AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048969.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048969.01.T01 MTR_2g086590 91.985 262 20 1 1 262 1 261 1.32e-169 469
MsG0080048969.01.T01 MTR_4g052880 38.961 231 114 8 1 220 1 215 1.75e-33 122
MsG0080048969.01.T01 MTR_7g113950 38.406 138 78 3 112 247 106 238 4.93e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048969.01.T01 AT5G22390 33.621 232 93 7 1 221 1 182 1.81e-21 89.7
MsG0080048969.01.T01 AT1G54740 33.043 115 74 2 106 219 33 145 7.32e-12 64.7

Find 69 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTCCTGATGATGAGTTTC+TGG 0.094474 contig578end:+8949 MsG0080048969.01.T01:CDS
GGAAGCCTTGGGTTTATTTC+AGG 0.176058 contig578end:+8819 MsG0080048969.01.T01:CDS
TTCAGGTCTATTAGGAATAA+TGG 0.250900 contig578end:+8836 MsG0080048969.01.T01:CDS
TCTTCAAGACATCATTCTTA+TGG 0.257835 contig578end:+8734 MsG0080048969.01.T01:CDS
GGGTTTATTTCAGGTCTATT+AGG 0.260287 contig578end:+8828 MsG0080048969.01.T01:CDS
TCCTCCTTTACTGAGATATT+TGG 0.276616 contig578end:+8404 MsG0080048969.01.T01:CDS
AAGAAGCTGAAGATGGAGTT+TGG 0.330013 contig578end:-8514 None:intergenic
GATGAAGGAGAGAATGATAT+AGG 0.348515 contig578end:+8980 MsG0080048969.01.T01:CDS
GAAATAAACCCAAGGCTTCC+CGG 0.351372 contig578end:-8816 None:intergenic
AGTAAAGGAGGAGGACTCTA+TGG 0.362243 contig578end:-8393 None:intergenic
CATCTTTGCACCGAAGGTCT+TGG 0.374924 contig578end:+8617 MsG0080048969.01.T01:CDS
GGTCCTCCCTATGCTTGAAA+TGG 0.394454 contig578end:-8795 None:intergenic
TAGGGAGGACCGGGAAGCCT+TGG 0.399372 contig578end:+8807 MsG0080048969.01.T01:CDS
CTGTTGGTATGCCTTGCTAT+TGG 0.401166 contig578end:-8548 None:intergenic
TATAAGCACGCAGGACCTCC+TGG 0.403062 contig578end:-8892 None:intergenic
AGGGAGGACCGGGAAGCCTT+GGG 0.431578 contig578end:+8808 MsG0080048969.01.T01:CDS
TTGATGATGATTCCTTGAAA+TGG 0.433133 contig578end:-8433 None:intergenic
TCTTCCAGAAACTCATCATC+AGG 0.449345 contig578end:-8953 None:intergenic
GAAAGGGATTGAAGCAGTGT+TGG 0.454932 contig578end:-8344 None:intergenic
ATTTGGTGAACTCCATTTCA+AGG 0.460735 contig578end:+8421 MsG0080048969.01.T01:CDS
TTCAGAATTCAGCCATGAAA+AGG 0.472686 contig578end:-8588 None:intergenic
AAGACTCAGACTCTTTGATC+TGG 0.478220 contig578end:-8481 None:intergenic
CAATAGCAAGGCATACCAAC+AGG 0.489567 contig578end:+8549 MsG0080048969.01.T01:CDS
GTCCTCCCTATGCTTGAAAT+GGG 0.492965 contig578end:-8794 None:intergenic
CTCCTCCCATTTCAAGCATA+GGG 0.493217 contig578end:+8789 MsG0080048969.01.T01:CDS
GGGTGTCAAAGATGTGTTGT+AGG 0.504528 contig578end:-8307 None:intergenic
TAGGCTGTCACAGGTTGCCA+TGG 0.514804 contig578end:-8288 None:intergenic
CCTCCTCCCATTTCAAGCAT+AGG 0.517066 contig578end:+8788 MsG0080048969.01.T01:CDS
TCGGTATCCTTACCTCTTCG+AGG 0.517417 contig578end:-8868 None:intergenic
ATGGAGAATGTAGGAGGTCA+AGG 0.523495 contig578end:+8753 MsG0080048969.01.T01:CDS
ATTTCAAGCATAGGGAGGAC+CGG 0.525710 contig578end:+8797 MsG0080048969.01.T01:CDS
TTCACCAAATATCTCAGTAA+AGG 0.527789 contig578end:-8408 None:intergenic
AGCATGCATCTTTGCACCGA+AGG 0.535589 contig578end:+8611 MsG0080048969.01.T01:CDS
GAGGACTCTATGGATTTCAC+TGG 0.537192 contig578end:-8383 None:intergenic
CCTATGCTTGAAATGGGAGG+AGG 0.541240 contig578end:-8788 None:intergenic
CTGCGTGCTTATAGAGAGGA+TGG 0.545087 contig578end:+8902 MsG0080048969.01.T01:CDS
GATTTGTCCTCGAAGAGGTA+AGG 0.546648 contig578end:+8861 MsG0080048969.01.T01:CDS
ATAAGCACGCAGGACCTCCT+GGG 0.552052 contig578end:-8891 None:intergenic
ACTCTCAAAACCAAGACCTT+CGG 0.553557 contig578end:-8627 None:intergenic
AGAGGTAAGGATACCGACCC+AGG 0.560235 contig578end:+8874 MsG0080048969.01.T01:CDS
TTTCAATTACACCAATAGCA+AGG 0.571241 contig578end:+8537 MsG0080048969.01.T01:CDS
ACCAAATATCTCAGTAAAGG+AGG 0.572346 contig578end:-8405 None:intergenic
AGAAGACATGGCAAAAGAAG+AGG 0.576952 contig578end:+9021 MsG0080048969.01.T01:CDS
TGATCTGGTTGAAGTTTGTG+TGG 0.577238 contig578end:-8466 None:intergenic
ATCATTCTTATGGAGAATGT+AGG 0.580254 contig578end:+8744 MsG0080048969.01.T01:CDS
TGAGAGTTCAGACGATGTCG+AGG 0.585948 contig578end:+8643 MsG0080048969.01.T01:CDS
TTTCAAGCATAGGGAGGACC+GGG 0.586404 contig578end:+8798 MsG0080048969.01.T01:CDS
AAATATCTCAGTAAAGGAGG+AGG 0.599938 contig578end:-8402 None:intergenic
CTATGCTTGAAATGGGAGGA+GGG 0.601586 contig578end:-8787 None:intergenic
TTTCTGGAAGATGAGGATGA+AGG 0.603701 contig578end:+8965 MsG0080048969.01.T01:CDS
AGCTGAGGAAGGAGAAGACA+TGG 0.613301 contig578end:+9009 MsG0080048969.01.T01:CDS
TCCAGAAACTCATCATCAGG+AGG 0.618671 contig578end:-8950 None:intergenic
TGGAGAATGTAGGAGGTCAA+GGG 0.619517 contig578end:+8754 MsG0080048969.01.T01:CDS
GATGTGTTGTAGGCTGTCAC+AGG 0.621992 contig578end:-8297 None:intergenic
CTCCCTATGCTTGAAATGGG+AGG 0.622171 contig578end:-8791 None:intergenic
GATGTCGAGGACTCAAAGAG+TGG 0.622521 contig578end:+8656 MsG0080048969.01.T01:CDS
ATAGGATGCATAGCTGAGGA+AGG 0.625542 contig578end:+8998 MsG0080048969.01.T01:CDS
ATTCTTATGGAGAATGTAGG+AGG 0.629147 contig578end:+8747 MsG0080048969.01.T01:CDS
GCACGCAGGACCTCCTGGGT+CGG 0.641235 contig578end:-8887 None:intergenic
ATAGACCTGAAATAAACCCA+AGG 0.650033 contig578end:-8824 None:intergenic
TGGAAGATTTGTCCTCGAAG+AGG 0.651915 contig578end:+8856 MsG0080048969.01.T01:CDS
GTGCTTATAGAGAGGATGGA+AGG 0.652178 contig578end:+8906 MsG0080048969.01.T01:CDS
CCAGAAACTCATCATCAGGA+GGG 0.654723 contig578end:-8949 None:intergenic
GGTCCTGCGTGCTTATAGAG+AGG 0.655010 contig578end:+8898 MsG0080048969.01.T01:CDS
TGATGAGTTTCTGGAAGATG+AGG 0.656575 contig578end:+8958 MsG0080048969.01.T01:CDS
CTCCCATTTCAAGCATAGGG+AGG 0.670101 contig578end:+8792 MsG0080048969.01.T01:CDS
TGATATAGGATGCATAGCTG+AGG 0.671509 contig578end:+8994 MsG0080048969.01.T01:CDS
CATCCTCTCTATAAGCACGC+AGG 0.674324 contig578end:-8901 None:intergenic
GGTAAGGATACCGACCCAGG+AGG 0.739295 contig578end:+8877 MsG0080048969.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAATTTTGTTAAATGAAA+GGG - contig578end:8363-8382 None:intergenic 10.0%
!!! GTTTAATTTTGTTAAATGAA+AGG - contig578end:8364-8383 None:intergenic 15.0%
ATCATTCTTATGGAGAATGT+AGG + contig578end:8744-8763 MsG0080048969.01.T01:CDS 30.0%
ATTGAAAAAGAAGCTGAAGA+TGG - contig578end:8524-8543 None:intergenic 30.0%
TCTTCAAGACATCATTCTTA+TGG + contig578end:8734-8753 MsG0080048969.01.T01:CDS 30.0%
TTCACCAAATATCTCAGTAA+AGG - contig578end:8411-8430 None:intergenic 30.0%
TTCAGGTCTATTAGGAATAA+TGG + contig578end:8836-8855 MsG0080048969.01.T01:CDS 30.0%
TTTCAATTACACCAATAGCA+AGG + contig578end:8537-8556 MsG0080048969.01.T01:CDS 30.0%
!! TTGATGATGATTCCTTGAAA+TGG - contig578end:8436-8455 None:intergenic 30.0%
!!! GCAATCTCTTTTTTGTCATT+TGG - contig578end:9067-9086 None:intergenic 30.0%
AAATATCTCAGTAAAGGAGG+AGG - contig578end:8405-8424 None:intergenic 35.0%
ACCAAATATCTCAGTAAAGG+AGG - contig578end:8408-8427 None:intergenic 35.0%
ATAGACCTGAAATAAACCCA+AGG - contig578end:8827-8846 None:intergenic 35.0%
ATTCTTATGGAGAATGTAGG+AGG + contig578end:8747-8766 MsG0080048969.01.T01:CDS 35.0%
GATGAAGGAGAGAATGATAT+AGG + contig578end:8980-8999 MsG0080048969.01.T01:CDS 35.0%
TCCTCCTTTACTGAGATATT+TGG + contig578end:8404-8423 MsG0080048969.01.T01:CDS 35.0%
TTCAGAATTCAGCCATGAAA+AGG - contig578end:8591-8610 None:intergenic 35.0%
! ATTTGGTGAACTCCATTTCA+AGG + contig578end:8421-8440 MsG0080048969.01.T01:CDS 35.0%
! GGGTTTATTTCAGGTCTATT+AGG + contig578end:8828-8847 MsG0080048969.01.T01:CDS 35.0%
!! TGTTGGATTTTCTGGCAATA+GGG - contig578end:8330-8349 None:intergenic 35.0%
AAGAAGCTGAAGATGGAGTT+TGG - contig578end:8517-8536 None:intergenic 40.0%
AAGACTCAGACTCTTTGATC+TGG - contig578end:8484-8503 None:intergenic 40.0%
ACTCTCAAAACCAAGACCTT+CGG - contig578end:8630-8649 None:intergenic 40.0%
AGAAGACATGGCAAAAGAAG+AGG + contig578end:9021-9040 MsG0080048969.01.T01:CDS 40.0%
TCTTCCAGAAACTCATCATC+AGG - contig578end:8956-8975 None:intergenic 40.0%
TGATATAGGATGCATAGCTG+AGG + contig578end:8994-9013 MsG0080048969.01.T01:CDS 40.0%
TGATCTGGTTGAAGTTTGTG+TGG - contig578end:8469-8488 None:intergenic 40.0%
! AAAGCAGTGACACCTTTTCA+TGG + contig578end:8576-8595 MsG0080048969.01.T01:CDS 40.0%
! TGATGAGTTTCTGGAAGATG+AGG + contig578end:8958-8977 MsG0080048969.01.T01:CDS 40.0%
! TTTCTGGAAGATGAGGATGA+AGG + contig578end:8965-8984 MsG0080048969.01.T01:CDS 40.0%
!! GTGTTGGATTTTCTGGCAAT+AGG - contig578end:8331-8350 None:intergenic 40.0%
!! TGAAGCAGTGTTGGATTTTC+TGG - contig578end:8338-8357 None:intergenic 40.0%
AGTAAAGGAGGAGGACTCTA+TGG - contig578end:8396-8415 None:intergenic 45.0%
ATAGGATGCATAGCTGAGGA+AGG + contig578end:8998-9017 MsG0080048969.01.T01:CDS 45.0%
ATGGAGAATGTAGGAGGTCA+AGG + contig578end:8753-8772 MsG0080048969.01.T01:CDS 45.0%
ATTTCAAGCATAGGGAGGAC+CGG + contig578end:8797-8816 MsG0080048969.01.T01:CDS 45.0%
CAATAGCAAGGCATACCAAC+AGG + contig578end:8549-8568 MsG0080048969.01.T01:CDS 45.0%
CCAGAAACTCATCATCAGGA+GGG - contig578end:8952-8971 None:intergenic 45.0%
CTATGCTTGAAATGGGAGGA+GGG - contig578end:8790-8809 None:intergenic 45.0%
CTCCTCCCATTTCAAGCATA+GGG + contig578end:8789-8808 MsG0080048969.01.T01:CDS 45.0%
GAAAGGGATTGAAGCAGTGT+TGG - contig578end:8347-8366 None:intergenic 45.0%
GAAATAAACCCAAGGCTTCC+CGG - contig578end:8819-8838 None:intergenic 45.0%
GAGGACTCTATGGATTTCAC+TGG - contig578end:8386-8405 None:intergenic 45.0%
GATTTGTCCTCGAAGAGGTA+AGG + contig578end:8861-8880 MsG0080048969.01.T01:CDS 45.0%
GGAAGCCTTGGGTTTATTTC+AGG + contig578end:8819-8838 MsG0080048969.01.T01:CDS 45.0%
GGGTGTCAAAGATGTGTTGT+AGG - contig578end:8310-8329 None:intergenic 45.0%
GTCCTCCCTATGCTTGAAAT+GGG - contig578end:8797-8816 None:intergenic 45.0%
GTGCTTATAGAGAGGATGGA+AGG + contig578end:8906-8925 MsG0080048969.01.T01:CDS 45.0%
TCCAGAAACTCATCATCAGG+AGG - contig578end:8953-8972 None:intergenic 45.0%
TGGAAGATTTGTCCTCGAAG+AGG + contig578end:8856-8875 MsG0080048969.01.T01:CDS 45.0%
TGGAGAATGTAGGAGGTCAA+GGG + contig578end:8754-8773 MsG0080048969.01.T01:CDS 45.0%
! CTGTTGGTATGCCTTGCTAT+TGG - contig578end:8551-8570 None:intergenic 45.0%
AGCATGCATCTTTGCACCGA+AGG + contig578end:8611-8630 MsG0080048969.01.T01:CDS 50.0%
AGCTGAGGAAGGAGAAGACA+TGG + contig578end:9009-9028 MsG0080048969.01.T01:CDS 50.0%
CATCCTCTCTATAAGCACGC+AGG - contig578end:8904-8923 None:intergenic 50.0%
CATCTTTGCACCGAAGGTCT+TGG + contig578end:8617-8636 MsG0080048969.01.T01:CDS 50.0%
CCTATGCTTGAAATGGGAGG+AGG - contig578end:8791-8810 None:intergenic 50.0%
CCTCCTCCCATTTCAAGCAT+AGG + contig578end:8788-8807 MsG0080048969.01.T01:CDS 50.0%
CTCCCATTTCAAGCATAGGG+AGG + contig578end:8792-8811 MsG0080048969.01.T01:CDS 50.0%
CTCCCTATGCTTGAAATGGG+AGG - contig578end:8794-8813 None:intergenic 50.0%
CTGCGTGCTTATAGAGAGGA+TGG + contig578end:8902-8921 MsG0080048969.01.T01:CDS 50.0%
GATGTCGAGGACTCAAAGAG+TGG + contig578end:8656-8675 MsG0080048969.01.T01:CDS 50.0%
GATGTGTTGTAGGCTGTCAC+AGG - contig578end:8300-8319 None:intergenic 50.0%
GGTCCTCCCTATGCTTGAAA+TGG - contig578end:8798-8817 None:intergenic 50.0%
TCGGTATCCTTACCTCTTCG+AGG - contig578end:8871-8890 None:intergenic 50.0%
TGAGAGTTCAGACGATGTCG+AGG + contig578end:8643-8662 MsG0080048969.01.T01:CDS 50.0%
TTTCAAGCATAGGGAGGACC+GGG + contig578end:8798-8817 MsG0080048969.01.T01:CDS 50.0%
! CCCTCCTGATGATGAGTTTC+TGG + contig578end:8949-8968 MsG0080048969.01.T01:CDS 50.0%
!! GTCACTGCTTTTGTGCCTGT+TGG - contig578end:8567-8586 None:intergenic 50.0%
AGAGGTAAGGATACCGACCC+AGG + contig578end:8874-8893 MsG0080048969.01.T01:CDS 55.0%
ATAAGCACGCAGGACCTCCT+GGG - contig578end:8894-8913 None:intergenic 55.0%
GGTCCTGCGTGCTTATAGAG+AGG + contig578end:8898-8917 MsG0080048969.01.T01:CDS 55.0%
TATAAGCACGCAGGACCTCC+TGG - contig578end:8895-8914 None:intergenic 55.0%
GGTAAGGATACCGACCCAGG+AGG + contig578end:8877-8896 MsG0080048969.01.T01:CDS 60.0%
AGGGAGGACCGGGAAGCCTT+GGG + contig578end:8808-8827 MsG0080048969.01.T01:CDS 65.0%
TAGGGAGGACCGGGAAGCCT+TGG + contig578end:8807-8826 MsG0080048969.01.T01:CDS 65.0%
GCACGCAGGACCTCCTGGGT+CGG - contig578end:8890-8909 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
contig578end gene 8290 9090 8290 ID=MsG0080048969.01;Name=MsG0080048969.01
contig578end mRNA 8290 9090 8290 ID=MsG0080048969.01.T01;Parent=MsG0080048969.01;Name=MsG0080048969.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|266
contig578end exon 8290 9090 8290 ID=MsG0080048969.01.T01:exon:10061;Parent=MsG0080048969.01.T01
contig578end CDS 8290 9090 8290 ID=MsG0080048969.01.T01:cds;Parent=MsG0080048969.01.T01
Gene Sequence

>MsG0080048969.01.T01

ATGGCAACCTGTGACAGCCTACAACACATCTTTGACACCCTATTGCCAGAAAATCCAACACTGCTTCAATCCCTTTCATTTAACAAAATTAAACCAGTGAAATCCATAGAGTCCTCCTCCTTTACTGAGATATTTGGTGAACTCCATTTCAAGGAATCATCATCAACAGAGATAAACCACACAAACTTCAACCAGATCAAAGAGTCTGAGTCTTTTGACACTATCCAAACTCCATCTTCAGCTTCTTTTTCAATTACACCAATAGCAAGGCATACCAACAGGCACAAAAGCAGTGACACCTTTTCATGGCTGAATTCTGAAAGCATGCATCTTTGCACCGAAGGTCTTGGTTTTGAGAGTTCAGACGATGTCGAGGACTCAAAGAGTGGAGCGAATGAATCTTTACAAATTGATCAAAATGAGAAACGTGTCGAACATCATTTATCTTCAAGACATCATTCTTATGGAGAATGTAGGAGGTCAAGGGTAAGTGAGTACCCTCCTCCCATTTCAAGCATAGGGAGGACCGGGAAGCCTTGGGTTTATTTCAGGTCTATTAGGAATAATGGAAGATTTGTCCTCGAAGAGGTAAGGATACCGACCCAGGAGGTCCTGCGTGCTTATAGAGAGGATGGAAGGCTCAAGCTGCAGTTTGTTCACCCTCCTGATGATGAGTTTCTGGAAGATGAGGATGAAGGAGAGAATGATATAGGATGCATAGCTGAGGAAGGAGAAGACATGGCAAAAGAAGAGGACGATTGTGTAACACATCATCCAAATGACAAAAAAGAGATTGCTTGA

Protein sequence

>MsG0080048969.01.T01

MATCDSLQHIFDTLLPENPTLLQSLSFNKIKPVKSIESSSFTEIFGELHFKESSSTEINHTNFNQIKESESFDTIQTPSSASFSITPIARHTNRHKSSDTFSWLNSESMHLCTEGLGFESSDDVEDSKSGANESLQIDQNEKRVEHHLSSRHHSYGECRRSRVSEYPPPISSIGRTGKPWVYFRSIRNNGRFVLEEVRIPTQEVLRAYREDGRLKLQFVHPPDDEFLEDEDEGENDIGCIAEEGEDMAKEEDDCVTHHPNDKKEIA*