AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036184.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036184.01.T01 MTR_7g009590 62.037 216 25 4 1 177 1 198 6.97e-80 241
MsG0780036184.01.T01 MTR_7g009485 58.042 143 40 5 37 177 22 146 1.10e-40 137
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036184.01.T01 AT3G28715 60.280 214 28 4 1 175 1 196 1.21e-77 235
MsG0780036184.01.T01 AT3G28715 59.722 216 30 4 1 177 1 198 1.26e-77 235
MsG0780036184.01.T01 AT3G28710 59.259 216 31 4 1 177 1 198 6.96e-76 231

Find 33 sgRNAs with CRISPR-Local

Find 126 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAATATGCGGAGCTTTAC+AGG 0.203798 7:-4388581 MsG0780036184.01.T01:CDS
ATTGATGTTGAACAAAATAA+AGG 0.304511 7:+4388471 None:intergenic
CATCTCTCTGCTACTGAGTA+TGG 0.378117 7:-4391703 MsG0780036184.01.T01:CDS
ATCGTCAGAGGTCATCGTTC+CGG 0.420796 7:-4391790 MsG0780036184.01.T01:CDS
GACCTCTGACGATTGCTTCA+AGG 0.445385 7:+4391800 None:intergenic
ATCCACTCGGCATGTTTGAC+AGG 0.451582 7:-4388717 MsG0780036184.01.T01:intron
ATCAGCGGTGGTTAACAAAC+CGG 0.463277 7:+4391771 None:intergenic
TTGATGTTGAACAAAATAAA+GGG 0.465069 7:+4388472 None:intergenic
GGTTCTTGTTGACACTCCTC+TGG 0.476594 7:-4388556 MsG0780036184.01.T01:CDS
TCTCCTCAGTATTGCCACTC+TGG 0.481860 7:-4388612 MsG0780036184.01.T01:intron
ATCCAATTTCCCACCATGTA+CGG 0.494876 7:-4391859 None:intergenic
GTAATGCACTCAGAGAAGTA+TGG 0.507766 7:+4388531 None:intergenic
ACATGAACATTGAAATAATG+AGG 0.537251 7:-4388302 MsG0780036184.01.T01:CDS
TTGGACATCTCTCTCATGCA+AGG 0.547298 7:+4388759 None:intergenic
TGTCAAACATGCCGAGTGGA+TGG 0.549528 7:+4388719 None:intergenic
CATAGCTTCGAATCCGTACA+TGG 0.553153 7:+4391846 None:intergenic
GATGCATCTTGATATCATCA+AGG 0.565033 7:+4391722 None:intergenic
TATGGTCCTTATCTCCAAAA+CGG 0.566062 7:-4391685 MsG0780036184.01.T01:CDS
TCAGAGAAGTATGGCGCCAG+AGG 0.569493 7:+4388540 None:intergenic
AATGAGGAACACTCTTTACA+AGG 0.571212 7:-4388286 MsG0780036184.01.T01:CDS
GTAACCGCCATGGATGTTGA+AGG 0.571667 7:+4391822 None:intergenic
ATATGCGGAGCTTTACAGGC+TGG 0.578071 7:-4388577 MsG0780036184.01.T01:CDS
ATGCATCTTGATATCATCAA+GGG 0.582404 7:+4391723 None:intergenic
CTCTGAGTGCATTACATCTG+AGG 0.585702 7:-4388523 MsG0780036184.01.T01:CDS
GCTATGACCTTCAACATCCA+TGG 0.599491 7:-4391829 MsG0780036184.01.T01:CDS
GAGATTGTTGTAATCAGCGG+TGG 0.612888 7:+4391759 None:intergenic
TTGCTTCAAGGTAACCGCCA+TGG 0.615790 7:+4391812 None:intergenic
ACAGAGATTGTTGTAATCAG+CGG 0.619922 7:+4391756 None:intergenic
TGGCAGTTGCTCAGAATATG+CGG 0.631129 7:-4388592 MsG0780036184.01.T01:CDS
TACCTTGAAGCAATCGTCAG+AGG 0.632906 7:-4391802 MsG0780036184.01.T01:CDS
ATTCTGAGCAACTGCCAGAG+TGG 0.673304 7:+4388598 None:intergenic
TACCTGTCAAACATGCCGAG+TGG 0.699028 7:+4388715 None:intergenic
ATGACCTTCAACATCCATGG+CGG 0.765368 7:-4391826 MsG0780036184.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATACATTCTTAATTAAATTT+GGG + Chr7:4390520-4390539 None:intergenic 10.0%
!! CAATAAGAATAATAATAATA+AGG + Chr7:4390886-4390905 None:intergenic 10.0%
!!! TATTTATAAAATTTTTCAGA+GGG - Chr7:4390133-4390152 MsG0780036184.01.T01:intron 10.0%
!! AAACTAATCAAATATAAACA+TGG + Chr7:4391721-4391740 None:intergenic 15.0%
!! AACTAATCAAATATAAACAT+GGG + Chr7:4391720-4391739 None:intergenic 15.0%
!! GATACATTCTTAATTAAATT+TGG + Chr7:4390521-4390540 None:intergenic 15.0%
!!! AAATTATTGATTTATACTGA+TGG - Chr7:4390934-4390953 MsG0780036184.01.T01:intron 15.0%
!!! ATTTTACAATATATTGATGT+TGG - Chr7:4391418-4391437 MsG0780036184.01.T01:intron 15.0%
!!! CTATTTATAAAATTTTTCAG+AGG - Chr7:4390132-4390151 MsG0780036184.01.T01:intron 15.0%
!!! TTTTGATAAAATTCATTGTT+TGG - Chr7:4389987-4390006 MsG0780036184.01.T01:intron 15.0%
!! AAATTTAAGTGCTTAGTTAT+CGG - Chr7:4388638-4388657 MsG0780036184.01.T01:intron 20.0%
!! ACTAATCAAATATAAACATG+GGG + Chr7:4391719-4391738 None:intergenic 20.0%
!! ATTGATGTTGAACAAAATAA+AGG + Chr7:4391627-4391646 None:intergenic 20.0%
!! TTGATGTTGAACAAAATAAA+GGG + Chr7:4391626-4391645 None:intergenic 20.0%
!! TTTAGATATTTGATCTACTT+TGG - Chr7:4390685-4390704 MsG0780036184.01.T01:intron 20.0%
!!! AAAATTAAGTGCTTTTAATC+TGG - Chr7:4390211-4390230 MsG0780036184.01.T01:intron 20.0%
!!! TTGAATCTTGAATTATTTTG+AGG - Chr7:4390435-4390454 MsG0780036184.01.T01:intron 20.0%
!!! TTGTTTTAATTGTGTAGATT+TGG - Chr7:4388547-4388566 MsG0780036184.01.T01:CDS 20.0%
! AAAACATTTCTGATTAAGTG+AGG + Chr7:4389396-4389415 None:intergenic 25.0%
! AAGTAATTAACTACACATGA+GGG + Chr7:4391163-4391182 None:intergenic 25.0%
! ACATGAACATTGAAATAATG+AGG - Chr7:4391793-4391812 MsG0780036184.01.T01:CDS 25.0%
! CATTTCAAATCTACAAACAA+TGG + Chr7:4389455-4389474 None:intergenic 25.0%
! CCATTAATGATTTGAGAAAA+TGG + Chr7:4391186-4391205 None:intergenic 25.0%
! CTATGAAACACTTAGTTAAT+CGG - Chr7:4389032-4389051 MsG0780036184.01.T01:intron 25.0%
! TTACTGAAGTTCACAATAAA+GGG + Chr7:4390741-4390760 None:intergenic 25.0%
! TTCAGTATATGTGTCATATT+TGG - Chr7:4391215-4391234 MsG0780036184.01.T01:intron 25.0%
!! AAAGGGAAACAAATATTTTC+TGG + Chr7:4391609-4391628 None:intergenic 25.0%
!! ATACATAAGTTTTCATGACA+AGG + Chr7:4390628-4390647 None:intergenic 25.0%
!! CCATTTTCTCAAATCATTAA+TGG - Chr7:4391183-4391202 MsG0780036184.01.T01:intron 25.0%
!! TTAATTTTTCTCTGCAGATA+TGG - Chr7:4391275-4391294 MsG0780036184.01.T01:intron 25.0%
!!! AATGTTGTTTTGATTGTTAC+TGG - Chr7:4391311-4391330 MsG0780036184.01.T01:intron 25.0%
!!! AGAATTATTTCTGGAAACAT+TGG - Chr7:4389483-4389502 MsG0780036184.01.T01:intron 25.0%
!!! GAATTATTTCTGGAAACATT+GGG - Chr7:4389484-4389503 MsG0780036184.01.T01:intron 25.0%
AAAATTGGCAAACCAAAAAG+TGG + Chr7:4390375-4390394 None:intergenic 30.0%
AGTGTAACAAATAACTGCTA+AGG - Chr7:4389672-4389691 MsG0780036184.01.T01:intron 30.0%
ATGCATCTTGATATCATCAA+GGG + Chr7:4388375-4388394 None:intergenic 30.0%
CTTACTGAAGTTCACAATAA+AGG + Chr7:4390742-4390761 None:intergenic 30.0%
GAAGTAATTAACTACACATG+AGG + Chr7:4391164-4391183 None:intergenic 30.0%
TACTGAAGTTCACAATAAAG+GGG + Chr7:4390740-4390759 None:intergenic 30.0%
TATTTCCTTGAATATGTGTC+TGG - Chr7:4391128-4391147 MsG0780036184.01.T01:intron 30.0%
TGTAAAATGCACAGAAATCA+GGG + Chr7:4391406-4391425 None:intergenic 30.0%
TTCACAAATTGAATCTCGAT+TGG - Chr7:4390591-4390610 MsG0780036184.01.T01:intron 30.0%
TTGTAAAATGCACAGAAATC+AGG + Chr7:4391407-4391426 None:intergenic 30.0%
! AAAAAAAAAACGCACCGTTT+TGG + Chr7:4388427-4388446 None:intergenic 30.0%
! AGACTTTTACAGATTTTGTC+AGG - Chr7:4391841-4391860 MsG0780036184.01.T01:CDS 30.0%
! ATACGTGATATACTCTAAGA+AGG + Chr7:4391075-4391094 None:intergenic 30.0%
!! AAAGTTTGCTGTTATTTCTG+CGG - Chr7:4390793-4390812 MsG0780036184.01.T01:intron 30.0%
!! AAGACATACACTTTTGATTG+AGG - Chr7:4389701-4389720 MsG0780036184.01.T01:intron 30.0%
!! AGACATACACTTTTGATTGA+GGG - Chr7:4389702-4389721 MsG0780036184.01.T01:intron 30.0%
!! TCTTGTTTATTTCTAGGACT+TGG - Chr7:4391767-4391786 MsG0780036184.01.T01:CDS 30.0%
!!! TTACTTTTTTCTTGCCTGTT+GGG - Chr7:4391458-4391477 MsG0780036184.01.T01:intron 30.0%
!!! TTGGTTTGCCAATTTTGTAT+AGG - Chr7:4390379-4390398 MsG0780036184.01.T01:intron 30.0%
!!! TTTACTTTTTTCTTGCCTGT+TGG - Chr7:4391457-4391476 MsG0780036184.01.T01:intron 30.0%
AATGAGGAACACTCTTTACA+AGG - Chr7:4391809-4391828 MsG0780036184.01.T01:CDS 35.0%
AATGCTAATGACTGAACTGA+AGG - Chr7:4389287-4389306 MsG0780036184.01.T01:intron 35.0%
ACAATTGTTGTGGTATGCAA+TGG + Chr7:4390982-4391001 None:intergenic 35.0%
ACAGAGATTGTTGTAATCAG+CGG + Chr7:4388342-4388361 None:intergenic 35.0%
ACATTTCTCCACAATTGTTG+TGG + Chr7:4390992-4391011 None:intergenic 35.0%
AGTGTCTGCCTATACAAAAT+TGG + Chr7:4390390-4390409 None:intergenic 35.0%
ATTGCATACCACAACAATTG+TGG - Chr7:4390981-4391000 MsG0780036184.01.T01:intron 35.0%
GATGCATCTTGATATCATCA+AGG + Chr7:4388376-4388395 None:intergenic 35.0%
GCTAGCTGAAGAATTATTTC+TGG - Chr7:4389474-4389493 MsG0780036184.01.T01:intron 35.0%
GGACACATCAATTACATGTT+TGG + Chr7:4389814-4389833 None:intergenic 35.0%
GTAATCATCAACCAGCTTAA+GGG + Chr7:4391016-4391035 None:intergenic 35.0%
GTGATTTCGCATAATCATGA+AGG + Chr7:4389425-4389444 None:intergenic 35.0%
TATATGCGAAATCGTGATCT+AGG - Chr7:4388676-4388695 MsG0780036184.01.T01:intron 35.0%
TATGGTCCTTATCTCCAAAA+CGG - Chr7:4388410-4388429 MsG0780036184.01.T01:intron 35.0%
TCTATAGAGATCACGATGTT+TGG - Chr7:4389145-4389164 MsG0780036184.01.T01:intron 35.0%
TGTAATCATCAACCAGCTTA+AGG + Chr7:4391017-4391036 None:intergenic 35.0%
TGTTTGACAAATGTCAGACA+CGG - Chr7:4389082-4389101 MsG0780036184.01.T01:intron 35.0%
TTCTTTGATGTATCTGCTCA+TGG - Chr7:4391743-4391762 MsG0780036184.01.T01:CDS 35.0%
! ACACTTTCCATCAAAAGTGT+TGG - Chr7:4389108-4389127 MsG0780036184.01.T01:intron 35.0%
! ATACTCTAAGAAGGTTGACA+AGG + Chr7:4391066-4391085 None:intergenic 35.0%
! ATCACGATGTTTGGTTTAGT+TGG - Chr7:4389154-4389173 MsG0780036184.01.T01:intron 35.0%
! CATGGCTCTTGTTTATTTCT+AGG - Chr7:4391761-4391780 MsG0780036184.01.T01:CDS 35.0%
! TATAGCACCAACACTTTTGA+TGG + Chr7:4389118-4389137 None:intergenic 35.0%
!! AAGTTTGCTGTTATTTCTGC+GGG - Chr7:4390794-4390813 MsG0780036184.01.T01:intron 35.0%
!! ATCAAAAGTGTTGGTGCTAT+AGG - Chr7:4389117-4389136 MsG0780036184.01.T01:intron 35.0%
!! GACATACACTTTTGATTGAG+GGG - Chr7:4389703-4389722 MsG0780036184.01.T01:intron 35.0%
!! GGCATTTTTCTAGAAGTTCT+TGG + Chr7:4391358-4391377 None:intergenic 35.0%
!! TCAAAAGTGTTGGTGCTATA+GGG - Chr7:4389118-4389137 MsG0780036184.01.T01:intron 35.0%
AAATCGTGATCTAGGAAGCA+CGG - Chr7:4388684-4388703 MsG0780036184.01.T01:intron 40.0%
AGACACCAGACACATATTCA+AGG + Chr7:4391136-4391155 None:intergenic 40.0%
CTAGAAAAATGCCATCCACT+CGG - Chr7:4391365-4391384 MsG0780036184.01.T01:intron 40.0%
GTAATGCACTCAGAGAAGTA+TGG + Chr7:4391567-4391586 None:intergenic 40.0%
GTTTGACAAATGTCAGACAC+GGG - Chr7:4389083-4389102 MsG0780036184.01.T01:intron 40.0%
! TTCTCATCGAAGGTGTATCA+TGG + Chr7:4389858-4389877 None:intergenic 40.0%
!!! ACTTTTGATTGAGGGGTGTT+CGG - Chr7:4389710-4389729 MsG0780036184.01.T01:intron 40.0%
ACATGTGTCAGTGTTGTGTC+AGG - Chr7:4388783-4388802 MsG0780036184.01.T01:CDS 45.0%
ATACTGAGGAGAATCCCAAC+AGG + Chr7:4391475-4391494 None:intergenic 45.0%
ATCAGCGGTGGTTAACAAAC+CGG + Chr7:4388327-4388346 None:intergenic 45.0%
ATGACCTTCAACATCCATGG+CGG - Chr7:4388269-4388288 MsG0780036184.01.T01:CDS 45.0%
CAGAATATGCGGAGCTTTAC+AGG - Chr7:4391514-4391533 MsG0780036184.01.T01:intron 45.0%
CATCTCTCTGCTACTGAGTA+TGG - Chr7:4388392-4388411 MsG0780036184.01.T01:intron 45.0%
CTCTGAGTGCATTACATCTG+AGG - Chr7:4391572-4391591 MsG0780036184.01.T01:intron 45.0%
GAGATTGTTGTAATCAGCGG+TGG + Chr7:4388339-4388358 None:intergenic 45.0%
GCAATGACACTTCTCATCGA+AGG + Chr7:4389868-4389887 None:intergenic 45.0%
GCTATGACCTTCAACATCCA+TGG - Chr7:4388266-4388285 MsG0780036184.01.T01:CDS 45.0%
GGAGAAATGTACCCTTAAGC+TGG - Chr7:4391002-4391021 MsG0780036184.01.T01:intron 45.0%
GTTGACAAGGTTCTGTAGCT+TGG + Chr7:4391053-4391072 None:intergenic 45.0%
GTTGTGGTATGCAATGGAGA+TGG + Chr7:4390976-4390995 None:intergenic 45.0%
TACCTTGAAGCAATCGTCAG+AGG - Chr7:4388293-4388312 MsG0780036184.01.T01:CDS 45.0%
TATCCGACACATGTCAGTGT+CGG + Chr7:4389835-4389854 None:intergenic 45.0%
TGGCAGTTGCTCAGAATATG+CGG - Chr7:4391503-4391522 MsG0780036184.01.T01:intron 45.0%
TTGGACATCTCTCTCATGCA+AGG + Chr7:4391339-4391358 None:intergenic 45.0%
TTGGCAAACCAAAAAGTGGC+TGG + Chr7:4390371-4390390 None:intergenic 45.0%
! AATGGAGATGGTTCTGCAAG+AGG + Chr7:4390964-4390983 None:intergenic 45.0%
!! TTCGGTGTCTGACACGTATT+AGG - Chr7:4389728-4389747 MsG0780036184.01.T01:intron 45.0%
!!! AACGCACCGTTTTGGAGATA+AGG + Chr7:4388419-4388438 None:intergenic 45.0%
ATATGCGGAGCTTTACAGGC+TGG - Chr7:4391518-4391537 MsG0780036184.01.T01:intron 50.0%
ATCCACTCGGCATGTTTGAC+AGG - Chr7:4391378-4391397 MsG0780036184.01.T01:intron 50.0%
ATCGTCAGAGGTCATCGTTC+CGG - Chr7:4388305-4388324 MsG0780036184.01.T01:CDS 50.0%
ATTCTGAGCAACTGCCAGAG+TGG + Chr7:4391500-4391519 None:intergenic 50.0%
GACCTCTGACGATTGCTTCA+AGG + Chr7:4388298-4388317 None:intergenic 50.0%
GGTTCTTGTTGACACTCCTC+TGG - Chr7:4391539-4391558 MsG0780036184.01.T01:intron 50.0%
GTAACCGCCATGGATGTTGA+AGG + Chr7:4388276-4388295 None:intergenic 50.0%
TACCTGTCAAACATGCCGAG+TGG + Chr7:4391383-4391402 None:intergenic 50.0%
TCAGTGTTGTGTCAGGATCG+TGG - Chr7:4388790-4388809 MsG0780036184.01.T01:CDS 50.0%
TCTCCTCAGTATTGCCACTC+TGG - Chr7:4391483-4391502 MsG0780036184.01.T01:intron 50.0%
TGTCAAACATGCCGAGTGGA+TGG + Chr7:4391379-4391398 None:intergenic 50.0%
TGTCCGACACTGACATGTGT+CGG - Chr7:4389829-4389848 MsG0780036184.01.T01:intron 50.0%
TTGCTTCAAGGTAACCGCCA+TGG + Chr7:4388286-4388305 None:intergenic 50.0%
! AGAGCACTCACAGTGACATG+TGG - Chr7:4388711-4388730 MsG0780036184.01.T01:intron 50.0%
!!! TAGTGCAGCCAGCCACTTTT+TGG - Chr7:4390360-4390379 MsG0780036184.01.T01:intron 50.0%
CTGCCAGAGTGGCAATACTG+AGG + Chr7:4391489-4391508 None:intergenic 55.0%
! TCAGAGAAGTATGGCGCCAG+AGG + Chr7:4391558-4391577 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 4388251 4391866 4388251 ID=MsG0780036184.01;Name=MsG0780036184.01
Chr7 mRNA 4388251 4391866 4388251 ID=MsG0780036184.01.T01;Parent=MsG0780036184.01;Name=MsG0780036184.01.T01;_AED=0.49;_eAED=0.55;_QI=0|0.33|0.25|1|0|0.25|4|0|177
Chr7 exon 4391682 4391866 4391682 ID=MsG0780036184.01.T01:exon:2506;Parent=MsG0780036184.01.T01
Chr7 exon 4388718 4388825 4388718 ID=MsG0780036184.01.T01:exon:2505;Parent=MsG0780036184.01.T01
Chr7 exon 4388469 4388625 4388469 ID=MsG0780036184.01.T01:exon:2504;Parent=MsG0780036184.01.T01
Chr7 exon 4388251 4388334 4388251 ID=MsG0780036184.01.T01:exon:2503;Parent=MsG0780036184.01.T01
Chr7 CDS 4391682 4391866 4391682 ID=MsG0780036184.01.T01:cds;Parent=MsG0780036184.01.T01
Chr7 CDS 4388718 4388825 4388718 ID=MsG0780036184.01.T01:cds;Parent=MsG0780036184.01.T01
Chr7 CDS 4388469 4388625 4388469 ID=MsG0780036184.01.T01:cds;Parent=MsG0780036184.01.T01
Chr7 CDS 4388251 4388334 4388251 ID=MsG0780036184.01.T01:cds;Parent=MsG0780036184.01.T01
Gene Sequence

>MsG0780036184.01.T01

ATGTACGGATTCGAAGCTATGACCTTCAACATCCATGGCGGTTACCTTGAAGCAATCGTCAGAGGTCATCGTTCCGGTTTGTTAACCACCGCTGATTACAACAATCTCTGTCAATGTGAAACCCTTGATGATATCAAGATGCATCTCTCTGCTACTGAGTATGGTCCTTATCTCCAAAACGGTGCATATGGTCACATGATTGACAATGTTGTTTTGATTGTTACTGGCACCTTGCATGAGAGAGATGTCCAAGAACTTCTAGAAAAATGCCATCCACTCGGCATGTTTGACAGTATTGCCACTCTGGCAGTTGCTCAGAATATGCGGAGCTTTACAGGCTGGTTCTTGTTGACACTCCTCTGGCGCCATACTTCTCTGAGTGCATTACATCTGAGGAAATCATCTTTCCAGAAAATATTTGTTTCCCTTTATTTTGTTCAACATCAATCAGACTTGGATGACATGAACATTGAAATAATGAGGAACACTCTTTACAAGGCATACTTGAAGACTTTTACAGATTTTGTCAGGTGA
Protein sequence

>MsG0780036184.01.T01

MYGFEAMTFNIHGGYLEAIVRGHRSGLLTTADYNNLCQCETLDDIKMHLSATEYGPYLQNGAYGHMIDNVVLIVTGTLHERDVQELLEKCHPLGMFDSIATLAVAQNMRSFTGWFLLTLLWRHTSLSALHLRKSSFQKIFVSLYFVQHQSDLDDMNIEIMRNTLYKAYLKTFTDFVR*