AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021143.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021143.01.T01 MTR_4g067150 96.970 264 5 1 1 261 1 264 0.0 516
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021143.01.T01 AT3G59400 60.847 189 67 3 76 261 81 265 1.03e-75 231

Find 64 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTATGTTGGTGGGGTTGA+TGG 0.249835 4:+54265373 None:intergenic
GACCATAGTGACAACAAATT+TGG 0.281402 4:-54265080 MsG0480021143.01.T01:CDS
CCTTATTAAATAATTTCTTT+TGG 0.281882 4:+54265048 None:intergenic
CCAAAAGAAATTATTTAATA+AGG 0.285031 4:-54265048 MsG0480021143.01.T01:CDS
TTGTCTCTTCATCGGCTTCT+CGG 0.317241 4:+54265219 None:intergenic
GGTTGATGGTGGTTGGTTTG+AGG 0.356236 4:+54265387 None:intergenic
ATCCAAATTTGTTGTCACTA+TGG 0.367364 4:+54265078 None:intergenic
ATGGCGTGGAGGATGTTGTT+TGG 0.369809 4:+54265303 None:intergenic
GACGAAGTTGAAGTTTCATT+TGG 0.377430 4:-54264810 MsG0480021143.01.T01:CDS
TTGGTGGGGTTGATGGTGGT+TGG 0.383998 4:+54265380 None:intergenic
AGAAAATGTGATAGAGGAGT+TGG 0.385483 4:+54265331 None:intergenic
TGGAAGAGGAAGAGTGAGAG+AGG 0.386701 4:+54265351 None:intergenic
TTTGGTAACACTGAAGGAAA+TGG 0.408657 4:-54264792 MsG0480021143.01.T01:CDS
TGGCGTGGAGGATGTTGTTT+GGG 0.430614 4:+54265304 None:intergenic
TTGAATTGAGTGAAGAGAAT+TGG 0.431834 4:+54265475 None:intergenic
TATGTTGGTGGGGTTGATGG+TGG 0.435437 4:+54265376 None:intergenic
TGAGAGAGGGTTATGTTGGT+GGG 0.442343 4:+54265365 None:intergenic
AGAGTGAGAGAGGGTTATGT+TGG 0.443722 4:+54265361 None:intergenic
GAAGAAGCTTGACACTGAAA+TGG 0.447244 4:-54264982 MsG0480021143.01.T01:CDS
CACTATGGTCCCTCCACAGC+TGG 0.452202 4:+54265093 None:intergenic
TCTGAGCTGCTTCGCCTGCT+AGG 0.457028 4:+54265180 None:intergenic
CTGGAGGAGTTCAAAGGAGC+TGG 0.460854 4:+54265265 None:intergenic
GGAGATAGAAAATGTGATAG+AGG 0.463312 4:+54265325 None:intergenic
CGTCTTCTCATCGTCCTAGC+AGG 0.467340 4:-54265194 MsG0480021143.01.T01:CDS
TGTGATAGAGGAGTTGGAAG+AGG 0.470211 4:+54265337 None:intergenic
TCCTGGACTGCATCAAAAGC+TGG 0.475555 4:+54264831 None:intergenic
CTTCACCAAGTTCTTCATCA+AGG 0.483845 4:-54265015 MsG0480021143.01.T01:CDS
GTGAGAGAGGGTTATGTTGG+TGG 0.487193 4:+54265364 None:intergenic
ACCAAGTTCTTCATCAAGGT+TGG 0.494609 4:-54265011 MsG0480021143.01.T01:CDS
AAAAGATTCATCAAAACCAT+TGG 0.496783 4:-54264754 MsG0480021143.01.T01:CDS
AGTTCTTCATCAAGGTTGGT+TGG 0.506590 4:-54265007 MsG0480021143.01.T01:CDS
GGCGAAGCAGCTCAGAAGCG+TGG 0.511684 4:-54265173 MsG0480021143.01.T01:CDS
AAGACGTCTTGTCTCTTCAT+CGG 0.512265 4:+54265211 None:intergenic
TTGAAGATCTTGGTAGCCAA+TGG 0.513830 4:+54264738 None:intergenic
GTTTCATTTGGTAACACTGA+AGG 0.518176 4:-54264798 MsG0480021143.01.T01:CDS
GTCAGAGGTAAATGACCCTC+TGG 0.526832 4:+54264900 None:intergenic
TTCAAAGGAGCTGGTTTGAG+AGG 0.533319 4:+54265274 None:intergenic
CTGGTTTGAGAGGTTGATGA+TGG 0.533734 4:+54265284 None:intergenic
ATGAAACTTCAACTTCGTCC+TGG 0.535529 4:+54264814 None:intergenic
GAAGGAAATGGAGCACTCAA+AGG 0.541600 4:-54264780 MsG0480021143.01.T01:CDS
GAGAGAGGGTTATGTTGGTG+GGG 0.544230 4:+54265366 None:intergenic
ACCAACCTTGATGAAGAACT+TGG 0.545583 4:+54265010 None:intergenic
AAATGGAGCAATATAACTAC+AGG 0.552072 4:-54264965 MsG0480021143.01.T01:CDS
GGAAGAGGAAGAGTGAGAGA+GGG 0.558791 4:+54265352 None:intergenic
AAGGAAATGGAGCACTCAAA+GGG 0.561615 4:-54264779 MsG0480021143.01.T01:CDS
AAACAATTGACCAGCTGTGG+AGG 0.563830 4:-54265103 MsG0480021143.01.T01:CDS
AGTGAGGATGAAAGTGTGGA+TGG 0.569347 4:+54265413 None:intergenic
TGGCTGAGAGATGCTGCTGG+AGG 0.581059 4:+54265249 None:intergenic
TCAAAACAATTGACCAGCTG+TGG 0.581708 4:-54265106 MsG0480021143.01.T01:CDS
GATGGAGGAGCAGTTTCAGA+AGG 0.587635 4:+54265431 None:intergenic
GAGGATGAAAGTGTGGATGG+AGG 0.603905 4:+54265416 None:intergenic
TTGAGAGGTTGATGATGGCG+TGG 0.604696 4:+54265289 None:intergenic
CCTCTGAGTGCATTTGTCAG+AGG 0.605940 4:+54264885 None:intergenic
ATGCTGCTGGAGGAGTTCAA+AGG 0.611446 4:+54265259 None:intergenic
AACAATTGACCAGCTGTGGA+GGG 0.613807 4:-54265102 MsG0480021143.01.T01:CDS
GGACTGCATCAAAAGCTGGA+TGG 0.636421 4:+54264835 None:intergenic
GAAAAGTGAGGATGAAAGTG+TGG 0.636789 4:+54265409 None:intergenic
CTCAATGATGACACTCCAGA+GGG 0.646176 4:-54264915 MsG0480021143.01.T01:CDS
AGCTCCCATATAAACTCCGT+AGG 0.660834 4:+54264936 None:intergenic
ATGGAGGAGCAGTTTCAGAA+GGG 0.662815 4:+54265432 None:intergenic
AGAGGTTGATGATGGCGTGG+AGG 0.664388 4:+54265292 None:intergenic
GCTCAATGATGACACTCCAG+AGG 0.675722 4:-54264916 MsG0480021143.01.T01:CDS
GGTTGGTTTGAGGAAAAGTG+AGG 0.680158 4:+54265397 None:intergenic
CCTCTGACAAATGCACTCAG+AGG 0.721539 4:-54264885 MsG0480021143.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CCAAAAGAAATTATTTAATA+AGG - Chr4:54265153-54265172 MsG0480021143.01.T01:CDS 15.0%
!!! CCTTATTAAATAATTTCTTT+TGG + Chr4:54265156-54265175 None:intergenic 15.0%
! AAAAGATTCATCAAAACCAT+TGG - Chr4:54265447-54265466 MsG0480021143.01.T01:CDS 25.0%
AAATGGAGCAATATAACTAC+AGG - Chr4:54265236-54265255 MsG0480021143.01.T01:CDS 30.0%
TTGAATTGAGTGAAGAGAAT+TGG + Chr4:54264729-54264748 None:intergenic 30.0%
! TTTTCCTACGGAGTTTATAT+GGG - Chr4:54265261-54265280 MsG0480021143.01.T01:CDS 30.0%
!! ATCCAAATTTGTTGTCACTA+TGG + Chr4:54265126-54265145 None:intergenic 30.0%
!!! ATAGTCTGTTTTGAAGATCT+TGG + Chr4:54265476-54265495 None:intergenic 30.0%
AGAAAATGTGATAGAGGAGT+TGG + Chr4:54264873-54264892 None:intergenic 35.0%
GACCATAGTGACAACAAATT+TGG - Chr4:54265121-54265140 MsG0480021143.01.T01:CDS 35.0%
GACGAAGTTGAAGTTTCATT+TGG - Chr4:54265391-54265410 MsG0480021143.01.T01:CDS 35.0%
GGAGATAGAAAATGTGATAG+AGG + Chr4:54264879-54264898 None:intergenic 35.0%
! CTTTTCCTACGGAGTTTATA+TGG - Chr4:54265260-54265279 MsG0480021143.01.T01:CDS 35.0%
! GTTTCATTTGGTAACACTGA+AGG - Chr4:54265403-54265422 MsG0480021143.01.T01:CDS 35.0%
! TAACTACAGGTCTTTTCCTA+CGG - Chr4:54265249-54265268 MsG0480021143.01.T01:CDS 35.0%
! TTTGGTAACACTGAAGGAAA+TGG - Chr4:54265409-54265428 MsG0480021143.01.T01:CDS 35.0%
AAGACGTCTTGTCTCTTCAT+CGG + Chr4:54264993-54265012 None:intergenic 40.0%
ACCAACCTTGATGAAGAACT+TGG + Chr4:54265194-54265213 None:intergenic 40.0%
ACCAAGTTCTTCATCAAGGT+TGG - Chr4:54265190-54265209 MsG0480021143.01.T01:CDS 40.0%
ATGAAACTTCAACTTCGTCC+TGG + Chr4:54265390-54265409 None:intergenic 40.0%
CTTCACCAAGTTCTTCATCA+AGG - Chr4:54265186-54265205 MsG0480021143.01.T01:CDS 40.0%
GAAAAGTGAGGATGAAAGTG+TGG + Chr4:54264795-54264814 None:intergenic 40.0%
GAAGAAGCTTGACACTGAAA+TGG - Chr4:54265219-54265238 MsG0480021143.01.T01:CDS 40.0%
TCAAAACAATTGACCAGCTG+TGG - Chr4:54265095-54265114 MsG0480021143.01.T01:CDS 40.0%
! AAGGAAATGGAGCACTCAAA+GGG - Chr4:54265422-54265441 MsG0480021143.01.T01:CDS 40.0%
! AGTTCTTCATCAAGGTTGGT+TGG - Chr4:54265194-54265213 MsG0480021143.01.T01:CDS 40.0%
! TGGCTATGTTTTCTTCTCAG+AGG - Chr4:54265048-54265067 MsG0480021143.01.T01:CDS 40.0%
! TTGAAGATCTTGGTAGCCAA+TGG + Chr4:54265466-54265485 None:intergenic 40.0%
!! ACAGCTGGTCAATTGTTTTG+AGG + Chr4:54265096-54265115 None:intergenic 40.0%
AAACAATTGACCAGCTGTGG+AGG - Chr4:54265098-54265117 MsG0480021143.01.T01:CDS 45.0%
AACAATTGACCAGCTGTGGA+GGG - Chr4:54265099-54265118 MsG0480021143.01.T01:CDS 45.0%
AGAGTGAGAGAGGGTTATGT+TGG + Chr4:54264843-54264862 None:intergenic 45.0%
AGCTCCCATATAAACTCCGT+AGG + Chr4:54265268-54265287 None:intergenic 45.0%
ATGGAGGAGCAGTTTCAGAA+GGG + Chr4:54264772-54264791 None:intergenic 45.0%
CTCAATGATGACACTCCAGA+GGG - Chr4:54265286-54265305 MsG0480021143.01.T01:CDS 45.0%
TGAGAGAGGGTTATGTTGGT+GGG + Chr4:54264839-54264858 None:intergenic 45.0%
TGTGATAGAGGAGTTGGAAG+AGG + Chr4:54264867-54264886 None:intergenic 45.0%
! AGTGAGGATGAAAGTGTGGA+TGG + Chr4:54264791-54264810 None:intergenic 45.0%
! GAAGGAAATGGAGCACTCAA+AGG - Chr4:54265421-54265440 MsG0480021143.01.T01:CDS 45.0%
!! ATCGGCTTCTCGGAAGTTTT+TGG + Chr4:54264975-54264994 None:intergenic 45.0%
!! CTGGTTTGAGAGGTTGATGA+TGG + Chr4:54264920-54264939 None:intergenic 45.0%
!! GGTTGGTTTGAGGAAAAGTG+AGG + Chr4:54264807-54264826 None:intergenic 45.0%
!! TTCAAAGGAGCTGGTTTGAG+AGG + Chr4:54264930-54264949 None:intergenic 45.0%
!! TTGTCTCTTCATCGGCTTCT+CGG + Chr4:54264985-54265004 None:intergenic 45.0%
ATGCTGCTGGAGGAGTTCAA+AGG + Chr4:54264945-54264964 None:intergenic 50.0%
ATGGCGTGGAGGATGTTGTT+TGG + Chr4:54264901-54264920 None:intergenic 50.0%
CCTCTGACAAATGCACTCAG+AGG - Chr4:54265316-54265335 MsG0480021143.01.T01:CDS 50.0%
CCTCTGAGTGCATTTGTCAG+AGG + Chr4:54265319-54265338 None:intergenic 50.0%
GAGAGAGGGTTATGTTGGTG+GGG + Chr4:54264838-54264857 None:intergenic 50.0%
GATGGAGGAGCAGTTTCAGA+AGG + Chr4:54264773-54264792 None:intergenic 50.0%
GCTCAATGATGACACTCCAG+AGG - Chr4:54265285-54265304 MsG0480021143.01.T01:CDS 50.0%
GGAAGAGGAAGAGTGAGAGA+GGG + Chr4:54264852-54264871 None:intergenic 50.0%
GGACTGCATCAAAAGCTGGA+TGG + Chr4:54265369-54265388 None:intergenic 50.0%
GTCAGAGGTAAATGACCCTC+TGG + Chr4:54265304-54265323 None:intergenic 50.0%
GTGAGAGAGGGTTATGTTGG+TGG + Chr4:54264840-54264859 None:intergenic 50.0%
TCCTGGACTGCATCAAAAGC+TGG + Chr4:54265373-54265392 None:intergenic 50.0%
TGGAAGAGGAAGAGTGAGAG+AGG + Chr4:54264853-54264872 None:intergenic 50.0%
! GAGGATGAAAGTGTGGATGG+AGG + Chr4:54264788-54264807 None:intergenic 50.0%
! GGTTATGTTGGTGGGGTTGA+TGG + Chr4:54264831-54264850 None:intergenic 50.0%
! TCCAGCTTTTGATGCAGTCC+AGG - Chr4:54265369-54265388 MsG0480021143.01.T01:CDS 50.0%
! TGGCGTGGAGGATGTTGTTT+GGG + Chr4:54264900-54264919 None:intergenic 50.0%
!! GGTTGATGGTGGTTGGTTTG+AGG + Chr4:54264817-54264836 None:intergenic 50.0%
!! TATGTTGGTGGGGTTGATGG+TGG + Chr4:54264828-54264847 None:intergenic 50.0%
!! TTGAGAGGTTGATGATGGCG+TGG + Chr4:54264915-54264934 None:intergenic 50.0%
!! TTTTGGCTGAGAGATGCTGC+TGG + Chr4:54264958-54264977 None:intergenic 50.0%
CGTCTTCTCATCGTCCTAGC+AGG - Chr4:54265007-54265026 MsG0480021143.01.T01:CDS 55.0%
CTGGAGGAGTTCAAAGGAGC+TGG + Chr4:54264939-54264958 None:intergenic 55.0%
!! AGAGGTTGATGATGGCGTGG+AGG + Chr4:54264912-54264931 None:intergenic 55.0%
!! TTGGTGGGGTTGATGGTGGT+TGG + Chr4:54264824-54264843 None:intergenic 55.0%
CACTATGGTCCCTCCACAGC+TGG + Chr4:54265111-54265130 None:intergenic 60.0%
TCTGAGCTGCTTCGCCTGCT+AGG + Chr4:54265024-54265043 None:intergenic 60.0%
TGGCTGAGAGATGCTGCTGG+AGG + Chr4:54264955-54264974 None:intergenic 60.0%
GGCGAAGCAGCTCAGAAGCG+TGG - Chr4:54265028-54265047 MsG0480021143.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 54264719 54265504 54264719 ID=MsG0480021143.01;Name=MsG0480021143.01
Chr4 mRNA 54264719 54265504 54264719 ID=MsG0480021143.01.T01;Parent=MsG0480021143.01;Name=MsG0480021143.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|261
Chr4 exon 54264719 54265504 54264719 ID=MsG0480021143.01.T01:exon:3116;Parent=MsG0480021143.01.T01
Chr4 CDS 54264719 54265504 54264719 ID=MsG0480021143.01.T01:cds;Parent=MsG0480021143.01.T01
Gene Sequence

>MsG0480021143.01.T01

ATGGCAACCAATTCTCTTCACTCAATTCAACATCATTCTCTCAGCAAACGCCCTTCTGAAACTGCTCCTCCATCCACACTTTCATCCTCACTTTTCCTCAAACCAACCACCATCAACCCCACCAACATAACCCTCTCTCACTCTTCCTCTTCCAACTCCTCTATCACATTTTCTATCTCCCAAACAACATCCTCCACGCCATCATCAACCTCTCAAACCAGCTCCTTTGAACTCCTCCAGCAGCATCTCTCAGCCAAAAACTTCCGAGAAGCCGATGAAGAGACAAGACGTCTTCTCATCGTCCTAGCAGGCGAAGCAGCTCAGAAGCGTGGCTATGTTTTCTTCTCAGAGGTTCAGTTCATCTCAGAAGCAGACCTCAAAACAATTGACCAGCTGTGGAGGGACCATAGTGACAACAAATTTGGATACAGTGTCCAAAAGAAATTATTTAATAAGGCTAAAAAAGACTTCACCAAGTTCTTCATCAAGGTTGGTTGGATGAAGAAGCTTGACACTGAAATGGAGCAATATAACTACAGGTCTTTTCCTACGGAGTTTATATGGGAGCTCAATGATGACACTCCAGAGGGTCATTTACCTCTGACAAATGCACTCAGAGGAACACAGTTGCTAAGTTATATTTTTAACCATCCAGCTTTTGATGCAGTCCAGGACGAAGTTGAAGTTTCATTTGGTAACACTGAAGGAAATGGAGCACTCAAAGGGTTAAAAGATTCATCAAAACCATTGGCTACCAAGATCTTCAAAACAGACTATAGTTTCTGA

Protein sequence

>MsG0480021143.01.T01

MATNSLHSIQHHSLSKRPSETAPPSTLSSSLFLKPTTINPTNITLSHSSSSNSSITFSISQTTSSTPSSTSQTSSFELLQQHLSAKNFREADEETRRLLIVLAGEAAQKRGYVFFSEVQFISEADLKTIDQLWRDHSDNKFGYSVQKKLFNKAKKDFTKFFIKVGWMKKLDTEMEQYNYRSFPTEFIWELNDDTPEGHLPLTNALRGTQLLSYIFNHPAFDAVQDEVEVSFGNTEGNGALKGLKDSSKPLATKIFKTDYSF*