AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046372.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046372.01.T01 MTR_4g106500 96.341 82 3 0 1 82 1 82 8.96e-54 161
MsG0880046372.01.T01 MTR_3g078420 58.667 75 26 1 8 82 2 71 4.70e-23 84.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046372.01.T01 AT1G19020 51.190 84 29 1 11 82 3 86 6.33e-21 79.0
MsG0880046372.01.T01 AT3G48180 49.315 73 34 1 13 82 5 77 9.52e-17 68.2

Find 38 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGTGCTCTTGTTGTTAT+TGG 0.179301 8:-72531861 None:intergenic
ACAAAATACAAGGAAAAGTT+TGG 0.284148 8:+72531881 MsG0880046372.01.T01:CDS
TTATTGGAATCAGCCATAAT+AGG 0.312346 8:-72531845 None:intergenic
GAAAAGTTTGGGGAAGGTTT+AGG 0.320246 8:+72531893 MsG0880046372.01.T01:CDS
TACCGGCATGAAGAAATTAA+AGG 0.332871 8:+72531937 MsG0880046372.01.T01:CDS
GTGGGTTGCTTTGGAATACT+TGG 0.345314 8:-72531993 None:intergenic
CAATGGTCCAGACCCTATTA+TGG 0.353074 8:+72531832 MsG0880046372.01.T01:CDS
CTAATGTTTGTGGGTTGCTT+TGG 0.388855 8:-72532002 None:intergenic
ACAACTCATATGGAACTTCT+TGG 0.397183 8:+72531795 MsG0880046372.01.T01:CDS
TATTGGAATCAGCCATAATA+GGG 0.397892 8:-72531844 None:intergenic
CAAAATACAAGGAAAAGTTT+GGG 0.405266 8:+72531882 MsG0880046372.01.T01:CDS
GCCGGTAGAGGCCACTCCTT+TGG 0.408552 8:-72531921 None:intergenic
AACTTCTTGGGCAGACCAAT+GGG 0.421587 8:+72531808 MsG0880046372.01.T01:CDS
TTCAAGTGGCCTAATGTTTG+TGG 0.428149 8:-72532012 None:intergenic
GATCGAGAAGCTATGAATCA+TGG 0.429381 8:+72531764 None:intergenic
CAAAGCAACCCACAAACATT+AGG 0.435621 8:+72532003 MsG0880046372.01.T01:CDS
GTACCTCCGTTGGTCTCCAC+TGG 0.465014 8:+72531963 MsG0880046372.01.T01:CDS
CAACTCATATGGAACTTCTT+GGG 0.471518 8:+72531796 MsG0880046372.01.T01:CDS
GAATCAGCCATAATAGGGTC+TGG 0.473048 8:-72531839 None:intergenic
TAATTTCTTCATGCCGGTAG+AGG 0.479079 8:-72531933 None:intergenic
TCAAGTGGCCTAATGTTTGT+GGG 0.479152 8:-72532011 None:intergenic
GGGAACGTGTACAACTCATA+TGG 0.488966 8:+72531785 MsG0880046372.01.T01:CDS
ATCCTTTAATTTCTTCATGC+CGG 0.489002 8:-72531939 None:intergenic
GGTCTGGACCATTGTCCCAT+TGG 0.508170 8:-72531823 None:intergenic
TACAAGGAAAAGTTTGGGGA+AGG 0.508494 8:+72531887 MsG0880046372.01.T01:CDS
CAAGAGCACAACAAAATACA+AGG 0.510800 8:+72531871 MsG0880046372.01.T01:CDS
ACCAAAGGAGTGGCCTCTAC+CGG 0.512295 8:+72531920 MsG0880046372.01.T01:CDS
GAACTTCTTGGGCAGACCAA+TGG 0.517353 8:+72531807 MsG0880046372.01.T01:CDS
TTAAAGGATGGTACCTCCGT+TGG 0.550313 8:+72531953 MsG0880046372.01.T01:CDS
ATCGAGAAGCTATGAATCAT+GGG 0.552479 8:+72531765 None:intergenic
AATACTTGGTCTTGATCCAG+TGG 0.607221 8:-72531979 None:intergenic
TGGGCAGACCAATGGGACAA+TGG 0.622726 8:+72531815 MsG0880046372.01.T01:CDS
GGCATGAAGAAATTAAAGGA+TGG 0.633082 8:+72531941 MsG0880046372.01.T01:CDS
CTTGATCCAGTGGAGACCAA+CGG 0.641791 8:-72531969 None:intergenic
AAAATACAAGGAAAAGTTTG+GGG 0.653159 8:+72531883 MsG0880046372.01.T01:CDS
TTTAGGTAAGACCAAAGGAG+TGG 0.684327 8:+72531910 MsG0880046372.01.T01:CDS
GAAGGTTTAGGTAAGACCAA+AGG 0.687581 8:+72531905 MsG0880046372.01.T01:CDS
GATCCAGTGGAGACCAACGG+AGG 0.758119 8:-72531966 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAATACAAGGAAAAGTTTG+GGG + Chr8:72531883-72531902 MsG0880046372.01.T01:CDS 25.0%
! ACAAAATACAAGGAAAAGTT+TGG + Chr8:72531881-72531900 MsG0880046372.01.T01:CDS 25.0%
! CAAAATACAAGGAAAAGTTT+GGG + Chr8:72531882-72531901 MsG0880046372.01.T01:CDS 25.0%
TATTGGAATCAGCCATAATA+GGG - Chr8:72531847-72531866 None:intergenic 30.0%
TTATTGGAATCAGCCATAAT+AGG - Chr8:72531848-72531867 None:intergenic 30.0%
! ATCCTTTAATTTCTTCATGC+CGG - Chr8:72531942-72531961 None:intergenic 30.0%
ACAACTCATATGGAACTTCT+TGG + Chr8:72531795-72531814 MsG0880046372.01.T01:CDS 35.0%
CAACTCATATGGAACTTCTT+GGG + Chr8:72531796-72531815 MsG0880046372.01.T01:CDS 35.0%
GGCATGAAGAAATTAAAGGA+TGG + Chr8:72531941-72531960 MsG0880046372.01.T01:CDS 35.0%
TACCGGCATGAAGAAATTAA+AGG + Chr8:72531937-72531956 MsG0880046372.01.T01:CDS 35.0%
! CAAGAGCACAACAAAATACA+AGG + Chr8:72531871-72531890 MsG0880046372.01.T01:CDS 35.0%
!! TGTTGTGCTCTTGTTGTTAT+TGG - Chr8:72531864-72531883 None:intergenic 35.0%
GAAAAGTTTGGGGAAGGTTT+AGG + Chr8:72531893-72531912 MsG0880046372.01.T01:CDS 40.0%
GAAGGTTTAGGTAAGACCAA+AGG + Chr8:72531905-72531924 MsG0880046372.01.T01:CDS 40.0%
TAATTTCTTCATGCCGGTAG+AGG - Chr8:72531936-72531955 None:intergenic 40.0%
TACAAGGAAAAGTTTGGGGA+AGG + Chr8:72531887-72531906 MsG0880046372.01.T01:CDS 40.0%
TTTAGGTAAGACCAAAGGAG+TGG + Chr8:72531910-72531929 MsG0880046372.01.T01:CDS 40.0%
! CTAATGTTTGTGGGTTGCTT+TGG - Chr8:72532005-72532024 None:intergenic 40.0%
!! AATACTTGGTCTTGATCCAG+TGG - Chr8:72531982-72532001 None:intergenic 40.0%
AACTTCTTGGGCAGACCAAT+GGG + Chr8:72531808-72531827 MsG0880046372.01.T01:CDS 45.0%
CAATGGTCCAGACCCTATTA+TGG + Chr8:72531832-72531851 MsG0880046372.01.T01:CDS 45.0%
GAATCAGCCATAATAGGGTC+TGG - Chr8:72531842-72531861 None:intergenic 45.0%
GGGAACGTGTACAACTCATA+TGG + Chr8:72531785-72531804 MsG0880046372.01.T01:CDS 45.0%
TTAAAGGATGGTACCTCCGT+TGG + Chr8:72531953-72531972 MsG0880046372.01.T01:CDS 45.0%
!! GTGGGTTGCTTTGGAATACT+TGG - Chr8:72531996-72532015 None:intergenic 45.0%
CTTGATCCAGTGGAGACCAA+CGG - Chr8:72531972-72531991 None:intergenic 50.0%
GAACTTCTTGGGCAGACCAA+TGG + Chr8:72531807-72531826 MsG0880046372.01.T01:CDS 50.0%
ACCAAAGGAGTGGCCTCTAC+CGG + Chr8:72531920-72531939 MsG0880046372.01.T01:CDS 55.0%
GGTCTGGACCATTGTCCCAT+TGG - Chr8:72531826-72531845 None:intergenic 55.0%
TGGGCAGACCAATGGGACAA+TGG + Chr8:72531815-72531834 MsG0880046372.01.T01:CDS 55.0%
GATCCAGTGGAGACCAACGG+AGG - Chr8:72531969-72531988 None:intergenic 60.0%
! GTACCTCCGTTGGTCTCCAC+TGG + Chr8:72531963-72531982 MsG0880046372.01.T01:CDS 60.0%
GCCGGTAGAGGCCACTCCTT+TGG - Chr8:72531924-72531943 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr8 gene 72531776 72532024 72531776 ID=MsG0880046372.01;Name=MsG0880046372.01
Chr8 mRNA 72531776 72532024 72531776 ID=MsG0880046372.01.T01;Parent=MsG0880046372.01;Name=MsG0880046372.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|82
Chr8 exon 72531776 72532024 72531776 ID=MsG0880046372.01.T01:exon:28262;Parent=MsG0880046372.01.T01
Chr8 CDS 72531776 72532024 72531776 ID=MsG0880046372.01.T01:cds;Parent=MsG0880046372.01.T01
Gene Sequence

>MsG0880046372.01.T01

ATGAATCATGGGAACGTGTACAACTCATATGGAACTTCTTGGGCAGACCAATGGGACAATGGTCCAGACCCTATTATGGCTGATTCCAATAACAACAAGAGCACAACAAAATACAAGGAAAAGTTTGGGGAAGGTTTAGGTAAGACCAAAGGAGTGGCCTCTACCGGCATGAAGAAATTAAAGGATGGTACCTCCGTTGGTCTCCACTGGATCAAGACCAAGTATTCCAAAGCAACCCACAAACATTAG
Protein sequence

>MsG0880046372.01.T01

MNHGNVYNSYGTSWADQWDNGPDPIMADSNNNKSTTKYKEKFGEGLGKTKGVASTGMKKLKDGTSVGLHWIKTKYSKATHKH*