AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016283.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016283.01.T01 MTR_3g087010 97.619 84 2 0 1 84 311 394 2.57e-54 172
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016283.01.T01 AT5G10320 61.039 77 30 0 1 77 324 400 8.22e-28 103
MsG0380016283.01.T01 AT5G10320 61.039 77 30 0 1 77 323 399 8.40e-28 103
MsG0380016283.01.T01 AT5G10320 61.039 77 30 0 1 77 219 295 1.40e-27 101

Find 19 sgRNAs with CRISPR-Local

Find 108 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCATGTTTATCAGAATATA+TGG 0.213889 3:+81456543 MsG0380016282.01.T01:CDS
CACAAGTCTACTGGAATTAC+TGG 0.342434 3:+81458245 MsG0380016282.01.T01:CDS
GTTTGACATACCAACATAGA+AGG 0.422519 3:-81456579 None:intergenic
ATTACCTTCTTCAGTGGCTT+CGG 0.429878 3:-81458304 None:intergenic
TTCAACTGCCCCTTCTATGT+TGG 0.484221 3:+81456569 MsG0380016282.01.T01:CDS
TCCTCATCTTGAATCACAGT+TGG 0.495108 3:-81458438 None:intergenic
AAGTAAGTACACAAGTCTAC+TGG 0.503759 3:+81458236 MsG0380016282.01.T01:CDS
ACCAAATTCTGCAGGTGGAA+AGG 0.517704 3:+81458383 MsG0380016282.01.T01:intron
TAACAAATTACCTTCTTCAG+TGG 0.523966 3:-81458310 None:intergenic
AAGGTATCAGAGCACCCTCT+TGG 0.536712 3:+81458402 MsG0380016282.01.T01:exon
TGGTAGCTCAGAGATAACTT+TGG 0.538447 3:-81458270 None:intergenic
TGTGCCGAAGCCACTGAAGA+AGG 0.539716 3:+81458300 MsG0380016282.01.T01:CDS
TCCAACTGTGATTCAAGATG+AGG 0.586293 3:+81458437 MsG0380016282.01.T01:exon
CAGAGCACCCTCTTGGTACG+TGG 0.604824 3:+81458409 MsG0380016282.01.T01:exon
TTAGGCAAAGTGCATTACTG+AGG 0.636995 3:+81458209 MsG0380016282.01.T01:intron
TTTGACATACCAACATAGAA+GGG 0.652525 3:-81456578 None:intergenic
TTGACATACCAACATAGAAG+GGG 0.668333 3:-81456577 None:intergenic
GGAATACACCACGTACCAAG+AGG 0.678597 3:-81458417 None:intergenic
GAATACACCACGTACCAAGA+GGG 0.698160 3:-81458416 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATTAATTTAAATTAAT+AGG - Chr3:81457018-81457037 None:intergenic 0.0%
!! ATAATTAATTTAAATTAATA+GGG - Chr3:81457017-81457036 None:intergenic 0.0%
!!! AATATATAAAATTTTACAAC+GGG - Chr3:81457247-81457266 None:intergenic 10.0%
!!! ACTTATCTAATTTTAATAAA+AGG - Chr3:81456747-81456766 None:intergenic 10.0%
!!! CAGTTTTTTTTTTTTTTTTA+TGG - Chr3:81457092-81457111 None:intergenic 10.0%
!!! GAATATATAAAATTTTACAA+CGG - Chr3:81457248-81457267 None:intergenic 10.0%
!!! GTAAAAATATTGTTTTTATT+AGG - Chr3:81457850-81457869 None:intergenic 10.0%
!! CTTATTAAAAATAATGTGTT+TGG - Chr3:81457514-81457533 None:intergenic 15.0%
!! TAAATTAATAGGGTTAAAAT+TGG - Chr3:81457007-81457026 None:intergenic 15.0%
!!! TATGTCAAATTTTCAATTTT+AGG + Chr3:81458191-81458210 MsG0380016282.01.T01:intron 15.0%
!!! TATTTGATGAATTTTAATAG+AGG - Chr3:81458125-81458144 None:intergenic 15.0%
!! AAAGAACTCTTACTATATTA+GGG + Chr3:81456805-81456824 MsG0380016282.01.T01:intron 20.0%
!! CTATGAATTTCAAAAATAAG+AGG - Chr3:81457295-81457314 None:intergenic 20.0%
!! TACACCAAATAATAAATAAC+TGG + Chr3:81457221-81457240 MsG0380016282.01.T01:intron 20.0%
!!! GCAATAAATATTCAAACTTT+TGG - Chr3:81457392-81457411 None:intergenic 20.0%
!!! GGTAAAATTAATTTTTGAAG+TGG - Chr3:81457493-81457512 None:intergenic 20.0%
!!! TTTAAGGAACGTTTTATATA+TGG + Chr3:81457125-81457144 MsG0380016282.01.T01:intron 20.0%
!!! TTTATTATTTGGTGTACAAT+AGG - Chr3:81457217-81457236 None:intergenic 20.0%
! AAGATTCAATATGTACATGA+TGG - Chr3:81457958-81457977 None:intergenic 25.0%
! AGATGAAAGCTGAAAAATAT+CGG - Chr3:81457799-81457818 None:intergenic 25.0%
! AGATTCAATATGTACATGAT+GGG - Chr3:81457957-81457976 None:intergenic 25.0%
! ATATTACTTATTTGCCTACA+TGG + Chr3:81458083-81458102 MsG0380016282.01.T01:intron 25.0%
! CAAAGAACTCTTACTATATT+AGG + Chr3:81456804-81456823 MsG0380016282.01.T01:intron 25.0%
! GAATTTCAAAAATAAGAGGA+AGG - Chr3:81457291-81457310 None:intergenic 25.0%
! GTTCCTTAAAAAAAAAAGAG+TGG - Chr3:81457115-81457134 None:intergenic 25.0%
! TATTGGATTGTTGAACTAAA+AGG + Chr3:81457824-81457843 MsG0380016282.01.T01:intron 25.0%
!! AAAGTCGAAGGAAATTTTTA+TGG + Chr3:81457357-81457376 MsG0380016282.01.T01:intron 25.0%
!! ACCATGCTAATTTTTATTAG+TGG + Chr3:81456706-81456725 MsG0380016282.01.T01:intron 25.0%
!! CATGCTAATTTTTATTAGTG+GGG + Chr3:81456708-81456727 MsG0380016282.01.T01:intron 25.0%
!! CCATGCTAATTTTTATTAGT+GGG + Chr3:81456707-81456726 MsG0380016282.01.T01:intron 25.0%
!! TTATCGGTTAAATTTCTTTG+AGG + Chr3:81457330-81457349 MsG0380016282.01.T01:intron 25.0%
!! TTTTCTTTCTTTCTCAGAAT+AGG - Chr3:81458022-81458041 None:intergenic 25.0%
!!! TAATTTGTTAGATTCAGTCA+AGG + Chr3:81458323-81458342 MsG0380016282.01.T01:intron 25.0%
!!! TTATATATGGTGGATTCTAA+GGG + Chr3:81457138-81457157 MsG0380016282.01.T01:intron 25.0%
!!! TTTATATATGGTGGATTCTA+AGG + Chr3:81457137-81457156 MsG0380016282.01.T01:intron 25.0%
!!! TTTTTTTTATGGGAAAAACG+TGG - Chr3:81457081-81457100 None:intergenic 25.0%
AGTAACACTATTCTTCTTAG+AGG + Chr3:81457980-81457999 MsG0380016282.01.T01:intron 30.0%
ATTCAATATGTACATGATGG+GGG - Chr3:81457955-81457974 None:intergenic 30.0%
CAGCTTTCATCTATTCTTAT+TGG + Chr3:81457807-81457826 MsG0380016282.01.T01:intron 30.0%
CAGTTATAAACATGAACATG+GGG - Chr3:81457058-81457077 None:intergenic 30.0%
CCCACTAATAAAAATTAGCA+TGG - Chr3:81456710-81456729 None:intergenic 30.0%
GATTCAATATGTACATGATG+GGG - Chr3:81457956-81457975 None:intergenic 30.0%
GCAGTTATAAACATGAACAT+GGG - Chr3:81457059-81457078 None:intergenic 30.0%
TAAAACAAAGTGATCCATGT+AGG - Chr3:81458100-81458119 None:intergenic 30.0%
TAACAAATTACCTTCTTCAG+TGG - Chr3:81458313-81458332 None:intergenic 30.0%
TGATAGCAATACAGTCTTTA+AGG + Chr3:81456772-81456791 MsG0380016282.01.T01:intron 30.0%
TTTCAAAAATAAGAGGAAGG+TGG - Chr3:81457288-81457307 None:intergenic 30.0%
TTTGACATACCAACATAGAA+GGG - Chr3:81456581-81456600 None:intergenic 30.0%
! AAGGAACGTTTTATATATGG+TGG + Chr3:81457128-81457147 MsG0380016282.01.T01:intron 30.0%
! AGGGTATCTAATTTACATGT+GGG + Chr3:81456610-81456629 MsG0380016282.01.T01:intron 30.0%
! TTTGAAATTCATAGAAGCAG+AGG + Chr3:81457301-81457320 MsG0380016282.01.T01:intron 30.0%
!! AAGGGTATCTAATTTACATG+TGG + Chr3:81456609-81456628 MsG0380016282.01.T01:intron 30.0%
!!! CTGCCACTCTTTTTTTTTTA+AGG + Chr3:81457109-81457128 MsG0380016282.01.T01:intron 30.0%
AAGTAAGTACACAAGTCTAC+TGG + Chr3:81458236-81458255 MsG0380016282.01.T01:CDS 35.0%
CATGTTCTCTCTAAATCTGT+TGG + Chr3:81456639-81456658 MsG0380016282.01.T01:intron 35.0%
CGGGCCAGTTATTTATTATT+TGG - Chr3:81457228-81457247 None:intergenic 35.0%
GAAGCAGAGGTCAAAATTAT+CGG + Chr3:81457314-81457333 MsG0380016282.01.T01:intron 35.0%
GGCAGTTATAAACATGAACA+TGG - Chr3:81457060-81457079 None:intergenic 35.0%
GTTTGACATACCAACATAGA+AGG - Chr3:81456582-81456601 None:intergenic 35.0%
TACTATATTAGGGCTGTGTT+TGG + Chr3:81456815-81456834 MsG0380016282.01.T01:intron 35.0%
TCTATGTTGGTATGTCAAAC+TGG + Chr3:81456582-81456601 MsG0380016282.01.T01:intron 35.0%
TTCGATGAAAAATCTCACAC+CGG - Chr3:81457675-81457694 None:intergenic 35.0%
TTGACATACCAACATAGAAG+GGG - Chr3:81456580-81456599 None:intergenic 35.0%
! AAAGCTAGCTTATAGCTTCT+TGG + Chr3:81456847-81456866 MsG0380016282.01.T01:intron 35.0%
! CTTTGAGGATTAAAAGTCGA+AGG + Chr3:81457345-81457364 MsG0380016282.01.T01:intron 35.0%
! TTCAATATGTACATGATGGG+GGG - Chr3:81457954-81457973 None:intergenic 35.0%
!! GGATTAGCTTATAAGCTTGT+TGG + Chr3:81456868-81456887 MsG0380016282.01.T01:intron 35.0%
ACCGGTCTCACTAAATGATT+TGG - Chr3:81457657-81457676 None:intergenic 40.0%
ATTACCTTCTTCAGTGGCTT+CGG - Chr3:81458307-81458326 None:intergenic 40.0%
CACAAGTCTACTGGAATTAC+TGG + Chr3:81458245-81458264 MsG0380016282.01.T01:CDS 40.0%
CTATTCTTCTTAGAGGTCTC+TGG + Chr3:81457987-81458006 MsG0380016282.01.T01:intron 40.0%
GATTTGGCCCATTCAATAGT+GGG - Chr3:81457641-81457660 None:intergenic 40.0%
GCCAAATCATTTAGTGAGAC+CGG + Chr3:81457653-81457672 MsG0380016282.01.T01:intron 40.0%
GGTAGTTCCCACTATTGAAT+GGG + Chr3:81457631-81457650 MsG0380016282.01.T01:intron 40.0%
GTATGTCAAACTGGCTACAA+GGG + Chr3:81456591-81456610 MsG0380016282.01.T01:intron 40.0%
TCCAACTGTGATTCAAGATG+AGG + Chr3:81458437-81458456 MsG0380016282.01.T01:exon 40.0%
TCCTCATCTTGAATCACAGT+TGG - Chr3:81458441-81458460 None:intergenic 40.0%
TGGTAGCTCAGAGATAACTT+TGG - Chr3:81458273-81458292 None:intergenic 40.0%
TGGTAGTTCCCACTATTGAA+TGG + Chr3:81457630-81457649 MsG0380016282.01.T01:intron 40.0%
TTAGGCAAAGTGCATTACTG+AGG + Chr3:81458209-81458228 MsG0380016282.01.T01:intron 40.0%
TTGGTCAGCTGGTATATTTC+TGG + Chr3:81456658-81456677 MsG0380016282.01.T01:intron 40.0%
! ATTCAATAGTGGGAACTACC+AGG - Chr3:81457631-81457650 None:intergenic 40.0%
! GTAGCTTTTGAGCTTATAGC+TGG + Chr3:81456962-81456981 MsG0380016282.01.T01:intron 40.0%
! TGATTTGGCCCATTCAATAG+TGG - Chr3:81457642-81457661 None:intergenic 40.0%
! TTCAATAGTGGGAACTACCA+GGG - Chr3:81457630-81457649 None:intergenic 40.0%
!! AAGCTTGTTGGTTGAAAACG+TGG + Chr3:81456880-81456899 MsG0380016282.01.T01:intron 40.0%
ACCAAATTCTGCAGGTGGAA+AGG + Chr3:81458383-81458402 MsG0380016282.01.T01:intron 45.0%
ACCTTTCCACCTGCAGAATT+TGG - Chr3:81458387-81458406 None:intergenic 45.0%
CTCTAAATCTGTTGGTCAGC+TGG + Chr3:81456647-81456666 MsG0380016282.01.T01:intron 45.0%
GAATACACCACGTACCAAGA+GGG - Chr3:81458419-81458438 None:intergenic 45.0%
GGAACTACCAGGGAAAATCA+TGG - Chr3:81457620-81457639 None:intergenic 45.0%
GGTATGTCAAACTGGCTACA+AGG + Chr3:81456590-81456609 MsG0380016282.01.T01:intron 45.0%
GGTTGAAAACGTGGTGTGTT+TGG + Chr3:81456889-81456908 MsG0380016282.01.T01:intron 45.0%
TGTACTCCACCAAATTCTGC+AGG + Chr3:81458375-81458394 MsG0380016282.01.T01:intron 45.0%
TTCAACTGCCCCTTCTATGT+TGG + Chr3:81456569-81456588 MsG0380016282.01.T01:CDS 45.0%
TTTCCACCTGCAGAATTTGG+TGG - Chr3:81458384-81458403 None:intergenic 45.0%
! AACAGAGCCATGATTTTCCC+TGG + Chr3:81457610-81457629 MsG0380016282.01.T01:intron 45.0%
! AATATGTACATGATGGGGGG+TGG - Chr3:81457951-81457970 None:intergenic 45.0%
! GGGAAAATCATGGCTCTGTT+TGG - Chr3:81457610-81457629 None:intergenic 45.0%
!!! AGTTTTTTTTTTTTTTTTAT+GGG - Chr3:81457091-81457110 None:intergenic 5.0%
ACTCCACCAAATTCTGCAGG+TGG + Chr3:81458378-81458397 MsG0380016282.01.T01:intron 50.0%
GGAATACACCACGTACCAAG+AGG - Chr3:81458420-81458439 None:intergenic 50.0%
! AAGGTATCAGAGCACCCTCT+TGG + Chr3:81458402-81458421 MsG0380016282.01.T01:exon 50.0%
! TGGCTTCGGCACATCTTTTC+TGG - Chr3:81458293-81458312 None:intergenic 50.0%
TGTGCCGAAGCCACTGAAGA+AGG + Chr3:81458300-81458319 MsG0380016282.01.T01:CDS 55.0%
! ATGATGGGGGGTGGAGTGGA+AGG - Chr3:81457942-81457961 None:intergenic 60.0%
! CAGAGCACCCTCTTGGTACG+TGG + Chr3:81458409-81458428 MsG0380016282.01.T01:exon 60.0%
! GTACATGATGGGGGGTGGAG+TGG - Chr3:81457946-81457965 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 81456546 81458497 81456546 ID=MsG0380016283.01;Name=MsG0380016283.01
Chr3 mRNA 81456546 81458497 81456546 ID=MsG0380016283.01.T01;Parent=MsG0380016283.01;Name=MsG0380016283.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0|0|1|1|0.66|3|0|84
Chr3 exon 81456546 81456590 81456546 ID=MsG0380016283.01.T01:exon:10755;Parent=MsG0380016283.01.T01
Chr3 exon 81458213 81458321 81458213 ID=MsG0380016283.01.T01:exon:10756;Parent=MsG0380016283.01.T01
Chr3 exon 81458397 81458497 81458397 ID=MsG0380016283.01.T01:exon:10757;Parent=MsG0380016283.01.T01
Chr3 CDS 81456546 81456590 81456546 ID=MsG0380016283.01.T01:cds;Parent=MsG0380016283.01.T01
Chr3 CDS 81458213 81458321 81458213 ID=MsG0380016283.01.T01:cds;Parent=MsG0380016283.01.T01
Chr3 CDS 81458397 81458497 81458397 ID=MsG0380016283.01.T01:cds;Parent=MsG0380016283.01.T01
Gene Sequence

>MsG0380016283.01.T01

ATGTTTATCAGAATATATGGAGCTTCAACTGCCCCTTCTATGTTGGCAAAGTGCATTACTGAGGCTGAAAGTAAGTACACAAGTCTACTGGAATTACTGGAACCAAAGTTATCTCTGAGCTACCAGAAAAGATGTGCCGAAGCCACTGAAGAAGGTGGAAAGGTATCAGAGCACCCTCTTGGTACGTGGTGTATTCCAACTGTGATTCAAGATGAGGAATTGTATAGATCAAACTTGAAATCAGATACTTCGTAA
Protein sequence

>MsG0380016283.01.T01

MFIRIYGASTAPSMLAKCITEAESKYTSLLELLEPKLSLSYQKRCAEATEEGGKVSEHPLGTWCIPTVIQDEELYRSNLKSDTS*