AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027151.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027151.01.T01 MTR_1g116080 75.172 145 29 2 3 140 177 321 2.17e-66 204
MsG0580027151.01.T01 MTR_1g116080 64.151 106 31 2 3 101 178 283 1.94e-35 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027151.01.T01 AT4G08790 60.145 138 48 3 4 134 170 307 3.02e-47 155

Find 28 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGAGTTGGATCCAAATA+TGG 0.319493 5:-54722940 MsG0580027151.01.T01:intron
GTCATAGCTGCTGCGCCAGC+TGG 0.322213 5:-54722659 MsG0580027151.01.T01:CDS
GACAGTCATATTGGGCGTTT+GGG 0.341931 5:-54723424 MsG0580027151.01.T01:CDS
GTTGCAGTAGACAGTCATAT+TGG 0.365003 5:-54723433 MsG0580027151.01.T01:CDS
AGACAGTCATATTGGGCGTT+TGG 0.367986 5:-54723425 MsG0580027151.01.T01:CDS
AACCATTAGAAAAGATTTAG+AGG 0.369865 5:-54722964 MsG0580027151.01.T01:CDS
TAAATGATTACCTTAGCAAT+AGG 0.379273 5:+54722142 None:intergenic
AAAGGAAGCCATTTGACTTC+TGG 0.391324 5:-54721955 MsG0580027151.01.T01:CDS
TTGCAGTAGACAGTCATATT+GGG 0.412250 5:-54723432 MsG0580027151.01.T01:CDS
GTTTCAGATCGTTTGTCTAC+GGG 0.424933 5:-54722220 MsG0580027151.01.T01:intron
TGTTTCAGATCGTTTGTCTA+CGG 0.457934 5:-54722221 MsG0580027151.01.T01:intron
ACCGTTGTTGGTCGCTTACC+AGG 0.473865 5:-54722578 MsG0580027151.01.T01:intron
GCAGCTTTCCAGAAGTCAAA+TGG 0.488007 5:+54721947 None:intergenic
TTGTCATTGTGTGTGCCAGC+TGG 0.491293 5:+54722644 None:intergenic
CACCTTGATTATCGATCCAT+GGG 0.496778 5:-54722603 MsG0580027151.01.T01:CDS
AGATTTAGAGGTCAATGAGT+TGG 0.506040 5:-54722952 MsG0580027151.01.T01:CDS
ACACCTTGATTATCGATCCA+TGG 0.520694 5:-54722604 MsG0580027151.01.T01:CDS
CGCAACAACTGATAAAGCTC+AGG 0.529790 5:+54723373 None:intergenic
TTAATACCTGTGCTCCATGT+TGG 0.536239 5:+54723345 None:intergenic
TCGTTTGTCTACGGGAATTG+TGG 0.555672 5:-54722212 MsG0580027151.01.T01:CDS
TCAAATCATAGCAAACACTA+AGG 0.560660 5:+54723401 None:intergenic
AGAGAAGATGCCTATTGCTA+AGG 0.563526 5:-54722152 MsG0580027151.01.T01:intron
AATGACAAAAGAGAAAGTTA+TGG 0.563585 5:-54722629 MsG0580027151.01.T01:CDS
GTTGTTGCGCGTTTCCAACA+TGG 0.568831 5:-54723359 MsG0580027151.01.T01:CDS
ACCTGGTAAGCGACCAACAA+CGG 0.588128 5:+54722577 None:intergenic
GCGTTTCCAACATGGAGCAC+AGG 0.592777 5:-54723351 MsG0580027151.01.T01:intron
ACCTTGATTATCGATCCATG+GGG 0.739227 5:-54722602 MsG0580027151.01.T01:CDS
CCTTGATTATCGATCCATGG+GGG 0.771910 5:-54722601 MsG0580027151.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAACAAAGTATCATAATTT+TGG + Chr5:54722357-54722376 None:intergenic 15.0%
!!! ATTTTTTGAATAGTAAATGT+TGG + Chr5:54722679-54722698 None:intergenic 15.0%
!! AATAAAGAAGAGAAAAAAGA+CGG + Chr5:54723136-54723155 None:intergenic 20.0%
!! GATGTTATATGATATTTCTT+AGG + Chr5:54722973-54722992 None:intergenic 20.0%
! AACCATTAGAAAAGATTTAG+AGG - Chr5:54722427-54722446 MsG0580027151.01.T01:intron 25.0%
! AATGACAAAAGAGAAAGTTA+TGG - Chr5:54722762-54722781 MsG0580027151.01.T01:intron 25.0%
! AGTAAGAATATACATGAAGA+TGG + Chr5:54722312-54722331 None:intergenic 25.0%
! GTAAGAATATACATGAAGAT+GGG + Chr5:54722311-54722330 None:intergenic 25.0%
! GTTCTATCAAAAACCATATT+TGG + Chr5:54722467-54722486 None:intergenic 25.0%
! TAAATGATTACCTTAGCAAT+AGG + Chr5:54723252-54723271 None:intergenic 25.0%
! TAATTAGTTGTTAGAAACGT+TGG + Chr5:54722656-54722675 None:intergenic 25.0%
!!! TATTTTGAGTATCATTACGA+AGG + Chr5:54722937-54722956 None:intergenic 25.0%
CGAGAGTTGAATAAAGTAAT+TGG + Chr5:54722630-54722649 None:intergenic 30.0%
GATTTGATGAATGACTTATC+AGG - Chr5:54722710-54722729 MsG0580027151.01.T01:intron 30.0%
TCAAATCATAGCAAACACTA+AGG + Chr5:54721993-54722012 None:intergenic 30.0%
! GACCTCTAAATCTTTTCTAA+TGG + Chr5:54722432-54722451 None:intergenic 30.0%
! TATGGTTTTTGATAGAACAC+TGG - Chr5:54722469-54722488 MsG0580027151.01.T01:intron 30.0%
! TTTTCTAATGGTTTCTCGAA+TGG + Chr5:54722420-54722439 None:intergenic 30.0%
AAGATGGGAATGATGAAATC+AGG + Chr5:54722296-54722315 None:intergenic 35.0%
AAGGAAGAAAGAAACAAGGA+AGG + Chr5:54722918-54722937 None:intergenic 35.0%
ACCAATACTAGAGAATGAGA+TGG - Chr5:54723291-54723310 MsG0580027151.01.T01:intron 35.0%
AGATTTAGAGGTCAATGAGT+TGG - Chr5:54722439-54722458 MsG0580027151.01.T01:intron 35.0%
GAAAAAAGACGGTATCATTG+TGG + Chr5:54723125-54723144 None:intergenic 35.0%
GTGCATTGTCCATATACTAT+TGG - Chr5:54722129-54722148 MsG0580027151.01.T01:intron 35.0%
TACGAAGGAAGAAAGAAACA+AGG + Chr5:54722922-54722941 None:intergenic 35.0%
TCCATCTCATTCTCTAGTAT+TGG + Chr5:54723295-54723314 None:intergenic 35.0%
TGTTTCAGATCGTTTGTCTA+CGG - Chr5:54723170-54723189 MsG0580027151.01.T01:intron 35.0%
TTAGTTGTTAGAAACGTTGG+TGG + Chr5:54722653-54722672 None:intergenic 35.0%
TTGCAGTAGACAGTCATATT+GGG - Chr5:54721959-54721978 MsG0580027151.01.T01:CDS 35.0%
! CAATGAGTTGGATCCAAATA+TGG - Chr5:54722451-54722470 MsG0580027151.01.T01:intron 35.0%
! CTGCTTAAAATATGCTGCTT+AGG - Chr5:54722086-54722105 MsG0580027151.01.T01:intron 35.0%
! GAAGTATCAAGTTTCTTACC+TGG + Chr5:54722834-54722853 None:intergenic 35.0%
! GTTTCTCGAATGGTTTTCTT+AGG + Chr5:54722410-54722429 None:intergenic 35.0%
!! TCTCATTCTCTAGTATTGGT+CGG + Chr5:54723291-54723310 None:intergenic 35.0%
AACATCATATGCAAGAGCTG+AGG - Chr5:54722987-54723006 MsG0580027151.01.T01:CDS 40.0%
AAGACTTATCCCACTAAGTG+GGG + Chr5:54722518-54722537 None:intergenic 40.0%
ACACCTTGATTATCGATCCA+TGG - Chr5:54722787-54722806 MsG0580027151.01.T01:intron 40.0%
ACCTTGATTATCGATCCATG+GGG - Chr5:54722789-54722808 MsG0580027151.01.T01:intron 40.0%
AGAGAAGATGCCTATTGCTA+AGG - Chr5:54723239-54723258 MsG0580027151.01.T01:intron 40.0%
CAAGACTTATCCCACTAAGT+GGG + Chr5:54722519-54722538 None:intergenic 40.0%
CACCTTGATTATCGATCCAT+GGG - Chr5:54722788-54722807 MsG0580027151.01.T01:intron 40.0%
CCTAGCAATACTTCTCTTCT+CGG - Chr5:54722254-54722273 MsG0580027151.01.T01:intron 40.0%
CTTCCTTTGCTGAAACGAAA+AGG + Chr5:54723424-54723443 None:intergenic 40.0%
GTTGCAGTAGACAGTCATAT+TGG - Chr5:54721958-54721977 MsG0580027151.01.T01:CDS 40.0%
GTTTCAGATCGTTTGTCTAC+GGG - Chr5:54723171-54723190 MsG0580027151.01.T01:intron 40.0%
TGTAATACACCCCACTTAGT+GGG + Chr5:54723086-54723105 None:intergenic 40.0%
TTAATACCTGTGCTCCATGT+TGG + Chr5:54722049-54722068 None:intergenic 40.0%
! AAAGGAAGCCATTTGACTTC+TGG - Chr5:54723436-54723455 MsG0580027151.01.T01:CDS 40.0%
! GTACCTTTTCGTTTCAGCAA+AGG - Chr5:54723418-54723437 MsG0580027151.01.T01:CDS 40.0%
!! CTCATTCTCTAGTATTGGTC+GGG + Chr5:54723290-54723309 None:intergenic 40.0%
ACAGGACAGCAAAAACAACC+AGG - Chr5:54723054-54723073 MsG0580027151.01.T01:intron 45.0%
AGACAGTCATATTGGGCGTT+TGG - Chr5:54721966-54721985 MsG0580027151.01.T01:intron 45.0%
CCAAGACTTATCCCACTAAG+TGG + Chr5:54722520-54722539 None:intergenic 45.0%
CCACTTAGTGGGATAAGTCT+TGG - Chr5:54722517-54722536 MsG0580027151.01.T01:intron 45.0%
CCTTGATTATCGATCCATGG+GGG - Chr5:54722790-54722809 MsG0580027151.01.T01:intron 45.0%
CGCAACAACTGATAAAGCTC+AGG + Chr5:54722021-54722040 None:intergenic 45.0%
CTGCAGGCACCAATAGTATA+TGG + Chr5:54722141-54722160 None:intergenic 45.0%
CTGTAATACACCCCACTTAG+TGG + Chr5:54723087-54723106 None:intergenic 45.0%
GACAGTCATATTGGGCGTTT+GGG - Chr5:54721967-54721986 MsG0580027151.01.T01:intron 45.0%
GCAGCATTCACTAAAGTGAC+TGG - Chr5:54722157-54722176 MsG0580027151.01.T01:CDS 45.0%
GCAGCTTTCCAGAAGTCAAA+TGG + Chr5:54723447-54723466 None:intergenic 45.0%
TCGTTTGTCTACGGGAATTG+TGG - Chr5:54723179-54723198 MsG0580027151.01.T01:intron 45.0%
! GTCACTTTAGTGAATGCTGC+AGG + Chr5:54722157-54722176 None:intergenic 45.0%
!! CCGAGAAGAGAAGTATTGCT+AGG + Chr5:54722257-54722276 None:intergenic 45.0%
AAGTGACTGGTGAAGCGCAT+TGG - Chr5:54722170-54722189 MsG0580027151.01.T01:CDS 50.0%
ACACCCCACTTAGTGGGAAA+AGG + Chr5:54723080-54723099 None:intergenic 50.0%
ACCTGGTAAGCGACCAACAA+CGG + Chr5:54722817-54722836 None:intergenic 50.0%
AGTGACTGGTGAAGCGCATT+GGG - Chr5:54722171-54722190 MsG0580027151.01.T01:CDS 50.0%
ATGGCTTACCTCAGGGAGAT+GGG - Chr5:54723016-54723035 MsG0580027151.01.T01:intron 50.0%
CCCCCATGGATCGATAATCA+AGG + Chr5:54722793-54722812 None:intergenic 50.0%
CTTATCCCACTAAGTGGGGT+CGG + Chr5:54722514-54722533 None:intergenic 50.0%
GCCTCATATGGCTTACCTCA+GGG - Chr5:54723009-54723028 MsG0580027151.01.T01:intron 50.0%
GTTGTTGCGCGTTTCCAACA+TGG - Chr5:54722032-54722051 MsG0580027151.01.T01:intron 50.0%
TATGGCTTACCTCAGGGAGA+TGG - Chr5:54723015-54723034 MsG0580027151.01.T01:intron 50.0%
TCCCTGAGGTAAGCCATATG+AGG + Chr5:54723013-54723032 None:intergenic 50.0%
TTGTCATTGTGTGTGCCAGC+TGG + Chr5:54722750-54722769 None:intergenic 50.0%
! AGGCCTTTTCCCACTAAGTG+GGG - Chr5:54723074-54723093 MsG0580027151.01.T01:intron 50.0%
! CAGGCCTTTTCCCACTAAGT+GGG - Chr5:54723073-54723092 MsG0580027151.01.T01:intron 50.0%
! GGGGAAGGAGTGTGTATTAC+AGG - Chr5:54723036-54723055 MsG0580027151.01.T01:intron 50.0%
ACCGTTGTTGGTCGCTTACC+AGG - Chr5:54722813-54722832 MsG0580027151.01.T01:intron 55.0%
ACTAAGTGGGGTCGGCTACA+TGG + Chr5:54722506-54722525 None:intergenic 55.0%
ATGTAGCCGACCCCACTTAG+TGG - Chr5:54722505-54722524 MsG0580027151.01.T01:intron 55.0%
CCACTTAGTGGGAAAAGGCC+TGG + Chr5:54723075-54723094 None:intergenic 55.0%
GCAAGAGCTGAGGCCTCATA+TGG - Chr5:54722997-54723016 MsG0580027151.01.T01:intron 55.0%
GCGTTTCCAACATGGAGCAC+AGG - Chr5:54722040-54722059 MsG0580027151.01.T01:intron 55.0%
GGCCTCATATGGCTTACCTC+AGG - Chr5:54723008-54723027 MsG0580027151.01.T01:intron 55.0%
TGGCTTACCTCAGGGAGATG+GGG - Chr5:54723017-54723036 MsG0580027151.01.T01:intron 55.0%
TGTAGCCGACCCCACTTAGT+GGG - Chr5:54722506-54722525 MsG0580027151.01.T01:intron 55.0%
TTACCTCAGGGAGATGGGGA+AGG - Chr5:54723021-54723040 MsG0580027151.01.T01:intron 55.0%
! CCAGGCCTTTTCCCACTAAG+TGG - Chr5:54723072-54723091 MsG0580027151.01.T01:intron 55.0%
ACTCCTTCCCCATCTCCCTG+AGG + Chr5:54723027-54723046 None:intergenic 60.0%
GATCCATGGGGGACCGTTGT+TGG - Chr5:54722801-54722820 MsG0580027151.01.T01:intron 60.0%
CGACCAACAACGGTCCCCCA+TGG + Chr5:54722807-54722826 None:intergenic 65.0%
GTCATAGCTGCTGCGCCAGC+TGG - Chr5:54722732-54722751 MsG0580027151.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 54721937 54723476 54721937 ID=MsG0580027151.01;Name=MsG0580027151.01
Chr5 mRNA 54721937 54723476 54721937 ID=MsG0580027151.01.T01;Parent=MsG0580027151.01;Name=MsG0580027151.01.T01;_AED=0.25;_eAED=0.26;_QI=0|0|0|0.8|0.75|0.6|5|0|140
Chr5 exon 54723352 54723476 54723352 ID=MsG0580027151.01.T01:exon:41372;Parent=MsG0580027151.01.T01
Chr5 exon 54722941 54723010 54722941 ID=MsG0580027151.01.T01:exon:41371;Parent=MsG0580027151.01.T01
Chr5 exon 54722579 54722681 54722579 ID=MsG0580027151.01.T01:exon:41370;Parent=MsG0580027151.01.T01
Chr5 exon 54722153 54722235 54722153 ID=MsG0580027151.01.T01:exon:41369;Parent=MsG0580027151.01.T01
Chr5 exon 54721937 54721978 54721937 ID=MsG0580027151.01.T01:exon:41368;Parent=MsG0580027151.01.T01
Chr5 CDS 54723352 54723476 54723352 ID=MsG0580027151.01.T01:cds;Parent=MsG0580027151.01.T01
Chr5 CDS 54722941 54723010 54722941 ID=MsG0580027151.01.T01:cds;Parent=MsG0580027151.01.T01
Chr5 CDS 54722579 54722681 54722579 ID=MsG0580027151.01.T01:cds;Parent=MsG0580027151.01.T01
Chr5 CDS 54722153 54722235 54722153 ID=MsG0580027151.01.T01:cds;Parent=MsG0580027151.01.T01
Chr5 CDS 54721937 54721978 54721937 ID=MsG0580027151.01.T01:cds;Parent=MsG0580027151.01.T01
Gene Sequence

>MsG0580027151.01.T01

ATGTTTTCAGGCAAGGATATTGTTGCAGTAGACAGTCATATTGGGCGTTTGGGCCTTAGTGTTTGCTATGATTTGAGATTTCCTGAGCTTTATCAGTTGTTGCGCGTTTCCAACATGGAGCACAGAAGACCTAAGAAAACCATTCGAGAAACCATTAGAAAAGATTTAGAGGTCAATGAGTTGGATCCAAATATGGTCATAGCTGCTGCGCCAGCTGGCACACACAATGACAAAAGAGAAAGTTATGGTGACACCTTGATTATCGATCCATGGGGGACCGTTGTTGGTCGCTTACCAGATCGTTTGTCTACGGGAATTGTGGTAGCTGATATTGATTTATCATTAGTTGATTCAGTAAGAGAGAAGATGCCTATTGCTAAGCAAAGGAAGCCATTTGACTTCTGGAAAGCTGCTTCTCTATAG
Protein sequence

>MsG0580027151.01.T01

MFSGKDIVAVDSHIGRLGLSVCYDLRFPELYQLLRVSNMEHRRPKKTIRETIRKDLEVNELDPNMVIAAAPAGTHNDKRESYGDTLIIDPWGTVVGRLPDRLSTGIVVADIDLSLVDSVREKMPIAKQRKPFDFWKAASL*