598781 2:+4002990 MsG0280006607.01.T01:CDS
AAAGTGATATCAGAACAAGA+AGG 0.604912 2:+4002989 MsG0280006607.01.T01:CDS
TGTGTCTATGATTTGTAACA+AGG 0.610493 2:-4002655 None:intergenic
GCCCCAAGTGCATTGCAGCA+AGG 0.626792 2:+4002534 MsG0280006607.01.T01:five_prime_UTR
AAAACAGCCTGATAGCACAA+AGG 0.710360 2:+4002680 MsG0280006607.01.T01:five_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTACAACTTTATATTTTA+GGG + Chr2:4003193-4003212 MsG0280006607.01.T01:three_prime_UTR 10.0%
!! AGAAGAAAAAGAATTAAAAT+TGG - Chr2:4003129-4003148 None:intergenic 15.0%
!!! ATTACAACTTTATATTTTAG+GGG + Chr2:4003194-4003213 MsG0280006607.01.T01:three_prime_UTR 15.0%
!!! GAATTACAACTTTATATTTT+AGG + Chr2:4003192-4003211 MsG0280006607.01.T01:three_prime_UTR 15.0%
!! AACACAAACAATGAAAATTT+AGG - Chr2:4002943-4002962 None:intergenic 20.0%
!! ATTCAATTATAACTATGTAG+TGG - Chr2:4003176-4003195 None:intergenic 20.0%
!! TTCAATTATAACTATGTAGT+GGG - Chr2:4003175-4003194 None:intergenic 20.0%
!!! TTACAACTTTATATTTTAGG+GGG + Chr2:4003195-4003214 MsG0280006607.01.T01:three_prime_UTR 20.0%
!!! TTATTCTAAACAAGGATTTT+TGG - Chr2:4003271-4003290 None:intergenic 20.0%
! GTTTGAAGACATGATTTATA+GGG - Chr2:4002611-4002630 None:intergenic 25.0%
! TCAATTGTACTTTCATGAAT+CGG + Chr2:4003311-4003330 MsG0280006607.01.T01:three_prime_UTR 25.0%
! TGTTTGAAGACATGATTTAT+AGG - Chr2:4002612-4002631 None:intergenic 25.0%
!! GAAAATTTAGGACATATACT+AGG - Chr2:4002931-4002950 None:intergenic 25.0%
!! TATTTTCAATCTCTTTCTCT+GGG - Chr2:4002569-4002588 None:intergenic 25.0%
!! TTATTTTCAATCTCTTTCTC+TGG - Chr2:4002570-4002589 None:intergenic 25.0%
!! TTTAACTTAATGTGAGAGAT+TGG - Chr2:4002493-4002512 None:intergenic 25.0%
AAAGTGATATCAGAACAAGA+AGG + Chr2:4002989-4003008 MsG0280006607.01.T01:CDS 30.0%
AAGTGATATCAGAACAAGAA+GGG + Chr2:4002990-4003009 MsG0280006607.01.T01:CDS 30.0%
CAATGAAGAAACAAAATCCT+AGG - Chr2:4002889-4002908 None:intergenic 30.0%
CAATTGTACTTTCATGAATC+GGG + Chr2:4003312-4003331 MsG0280006607.01.T01:three_prime_UTR 30.0%
GATTTGTAACAAGGTTTGAA+GGG - Chr2:4002649-4002668 None:intergenic 30.0%
TGAAAAGAATCAGCAATAGA+AGG - Chr2:4003221-4003240 None:intergenic 30.0%
TGAACTTCATCAACAGAAAA+AGG + Chr2:4003349-4003368 MsG0280006607.01.T01:three_prime_UTR 30.0%
TTAATGTGAGAGATTGGAAT+GGG - Chr2:4002487-4002506 None:intergenic 30.0%
! CTCTTGTGTTATTCTAAACA+AGG - Chr2:4003279-4003298 None:intergenic 30.0%
! TGATTTGTAACAAGGTTTGA+AGG - Chr2:4002650-4002669 None:intergenic 30.0%
! TGTGTCTATGATTTGTAACA+AGG - Chr2:4002658-4002677 None:intergenic 30.0%
!! CTAGGATTTTGTTTCTTCAT+TGG + Chr2:4002887-4002906 MsG0280006607.01.T01:intron 30.0%
!!! TTCCTTTTTTGTGCAAAATG+TGG + Chr2:4003243-4003262 MsG0280006607.01.T01:three_prime_UTR 30.0%
CCTAAAAGACAAGCTCAAAA+GGG + Chr2:4003057-4003076 MsG0280006607.01.T01:CDS 35.0%
CTTAATGTGAGAGATTGGAA+TGG - Chr2:4002488-4002507 None:intergenic 35.0%
TCCTAAAAGACAAGCTCAAA+AGG + Chr2:4003056-4003075 MsG0280006607.01.T01:CDS 35.0%
TTATCTTCCTTTGTGCTATC+AGG - Chr2:4002690-4002709 None:intergenic 35.0%
! AGCCACATTTTGCACAAAAA+AGG - Chr2:4003248-4003267 None:intergenic 35.0%
AAAACAGCCTGATAGCACAA+AGG + Chr2:4002680-4002699 MsG0280006607.01.T01:five_prime_UTR 40.0%
CCACACAAAGCTAACAGATA+AGG + Chr2:4002454-4002473 MsG0280006607.01.T01:five_prime_UTR 40.0%
CCTTAACTCTGTTGTCTTGT+CGG + Chr2:4002854-4002873 MsG0280006607.01.T01:intron 40.0%
TGATTCTGCTGTTCTTCAGT+GGG + Chr2:4003090-4003109 MsG0280006607.01.T01:CDS 40.0%
TGTTCTTCAGTGGGATGATT+CGG + Chr2:4003099-4003118 MsG0280006607.01.T01:CDS 40.0%
TTGATTCTGCTGTTCTTCAG+TGG + Chr2:4003089-4003108 MsG0280006607.01.T01:CDS 40.0%
! ATGCTGGAAAGGTATGTGAT+TGG + Chr2:4003032-4003051 MsG0280006607.01.T01:CDS 40.0%
! CCCTTTTGAGCTTGTCTTTT+AGG - Chr2:4003060-4003079 None:intergenic 40.0%
! GAGGAAAACGTTTTTGACAC+TGG + Chr2:4002759-4002778 MsG0280006607.01.T01:five_prime_UTR 40.0%
! GCGTTTTCTATGTCGTCTAA+CGG + Chr2:4002825-4002844 MsG0280006607.01.T01:CDS 40.0%
! TTTTTGACACTGGAAGAAGC+TGG + Chr2:4002769-4002788 MsG0280006607.01.T01:five_prime_UTR 40.0%
!! CCTTATCTGTTAGCTTTGTG+TGG - Chr2:4002457-4002476 None:intergenic 40.0%
!! TATCTGTTAGCTTTGTGTGG+AGG - Chr2:4002454-4002473 None:intergenic 40.0%
CAGAAGAGAAGAAGAGTGAG+AGG + Chr2:4002740-4002759 MsG0280006607.01.T01:five_prime_UTR 45.0%
CCGACAAGACAACAGAGTTA+AGG - Chr2:4002857-4002876 None:intergenic 45.0%
CTTGTCGGATGATATGTCCT+AGG + Chr2:4002869-4002888 MsG0280006607.01.T01:intron 45.0%
TTCCTTGCTGCAATGCACTT+GGG - Chr2:4002539-4002558 None:intergenic 45.0%
!! ACAAGAAGGGTGTCCAATAG+AGG + Chr2:4003003-4003022 MsG0280006607.01.T01:CDS 45.0%
!! GAGAGATTGGAATGGGTTGA+GGG - Chr2:4002480-4002499 None:intergenic 45.0%
!! TGAGAGATTGGAATGGGTTG+AGG - Chr2:4002481-4002500 None:intergenic 45.0%
!! TGTTAGCTTTGTGTGGAGGA+GGG - Chr2:4002450-4002469 None:intergenic 45.0%
AGAGGAGCTCAATGCTGGAA+AGG + Chr2:4003021-4003040 MsG0280006607.01.T01:CDS 50.0%
CCAATAGAGGAGCTCAATGC+TGG + Chr2:4003016-4003035 MsG0280006607.01.T01:CDS 50.0%
GACACTGGAAGAAGCTGGTT+TGG + Chr2:4002774-4002793 MsG0280006607.01.T01:five_prime_UTR 50.0%
GTTCCTTGCTGCAATGCACT+TGG - Chr2:4002540-4002559 None:intergenic 50.0%
TCCTTGCTGCAATGCACTTG+GGG - Chr2:4002538-4002557 None:intergenic 50.0%
TTTGTGTGGAGGAGGGTGAT+GGG - Chr2:4002443-4002462 None:intergenic 50.0%
! CCAGCATTGAGCTCCTCTAT+TGG - Chr2:4003019-4003038 None:intergenic 50.0%
!! CTGTTAGCTTTGTGTGGAGG+AGG - Chr2:4002451-4002470 None:intergenic 50.0%
!! GCTGGTTTGGTTGAGATGTC+TGG + Chr2:4002787-4002806 MsG0280006607.01.T01:exon 50.0%
CTTTGTGTGGAGGAGGGTGA+TGG - Chr2:4002444-4002463 None:intergenic 55.0%
GCCCCAAGTGCATTGCAGCA+AGG + Chr2:4002534-4002553 MsG0280006607.01.T01:five_prime_UTR 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 4002421 4003394 4002421 ID=MsG0280006607.01;Name=MsG0280006607.01
Chr2 mRNA 4002421 4003394 4002421 ID=MsG0280006607.01.T01;Parent=MsG0280006607.01;Name=MsG0280006607.01.T01;_AED=0.50;_eAED=0.50;_QI=381|1|1|1|0|0|2|259|70
Chr2 exon 4002421 4002846 4002421 ID=MsG0280006607.01.T01:exon:900;Parent=MsG0280006607.01.T01
Chr2 exon 4002968 4003394 4002968 ID=MsG0280006607.01.T01:exon:901;Parent=MsG0280006607.01.T01
Chr2 five_prime_UTR 4002421 4002801 4002421 ID=MsG0280006607.01.T01:five_prime_utr;Parent=MsG0280006607.01.T01
Chr2 CDS 4002802 4002846 4002802 ID=MsG0280006607.01.T01:cds;Parent=MsG0280006607.01.T01
Chr2 CDS 4002968 4003135 4002968 ID=MsG0280006607.01.T01:cds;Parent=MsG0280006607.01.T01
Chr2 three_prime_UTR 4003136 4003394 4003136 ID=MsG0280006607.01.T01:three_prime_utr;Parent=MsG0280006607.01.T01
Gene Sequence

>MsG0280006607.01.T01

ATGTCTGGATTGAGCACTCATGAGCGTTTTCTATGTCGTCTAACGATATCTTCACTGAATTTACTAAAAGTGATATCAGAACAAGAAGGGTGTCCAATAGAGGAGCTCAATGCTGGAAAGGTATGTGATTGGTTCCTAAAAGACAAGCTCAAAAGGGAGCAGAACATTGATTCTGCTGTTCTTCAGTGGGATGATTCGGATTTCCAATTTTAA

Protein sequence

>MsG0280006607.01.T01

MSGLSTHERFLCRLTISSLNLLKVISEQEGCPIEELNAGKVCDWFLKDKLKREQNIDSAVLQWDDSDFQF*