AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023726.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023726.01.T01 MTR_8g099965 94.186 86 2 1 1 83 1 86 4.52e-51 155
MsG0480023726.01.T01 MTR_8g027380 61.905 42 16 0 3 44 8 49 6.15e-13 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023726.01.T01 AT4G10810 62.500 48 18 0 4 51 16 63 3.06e-13 59.3

Find 32 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAACTTCTCTTTAGATATC+AGG 0.264418 4:-89037797 None:intergenic
TTCCGCTTTCTTCTCTTCCT+TGG 0.296008 4:+89037854 MsG0480023726.01.T01:CDS
TCATCGTCTTCGTCGTTATC+AGG 0.344564 4:-89037915 None:intergenic
GGAGGTTGGTGATATCGTTT+GGG 0.357316 4:-89038001 None:intergenic
GGGAGGTTGGTGATATCGTT+TGG 0.364836 4:-89038002 None:intergenic
GATCAGATGGCAACCTGGGT+GGG 0.426814 4:+89037819 MsG0480023726.01.T01:CDS
GGGGTCTTAACGGAGGGATC+AGG 0.428723 4:-89037981 None:intergenic
GGTGGTGGTGGTGACGGAGT+CGG 0.448510 4:-89037943 None:intergenic
ATCAGATGGCAACCTGGGTG+GGG 0.454986 4:+89037820 MsG0480023726.01.T01:CDS
CCTGATATCTAAAGAGAAGT+TGG 0.455522 4:+89037797 MsG0480023726.01.T01:CDS
GTTGACGGTGGTGGTGGTGG+TGG 0.455838 4:-89037955 None:intergenic
ATTGTTGACGGTGGTGGTGG+TGG 0.457641 4:-89037958 None:intergenic
ATCAGGATTGTTGACGGTGG+TGG 0.467123 4:-89037964 None:intergenic
GATATCGTTTGGGGTCTTAA+CGG 0.478557 4:-89037991 None:intergenic
AGGATTGTTGACGGTGGTGG+TGG 0.495328 4:-89037961 None:intergenic
TAAAGAGAAGTTGGATCAGA+TGG 0.515604 4:+89037806 MsG0480023726.01.T01:CDS
AGAGAAGAAAGCGGAAGAGA+CGG 0.533991 4:-89037847 None:intergenic
AGTTGGATCAGATGGCAACC+TGG 0.543370 4:+89037814 MsG0480023726.01.T01:CDS
GACGCAAGAAAAGCGTTCCA+AGG 0.548791 4:-89037871 None:intergenic
GGATCAGATGGCAACCTGGG+TGG 0.570514 4:+89037818 MsG0480023726.01.T01:CDS
GAAGAAAGCGGAAGAGACGG+TGG 0.578991 4:-89037844 None:intergenic
GTTGGATCAGATGGCAACCT+GGG 0.581479 4:+89037815 MsG0480023726.01.T01:CDS
GGAGGGATCAGGATTGTTGA+CGG 0.583608 4:-89037970 None:intergenic
TCGTTTGGGGTCTTAACGGA+GGG 0.589276 4:-89037987 None:intergenic
ATCGTTTGGGGTCTTAACGG+AGG 0.613773 4:-89037988 None:intergenic
AGAGACGGTGGACCCCACCC+AGG 0.649497 4:-89037832 None:intergenic
TCGTCTTCGTCGTTATCAGG+AGG 0.685685 4:-89037912 None:intergenic
TTCCAAGGAAGAGAAGAAAG+CGG 0.690072 4:-89037856 None:intergenic
GTTATCAGGAGGATCAGAAG+TGG 0.695959 4:-89037901 None:intergenic
GAGGTTGGTGATATCGTTTG+GGG 0.715129 4:-89038000 None:intergenic
GGGATCAGGATTGTTGACGG+TGG 0.721497 4:-89037967 None:intergenic
TCGACCACGATGGAGAACAA+CGG 0.739992 4:+89037771 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CCAACTTCTCTTTAGATATC+AGG - Chr4:89037800-89037819 None:intergenic 35.0%
CCTGATATCTAAAGAGAAGT+TGG + Chr4:89037797-89037816 MsG0480023726.01.T01:CDS 35.0%
TAAAGAGAAGTTGGATCAGA+TGG + Chr4:89037806-89037825 MsG0480023726.01.T01:CDS 35.0%
TTCCAAGGAAGAGAAGAAAG+CGG - Chr4:89037859-89037878 None:intergenic 40.0%
! GATATCGTTTGGGGTCTTAA+CGG - Chr4:89037994-89038013 None:intergenic 40.0%
AGAGAAGAAAGCGGAAGAGA+CGG - Chr4:89037850-89037869 None:intergenic 45.0%
GTTATCAGGAGGATCAGAAG+TGG - Chr4:89037904-89037923 None:intergenic 45.0%
TCATCGTCTTCGTCGTTATC+AGG - Chr4:89037918-89037937 None:intergenic 45.0%
TTCCGCTTTCTTCTCTTCCT+TGG + Chr4:89037854-89037873 MsG0480023726.01.T01:CDS 45.0%
!! GAGGTTGGTGATATCGTTTG+GGG - Chr4:89038003-89038022 None:intergenic 45.0%
!! GGAGGTTGGTGATATCGTTT+GGG - Chr4:89038004-89038023 None:intergenic 45.0%
AGTTGGATCAGATGGCAACC+TGG + Chr4:89037814-89037833 MsG0480023726.01.T01:CDS 50.0%
ATCAGGATTGTTGACGGTGG+TGG - Chr4:89037967-89037986 None:intergenic 50.0%
GGAGGGATCAGGATTGTTGA+CGG - Chr4:89037973-89037992 None:intergenic 50.0%
GTTGGATCAGATGGCAACCT+GGG + Chr4:89037815-89037834 MsG0480023726.01.T01:CDS 50.0%
TCGTCTTCGTCGTTATCAGG+AGG - Chr4:89037915-89037934 None:intergenic 50.0%
! ATCGTTTGGGGTCTTAACGG+AGG - Chr4:89037991-89038010 None:intergenic 50.0%
! TCGTTTGGGGTCTTAACGGA+GGG - Chr4:89037990-89038009 None:intergenic 50.0%
!! GACGCAAGAAAAGCGTTCCA+AGG - Chr4:89037874-89037893 None:intergenic 50.0%
!! GGGAGGTTGGTGATATCGTT+TGG - Chr4:89038005-89038024 None:intergenic 50.0%
ATCAGATGGCAACCTGGGTG+GGG + Chr4:89037820-89037839 MsG0480023726.01.T01:CDS 55.0%
GAAGAAAGCGGAAGAGACGG+TGG - Chr4:89037847-89037866 None:intergenic 55.0%
GATCAGATGGCAACCTGGGT+GGG + Chr4:89037819-89037838 MsG0480023726.01.T01:CDS 55.0%
GGGATCAGGATTGTTGACGG+TGG - Chr4:89037970-89037989 None:intergenic 55.0%
! AGGATTGTTGACGGTGGTGG+TGG - Chr4:89037964-89037983 None:intergenic 55.0%
!! ATTGTTGACGGTGGTGGTGG+TGG - Chr4:89037961-89037980 None:intergenic 55.0%
GGATCAGATGGCAACCTGGG+TGG + Chr4:89037818-89037837 MsG0480023726.01.T01:CDS 60.0%
GGGGTCTTAACGGAGGGATC+AGG - Chr4:89037984-89038003 None:intergenic 60.0%
!! GGTGGTGGTGGTGACGGAGT+CGG - Chr4:89037946-89037965 None:intergenic 65.0%
!! GGTGGTGGTGGTGGTGGTGA+CGG - Chr4:89037952-89037971 None:intergenic 65.0%
!! GTTGACGGTGGTGGTGGTGG+TGG - Chr4:89037958-89037977 None:intergenic 65.0%
AGAGACGGTGGACCCCACCC+AGG - Chr4:89037835-89037854 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr4 gene 89037780 89038031 89037780 ID=MsG0480023726.01;Name=MsG0480023726.01
Chr4 mRNA 89037780 89038031 89037780 ID=MsG0480023726.01.T01;Parent=MsG0480023726.01;Name=MsG0480023726.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|0|1|0|83
Chr4 exon 89037780 89038031 89037780 ID=MsG0480023726.01.T01:exon:10064;Parent=MsG0480023726.01.T01
Chr4 CDS 89037780 89038031 89037780 ID=MsG0480023726.01.T01:cds;Parent=MsG0480023726.01.T01
Gene Sequence

>MsG0480023726.01.T01

ATGGAGAACAACGGCAGCCTGATATCTAAAGAGAAGTTGGATCAGATGGCAACCTGGGTGGGGTCCACCGTCTCTTCCGCTTTCTTCTCTTCCTTGGAACGCTTTTCTTGCGTCAACGTCACCACTTCTGATCCTCCTGATAACGACGAAGACGATGATTACTCCGACTCCGTCACCACCACCACCACCACCGTCAACAATCCTGATCCCTCCGTTAAGACCCCAAACGATATCACCAACCTCCCCGTTTGA
Protein sequence

>MsG0480023726.01.T01

MENNGSLISKEKLDQMATWVGSTVSSAFFSSLERFSCVNVTTSDPPDNDEDDDYSDSVTTTTTTVNNPDPSVKTPNDITNLPV*