AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041048.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041048.01.T01 MTR_7g103190 97.931 145 3 0 1 145 1 145 1.26e-104 295
MsG0780041048.01.T01 MTR_6g088605 86.897 145 19 0 1 145 1 145 3.32e-85 246
MsG0780041048.01.T01 MTR_5g037160 100.000 35 0 0 62 96 409 443 1.15e-17 78.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041048.01.T01 AT3G18760 62.687 134 49 1 1 134 1 133 1.98e-57 176
MsG0780041048.01.T01 AT3G18760 59.701 134 48 2 1 134 1 128 2.36e-51 160

Find 37 sgRNAs with CRISPR-Local

Find 104 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGCTCTTTGTTGATTTC+GGG 0.180778 7:-85849982 None:intergenic
ATGCAGCTCTTTGTTGATTT+CGG 0.218827 7:-85849983 None:intergenic
GTAGTTTGTCTTCCTTATTT+AGG 0.277461 7:-85850008 None:intergenic
CAAACTACTGCGCTGGCTTC+TGG 0.311282 7:+85850023 MsG0780041048.01.T01:CDS
TCATGCTTACTTGCATCATT+TGG 0.313781 7:-85849951 None:intergenic
GGAACGGTTCAGTTGGGATA+TGG 0.325493 7:+85848914 MsG0780041048.01.T01:CDS
AAGCAGCGTGACACAAAGTT+TGG 0.329205 7:+85850048 MsG0780041048.01.T01:CDS
AACATGTGTGTAAAAGAAAT+GGG 0.338514 7:+85848867 MsG0780041048.01.T01:CDS
AGAGCTGCATTACCTAAATA+AGG 0.359619 7:+85849996 MsG0780041048.01.T01:CDS
AAACATGTGTGTAAAAGAAA+TGG 0.364780 7:+85848866 MsG0780041048.01.T01:CDS
GTAACTGAGATTAAGAGTTT+CGG 0.414894 7:+85848893 MsG0780041048.01.T01:CDS
CCTTGCAACTAAACTGATAA+GGG 0.428050 7:-85848837 None:intergenic
TTTACTAATCAACATCTTGA+AGG 0.435643 7:-85850339 None:intergenic
AGCAGCGTGACACAAAGTTT+GGG 0.441882 7:+85850049 MsG0780041048.01.T01:CDS
TCCTTGCAACTAAACTGATA+AGG 0.442271 7:-85848838 None:intergenic
ACTATCAATAAGCATATGTT+TGG 0.450596 7:-85850282 None:intergenic
CCCTTATCAGTTTAGTTGCA+AGG 0.462781 7:+85848837 MsG0780041048.01.T01:CDS
TTTATTTGAGAGAATTTGCT+TGG 0.474019 7:-85850105 None:intergenic
CATGAGCGATGAAGGTGGAT+TGG 0.475253 7:+85850080 MsG0780041048.01.T01:CDS
CTTGATTTCATGAGCGATGA+AGG 0.477532 7:+85850072 MsG0780041048.01.T01:CDS
AATAGAAGCATGCAATCATA+AGG 0.484622 7:-85848791 None:intergenic
ATCAGTTTAGTTGCAAGGAT+CGG 0.501128 7:+85848842 MsG0780041048.01.T01:CDS
AGTTTCGGAACGGTTCAGTT+GGG 0.510679 7:+85848908 MsG0780041048.01.T01:CDS
ACATAACAATCAGACATGAT+TGG 0.518251 7:+85850313 MsG0780041048.01.T01:three_prime_UTR
AATAAATAAACTTGATGATG+AGG 0.520053 7:+85850122 MsG0780041048.01.T01:CDS
GAGTTTCGGAACGGTTCAGT+TGG 0.533830 7:+85848907 MsG0780041048.01.T01:CDS
AAACAAAATACGAGGCAGAA+TGG 0.551725 7:-85850211 None:intergenic
AGGAAGACAAACTACTGCGC+TGG 0.570515 7:+85850016 MsG0780041048.01.T01:CDS
TAACAATCAGACATGATTGG+TGG 0.617094 7:+85850316 MsG0780041048.01.T01:three_prime_UTR
TGAGATTAAGAGTTTCGGAA+CGG 0.624385 7:+85848898 MsG0780041048.01.T01:CDS
TGATGATGAGGATGATGATG+AGG 0.641798 7:+85850134 MsG0780041048.01.T01:CDS
AATGATGCAAGTAAGCATGA+TGG 0.649203 7:+85849954 MsG0780041048.01.T01:CDS
GATTTCATGAGCGATGAAGG+TGG 0.649356 7:+85850075 MsG0780041048.01.T01:CDS
AGAAGCATGCAATCATAAGG+AGG 0.653547 7:-85848788 None:intergenic
ACATGTGTGTAAAAGAAATG+GGG 0.668995 7:+85848868 MsG0780041048.01.T01:CDS
GACATGCAGATAGAGGTTGG+AGG 0.670241 7:+85848752 None:intergenic
ATTAAAACAAACAAAATACG+AGG 0.745180 7:-85850219 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTTCTTTTATATAATTT+AGG + Chr7:85849027-85849046 MsG0780041048.01.T01:intron 10.0%
!! ATATCAAAATAGTAAGATTA+TGG + Chr7:85849353-85849372 MsG0780041048.01.T01:intron 15.0%
!! TAGTTTATAAAAAACAGTTT+AGG - Chr7:85849539-85849558 None:intergenic 15.0%
!! TATCAAAATAGTAAGATTAT+GGG + Chr7:85849354-85849373 MsG0780041048.01.T01:intron 15.0%
!!! GTATTTTGTTTGTTTTAATT+AGG + Chr7:85850223-85850242 MsG0780041048.01.T01:three_prime_UTR 15.0%
!! AAAAAAATAATGTGATGCAT+TGG + Chr7:85849122-85849141 MsG0780041048.01.T01:intron 20.0%
!! ATCAAAATAGTAAGATTATG+GGG + Chr7:85849355-85849374 MsG0780041048.01.T01:intron 20.0%
!! ATTAAAACAAACAAAATACG+AGG - Chr7:85850222-85850241 None:intergenic 20.0%
!! TTAATTAGAACAGAAAAAAG+AGG - Chr7:85849064-85849083 None:intergenic 20.0%
!! TTTAATAGACTATTTGCATA+TGG + Chr7:85849402-85849421 MsG0780041048.01.T01:intron 20.0%
!!! AATAAATAAACTTGATGATG+AGG + Chr7:85850122-85850141 MsG0780041048.01.T01:CDS 20.0%
!!! ATTCTGTTTTTAATGAATGT+AGG + Chr7:85849927-85849946 MsG0780041048.01.T01:intron 20.0%
!!! CAAAAATCAATTTTTACAAC+AGG - Chr7:85849466-85849485 None:intergenic 20.0%
!!! CTGTTGTAAAAATTGATTTT+TGG + Chr7:85849464-85849483 MsG0780041048.01.T01:intron 20.0%
!!! CTTTTCTGTTTTTGTTATTT+GGG + Chr7:85849094-85849113 MsG0780041048.01.T01:intron 20.0%
!!! GTAAAAATTGATTTTTGGTT+GGG + Chr7:85849469-85849488 MsG0780041048.01.T01:intron 20.0%
!!! GTTTTTTATAAACTATCTTG+AGG + Chr7:85849544-85849563 MsG0780041048.01.T01:intron 20.0%
!!! TGATTTTAGACCAATTTTTT+AGG + Chr7:85850377-85850396 MsG0780041048.01.T01:three_prime_UTR 20.0%
!!! TGTAAAAATTGATTTTTGGT+TGG + Chr7:85849468-85849487 MsG0780041048.01.T01:intron 20.0%
!!! TTCTGTTTTTAATGAATGTA+GGG + Chr7:85849928-85849947 MsG0780041048.01.T01:intron 20.0%
! AAACATGTGTGTAAAAGAAA+TGG + Chr7:85848866-85848885 MsG0780041048.01.T01:CDS 25.0%
! AACATGTGTGTAAAAGAAAT+GGG + Chr7:85848867-85848886 MsG0780041048.01.T01:CDS 25.0%
! ACTATCAATAAGCATATGTT+TGG - Chr7:85850285-85850304 None:intergenic 25.0%
! TCAAAATAGTAAGATTATGG+GGG + Chr7:85849356-85849375 MsG0780041048.01.T01:intron 25.0%
! TTTACTAATCAACATCTTGA+AGG - Chr7:85850342-85850361 None:intergenic 25.0%
!! TTTATTTGAGAGAATTTGCT+TGG - Chr7:85850108-85850127 None:intergenic 25.0%
!!! GCTTTTCTGTTTTTGTTATT+TGG + Chr7:85849093-85849112 MsG0780041048.01.T01:intron 25.0%
!!! TTGTTTGTTTTAATTAGGAG+AGG + Chr7:85850228-85850247 MsG0780041048.01.T01:three_prime_UTR 25.0%
ACATAACAATCAGACATGAT+TGG + Chr7:85850313-85850332 MsG0780041048.01.T01:three_prime_UTR 30.0%
ACATGTGTGTAAAAGAAATG+GGG + Chr7:85848868-85848887 MsG0780041048.01.T01:CDS 30.0%
CCTACGAATACAACAAAAAA+TGG - Chr7:85850260-85850279 None:intergenic 30.0%
GTAACTGAGATTAAGAGTTT+CGG + Chr7:85848893-85848912 MsG0780041048.01.T01:CDS 30.0%
TAAACTCTAAACAAGCTCTT+TGG + Chr7:85849658-85849677 MsG0780041048.01.T01:intron 30.0%
TGAGGACAGAATCAATTTAT+GGG + Chr7:85849562-85849581 MsG0780041048.01.T01:intron 30.0%
TTATGTCATGTCATGTTCTT+CGG + Chr7:85849620-85849639 MsG0780041048.01.T01:intron 30.0%
TTCACATCGACCTATAAAAA+GGG - Chr7:85849253-85849272 None:intergenic 30.0%
TTGAGGACAGAATCAATTTA+TGG + Chr7:85849561-85849580 MsG0780041048.01.T01:intron 30.0%
TTGGTTGGGTAGAATTAAAA+TGG + Chr7:85849483-85849502 MsG0780041048.01.T01:intron 30.0%
TTTATAGGTCGATGTGAAAA+TGG + Chr7:85849255-85849274 MsG0780041048.01.T01:intron 30.0%
TTTCACATCGACCTATAAAA+AGG - Chr7:85849254-85849273 None:intergenic 30.0%
! AATAGAAGCATGCAATCATA+AGG - Chr7:85848794-85848813 None:intergenic 30.0%
! ATGTTCTTCTCTAAGTTGAA+TGG + Chr7:85849871-85849890 MsG0780041048.01.T01:intron 30.0%
! GTAGTTTGTCTTCCTTATTT+AGG - Chr7:85850011-85850030 None:intergenic 30.0%
!! ACAAAAACAGAAAAGCACTA+AGG - Chr7:85849089-85849108 None:intergenic 30.0%
!! TTAGTTTGAGATTCTGCTTT+TGG + Chr7:85849830-85849849 MsG0780041048.01.T01:intron 30.0%
!!! CCATTTTTTGTTGTATTCGT+AGG + Chr7:85850257-85850276 MsG0780041048.01.T01:three_prime_UTR 30.0%
AAACAAAATACGAGGCAGAA+TGG - Chr7:85850214-85850233 None:intergenic 35.0%
AATGATGCAAGTAAGCATGA+TGG + Chr7:85849954-85849973 MsG0780041048.01.T01:CDS 35.0%
ACAGTCTCTTGTGTAAAAAC+AGG + Chr7:85849147-85849166 MsG0780041048.01.T01:intron 35.0%
AGAGCTGCATTACCTAAATA+AGG + Chr7:85849996-85850015 MsG0780041048.01.T01:CDS 35.0%
ATCAGTTTAGTTGCAAGGAT+CGG + Chr7:85848842-85848861 MsG0780041048.01.T01:CDS 35.0%
CAGTCTCTTGTGTAAAAACA+GGG + Chr7:85849148-85849167 MsG0780041048.01.T01:intron 35.0%
CCTTGCAACTAAACTGATAA+GGG - Chr7:85848840-85848859 None:intergenic 35.0%
GAAACTTCATCAGCAACATA+TGG - Chr7:85849791-85849810 None:intergenic 35.0%
GACATAACTACTTGTTTCAG+TGG - Chr7:85849607-85849626 None:intergenic 35.0%
TAACAATCAGACATGATTGG+TGG + Chr7:85850316-85850335 MsG0780041048.01.T01:three_prime_UTR 35.0%
TCATGCTTACTTGCATCATT+TGG - Chr7:85849954-85849973 None:intergenic 35.0%
TCCTTGCAACTAAACTGATA+AGG - Chr7:85848841-85848860 None:intergenic 35.0%
TCTTGTGTAAAAACAGGGTA+AGG + Chr7:85849153-85849172 MsG0780041048.01.T01:intron 35.0%
TGAGATTAAGAGTTTCGGAA+CGG + Chr7:85848898-85848917 MsG0780041048.01.T01:CDS 35.0%
! GAGTTGTTTCATACAGCTTT+AGG + Chr7:85849305-85849324 MsG0780041048.01.T01:intron 35.0%
! TATGACTTTTCCTCTCAATG+TGG + Chr7:85849692-85849711 MsG0780041048.01.T01:intron 35.0%
!! ATGCAGCTCTTTGTTGATTT+CGG - Chr7:85849986-85850005 None:intergenic 35.0%
!! GATTCTGCTTTTGGTAAAAC+AGG + Chr7:85849839-85849858 MsG0780041048.01.T01:intron 35.0%
!! TATTTTTGAGCCACATTGAG+AGG - Chr7:85849705-85849724 None:intergenic 35.0%
!!! AGGGCTTCTTTTTTCACATT+TGG - Chr7:85848821-85848840 None:intergenic 35.0%
AAACTGTGCATTACAACACG+AGG - Chr7:85848994-85849013 None:intergenic 40.0%
ATTAATGTGACACTCTCACC+TGG - Chr7:85848967-85848986 None:intergenic 40.0%
CCCTTATCAGTTTAGTTGCA+AGG + Chr7:85848837-85848856 MsG0780041048.01.T01:CDS 40.0%
CGTACAATACACCAAATGGT+GGG + Chr7:85849179-85849198 MsG0780041048.01.T01:intron 40.0%
CTTGATTTCATGAGCGATGA+AGG + Chr7:85850072-85850091 MsG0780041048.01.T01:CDS 40.0%
! AGAAGCATGCAATCATAAGG+AGG - Chr7:85848791-85848810 None:intergenic 40.0%
! TGATGATGAGGATGATGATG+AGG + Chr7:85850134-85850153 MsG0780041048.01.T01:CDS 40.0%
!! TGCAGCTCTTTGTTGATTTC+GGG - Chr7:85849985-85850004 None:intergenic 40.0%
AAGCAGCGTGACACAAAGTT+TGG + Chr7:85850048-85850067 MsG0780041048.01.T01:CDS 45.0%
AGCAGCGTGACACAAAGTTT+GGG + Chr7:85850049-85850068 MsG0780041048.01.T01:CDS 45.0%
AGTTTCGGAACGGTTCAGTT+GGG + Chr7:85848908-85848927 MsG0780041048.01.T01:CDS 45.0%
CGATGTGAAAATGGTTGTGG+TGG + Chr7:85849264-85849283 MsG0780041048.01.T01:intron 45.0%
GACCTATAAAAAGGGCAACC+CGG - Chr7:85849245-85849264 None:intergenic 45.0%
GATTTCATGAGCGATGAAGG+TGG + Chr7:85850075-85850094 MsG0780041048.01.T01:CDS 45.0%
GCGTACAATACACCAAATGG+TGG + Chr7:85849178-85849197 MsG0780041048.01.T01:intron 45.0%
GCTGCGTACAATACACCAAA+TGG + Chr7:85849175-85849194 MsG0780041048.01.T01:intron 45.0%
GGTCGATGTGAAAATGGTTG+TGG + Chr7:85849261-85849280 MsG0780041048.01.T01:intron 45.0%
! TATGGCGTGAAAAAGCGTGA+TGG + Chr7:85848932-85848951 MsG0780041048.01.T01:CDS 45.0%
AGGAAGACAAACTACTGCGC+TGG + Chr7:85850016-85850035 MsG0780041048.01.T01:CDS 50.0%
CATGAGCGATGAAGGTGGAT+TGG + Chr7:85850080-85850099 MsG0780041048.01.T01:CDS 50.0%
GAGTTTCGGAACGGTTCAGT+TGG + Chr7:85848907-85848926 MsG0780041048.01.T01:CDS 50.0%
GGAACGGTTCAGTTGGGATA+TGG + Chr7:85848914-85848933 MsG0780041048.01.T01:CDS 50.0%
! CACCGGGTTGCCCTTTTTAT+AGG + Chr7:85849240-85849259 MsG0780041048.01.T01:intron 50.0%
! GCGTGATGGCAGATTTTACC+AGG + Chr7:85848946-85848965 MsG0780041048.01.T01:CDS 50.0%
ACTGAAGCTCCCGCATATGC+AGG - Chr7:85849219-85849238 None:intergenic 55.0%
CTGAAGCTCCCGCATATGCA+GGG - Chr7:85849218-85849237 None:intergenic 55.0%
!! CAAACTACTGCGCTGGCTTC+TGG + Chr7:85850023-85850042 MsG0780041048.01.T01:CDS 55.0%
ATGCGGGAGCTTCAGTGCAC+CGG + Chr7:85849223-85849242 MsG0780041048.01.T01:intron 60.0%
CATATGCAGGGTCCGGGAAG+GGG - Chr7:85849206-85849225 None:intergenic 60.0%
CTTCCCGGACCCTGCATATG+CGG + Chr7:85849206-85849225 MsG0780041048.01.T01:intron 60.0%
GCATATGCAGGGTCCGGGAA+GGG - Chr7:85849207-85849226 None:intergenic 60.0%
TTCCCGGACCCTGCATATGC+GGG + Chr7:85849207-85849226 MsG0780041048.01.T01:intron 60.0%
! CAAATGGTGGGACCCCTTCC+CGG + Chr7:85849191-85849210 MsG0780041048.01.T01:intron 60.0%
CGCATATGCAGGGTCCGGGA+AGG - Chr7:85849208-85849227 None:intergenic 65.0%
CGGGAAGGGGTCCCACCATT+TGG - Chr7:85849193-85849212 None:intergenic 65.0%
CTCCCGCATATGCAGGGTCC+GGG - Chr7:85849212-85849231 None:intergenic 65.0%
GCTCCCGCATATGCAGGGTC+CGG - Chr7:85849213-85849232 None:intergenic 65.0%
TGCGGGAGCTTCAGTGCACC+GGG + Chr7:85849224-85849243 MsG0780041048.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 85848765 85850396 85848765 ID=MsG0780041048.01;Name=MsG0780041048.01
Chr7 mRNA 85848765 85850396 85848765 ID=MsG0780041048.01.T01;Parent=MsG0780041048.01;Name=MsG0780041048.01.T01;_AED=0.40;_eAED=0.40;_QI=20|1|1|1|1|1|2|193|145
Chr7 exon 85848765 85848967 85848765 ID=MsG0780041048.01.T01:exon:19427;Parent=MsG0780041048.01.T01
Chr7 exon 85849949 85850396 85849949 ID=MsG0780041048.01.T01:exon:19428;Parent=MsG0780041048.01.T01
Chr7 five_prime_UTR 85848765 85848784 85848765 ID=MsG0780041048.01.T01:five_prime_utr;Parent=MsG0780041048.01.T01
Chr7 CDS 85848785 85848967 85848785 ID=MsG0780041048.01.T01:cds;Parent=MsG0780041048.01.T01
Chr7 CDS 85849949 85850203 85849949 ID=MsG0780041048.01.T01:cds;Parent=MsG0780041048.01.T01
Chr7 three_prime_UTR 85850204 85850396 85850204 ID=MsG0780041048.01.T01:three_prime_utr;Parent=MsG0780041048.01.T01
Gene Sequence

>MsG0780041048.01.T01

ATGCCTCCTTATGATTGCATGCTTCTATTCAAGCCAAATGTGAAAAAAGAAGCCCTTATCAGTTTAGTTGCAAGGATCGGAAAACATGTGTGTAAAAGAAATGGGGTTGTAACTGAGATTAAGAGTTTCGGAACGGTTCAGTTGGGATATGGCGTGAAAAAGCGTGATGGCAGATTTTACCAGGGCCAAATGATGCAAGTAAGCATGATGGCTACTCCCGAAATCAACAAAGAGCTGCATTACCTAAATAAGGAAGACAAACTACTGCGCTGGCTTCTGGTTAAGCAGCGTGACACAAAGTTTGGGCTTGATTTCATGAGCGATGAAGGTGGATTGGAGCCAAGCAAATTCTCTCAAATAAATAAACTTGATGATGAGGATGATGATGAGGATGAAGATGATGAAGAATATGAAGTGAATGAAGAAGAAACAAAGTGA
Protein sequence

>MsG0780041048.01.T01

MPPYDCMLLFKPNVKKEALISLVARIGKHVCKRNGVVTEIKSFGTVQLGYGVKKRDGRFYQGQMMQVSMMATPEINKELHYLNKEDKLLRWLLVKQRDTKFGLDFMSDEGGLEPSKFSQINKLDDEDDDEDEDDEEYEVNEEETK*