AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080049068.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049068.01.T01 MTR_1g022450 80.723 166 2 1 1 166 1 136 3.39e-91 261
MsG0080049068.01.T01 MTR_1g022450 79.518 166 2 1 1 166 1 134 1.98e-89 257
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049068.01.T01 AT1G75350 79.545 88 18 0 66 153 46 133 9.13e-51 159

Find 31 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCAACCACATACTCTTTC+TGG 0.120517 contig646end:+10726 None:intergenic
TTAGCATCTTCGTAGAATTT+TGG 0.129378 contig646end:+10791 None:intergenic
ATGGAGATTCCTGTGCTTAA+AGG 0.247138 contig646end:-10596 MsG0080049068.01.T01:CDS
CGGTGAATTGTCGCAGATTA+TGG 0.250630 contig646end:-10615 MsG0080049068.01.T01:CDS
GAAACAATAATATGAATAAT+TGG 0.277187 contig646end:+10925 None:intergenic
AGGTAACAGGTCTGCTCTTA+TGG 0.321423 contig646end:-10675 MsG0080049068.01.T01:CDS
GACCTGTTACCTAGGTAAAA+TGG 0.333258 contig646end:+10686 None:intergenic
TTAATCCCTTTACGTCTAGA+AGG 0.369196 contig646end:+10560 None:intergenic
TTATTCCTTCTAGACGTAAA+GGG 0.415844 contig646end:-10565 MsG0080049068.01.T01:CDS
ATCAACCACATACTCTTTCT+GGG 0.433365 contig646end:+10727 None:intergenic
ATAACCAATACCTTTGTTCA+AGG 0.436471 contig646end:-11217 MsG0080049068.01.T01:CDS
GTTATTCCTTCTAGACGTAA+AGG 0.445368 contig646end:-10566 MsG0080049068.01.T01:CDS
TATGTGGTTGATGTTTGGTC+TGG 0.461863 contig646end:-10716 MsG0080049068.01.T01:CDS
TCTTATGGTGAGTGATGATC+AGG 0.479241 contig646end:-10660 MsG0080049068.01.T01:CDS
AAGAGTATGTGGTTGATGTT+TGG 0.479372 contig646end:-10721 MsG0080049068.01.T01:CDS
GAGAAGTTTCGTAAGAAGTT+CGG 0.493517 contig646end:-10635 MsG0080049068.01.T01:CDS
AACGAGCTTGTGATGACAAC+TGG 0.499125 contig646end:-10755 MsG0080049068.01.T01:CDS
ATGTGGTTGATGTTTGGTCT+GGG 0.499973 contig646end:-10715 MsG0080049068.01.T01:CDS
TTTGTGGGAAGTGGAAGGAA+TGG 0.505762 contig646end:+11190 None:intergenic
AAAGGGATTAAAAGTGGTGG+TGG 0.510648 contig646end:-10548 MsG0080049068.01.T01:CDS
TAAGAGCAGACCTGTTACCT+AGG 0.535799 contig646end:+10678 None:intergenic
AAAATTCTACGAAGATGCTA+AGG 0.547901 contig646end:-10789 MsG0080049068.01.T01:CDS
ACAATCTCACCTTTAAGCAC+AGG 0.575557 contig646end:+10587 None:intergenic
AGACGTAAAGGGATTAAAAG+TGG 0.579688 contig646end:-10554 MsG0080049068.01.T01:CDS
GTTTGGTTGCAGAATCAACA+AGG 0.616245 contig646end:-10863 MsG0080049068.01.T01:CDS
AAGGGATTAAAAGTGGTGGT+GGG 0.621652 contig646end:-10547 MsG0080049068.01.T01:CDS
CGTAAAGGGATTAAAAGTGG+TGG 0.637642 contig646end:-10551 MsG0080049068.01.T01:CDS
TGTTACCTAGGTAAAATGGA+TGG 0.664203 contig646end:+10690 None:intergenic
TGGAACCCAGAAAGAGTATG+TGG 0.674951 contig646end:-10732 MsG0080049068.01.T01:CDS
GAGCTTGTGATGACAACTGG+TGG 0.675964 contig646end:-10752 MsG0080049068.01.T01:CDS
TATGGTGAGTGATGATCAGG+TGG 0.684535 contig646end:-10657 MsG0080049068.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTCTAATAGAAATGATA+AGG + contig646end:10626-10645 None:intergenic 15.0%
!! GAAACAATAATATGAATAAT+TGG + contig646end:10842-10861 None:intergenic 15.0%
!! AAATGATATCAATACAATCA+GGG - contig646end:10766-10785 MsG0080049068.01.T01:CDS 20.0%
!! AATATGTCTATATTAGAATC+AGG + contig646end:10809-10828 None:intergenic 20.0%
!! ATATGTCTATATTAGAATCA+GGG + contig646end:10808-10827 None:intergenic 20.0%
! AATCAACAAGGAAAAAAAGT+GGG - contig646end:10913-10932 MsG0080049068.01.T01:CDS 25.0%
! CAAATGATATCAATACAATC+AGG - contig646end:10765-10784 MsG0080049068.01.T01:CDS 25.0%
! TAATAGAAATGATAAGGAAG+TGG + contig646end:10620-10639 None:intergenic 25.0%
AAAATTCTACGAAGATGCTA+AGG - contig646end:10975-10994 MsG0080049068.01.T01:intron 30.0%
AACACACACAAAAAACATGT+TGG + contig646end:10878-10897 None:intergenic 30.0%
ATAACCAATACCTTTGTTCA+AGG - contig646end:10547-10566 MsG0080049068.01.T01:CDS 30.0%
GAATCAACAAGGAAAAAAAG+TGG - contig646end:10912-10931 MsG0080049068.01.T01:CDS 30.0%
TTATTCCTTCTAGACGTAAA+GGG - contig646end:11199-11218 MsG0080049068.01.T01:CDS 30.0%
TTCTCATGAATTGTGATTCA+TGG + contig646end:10697-10716 None:intergenic 30.0%
! TAGCATCTTCGTAGAATTTT+GGG + contig646end:10975-10994 None:intergenic 30.0%
! TTAGCATCTTCGTAGAATTT+TGG + contig646end:10976-10995 None:intergenic 30.0%
! TTTTTGTGTGTGTTTGTGTT+TGG - contig646end:10884-10903 MsG0080049068.01.T01:CDS 30.0%
!! TTTTCCTTGAACAAAGGTAT+TGG + contig646end:10554-10573 None:intergenic 30.0%
!!! TACTACAGTACGTTTTTTGT+GGG + contig646end:10592-10611 None:intergenic 30.0%
!!! TTACTACAGTACGTTTTTTG+TGG + contig646end:10593-10612 None:intergenic 30.0%
AGAAATGATAAGGAAGTGGT+TGG + contig646end:10616-10635 None:intergenic 35.0%
AGACGTAAAGGGATTAAAAG+TGG - contig646end:11210-11229 MsG0080049068.01.T01:CDS 35.0%
ATCAACCACATACTCTTTCT+GGG + contig646end:11040-11059 None:intergenic 35.0%
GAGAAGTTTCGTAAGAAGTT+CGG - contig646end:11129-11148 MsG0080049068.01.T01:intron 35.0%
GGAAAAAAAGTGGGCAATTT+CGG - contig646end:10922-10941 MsG0080049068.01.T01:CDS 35.0%
GTTATTCCTTCTAGACGTAA+AGG - contig646end:11198-11217 MsG0080049068.01.T01:CDS 35.0%
TGTGATTCATGGCTAATGAA+TGG + contig646end:10686-10705 None:intergenic 35.0%
TGTTACCTAGGTAAAATGGA+TGG + contig646end:11077-11096 None:intergenic 35.0%
TTAATCCCTTTACGTCTAGA+AGG + contig646end:11207-11226 None:intergenic 35.0%
! AAGAGTATGTGGTTGATGTT+TGG - contig646end:11043-11062 MsG0080049068.01.T01:intron 35.0%
! ATCCATTTTACCTAGGTAAC+AGG - contig646end:11076-11095 MsG0080049068.01.T01:intron 35.0%
! GAATGGTTTTCCTTGAACAA+AGG + contig646end:10560-10579 None:intergenic 35.0%
AAAGGGATTAAAAGTGGTGG+TGG - contig646end:11216-11235 MsG0080049068.01.T01:CDS 40.0%
AAGGGATTAAAAGTGGTGGT+GGG - contig646end:11217-11236 MsG0080049068.01.T01:CDS 40.0%
ACAATCTCACCTTTAAGCAC+AGG + contig646end:11180-11199 None:intergenic 40.0%
ATGGAGATTCCTGTGCTTAA+AGG - contig646end:11168-11187 MsG0080049068.01.T01:intron 40.0%
CATCAACCACATACTCTTTC+TGG + contig646end:11041-11060 None:intergenic 40.0%
CGTAAAGGGATTAAAAGTGG+TGG - contig646end:11213-11232 MsG0080049068.01.T01:CDS 40.0%
GACCTGTTACCTAGGTAAAA+TGG + contig646end:11081-11100 None:intergenic 40.0%
GTTTGGTTGCAGAATCAACA+AGG - contig646end:10901-10920 MsG0080049068.01.T01:CDS 40.0%
TCTTATGGTGAGTGATGATC+AGG - contig646end:11104-11123 MsG0080049068.01.T01:intron 40.0%
! ATGTGGTTGATGTTTGGTCT+GGG - contig646end:11049-11068 MsG0080049068.01.T01:intron 40.0%
! TATGTGGTTGATGTTTGGTC+TGG - contig646end:11048-11067 MsG0080049068.01.T01:intron 40.0%
!!! AGTACGTTTTTTGTGGGAAG+TGG + contig646end:10586-10605 None:intergenic 40.0%
AACGAGCTTGTGATGACAAC+TGG - contig646end:11009-11028 MsG0080049068.01.T01:intron 45.0%
AGGTAACAGGTCTGCTCTTA+TGG - contig646end:11089-11108 MsG0080049068.01.T01:intron 45.0%
CGGTGAATTGTCGCAGATTA+TGG - contig646end:11149-11168 MsG0080049068.01.T01:intron 45.0%
TAAGAGCAGACCTGTTACCT+AGG + contig646end:11089-11108 None:intergenic 45.0%
TATGGTGAGTGATGATCAGG+TGG - contig646end:11107-11126 MsG0080049068.01.T01:intron 45.0%
TTTGTGGGAAGTGGAAGGAA+TGG + contig646end:10577-10596 None:intergenic 45.0%
! GGGAACCATCCATTTTACCT+AGG - contig646end:11069-11088 MsG0080049068.01.T01:intron 45.0%
! TGGAACCCAGAAAGAGTATG+TGG - contig646end:11032-11051 MsG0080049068.01.T01:intron 45.0%
!!! CGTTTTTTGTGGGAAGTGGA+AGG + contig646end:10582-10601 None:intergenic 45.0%
!!! ATTTATTTAATTTCTTAAAT+AGG - contig646end:10716-10735 MsG0080049068.01.T01:CDS 5.0%
GAGCTTGTGATGACAACTGG+TGG - contig646end:11012-11031 MsG0080049068.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
contig646end gene 10535 11251 10535 ID=MsG0080049068.01;Name=MsG0080049068.01
contig646end mRNA 10535 11251 10535 ID=MsG0080049068.01.T01;Parent=MsG0080049068.01;Name=MsG0080049068.01.T01;_AED=0.50;_eAED=0.55;_QI=0|0|0|1|0|0|2|0|166
contig646end exon 11181 11251 11181 ID=MsG0080049068.01.T01:exon:26179;Parent=MsG0080049068.01.T01
contig646end exon 10535 10964 10535 ID=MsG0080049068.01.T01:exon:26180;Parent=MsG0080049068.01.T01
contig646end CDS 11181 11251 11181 ID=MsG0080049068.01.T01:cds;Parent=MsG0080049068.01.T01
contig646end CDS 10535 10964 10535 ID=MsG0080049068.01.T01:cds;Parent=MsG0080049068.01.T01
Gene Sequence

>MsG0080049068.01.T01

ATGGCGCAGTGCATAACCAATACCTTTGTTCAAGGAAAACCATTCCTTCCACTTCCCACAAAAAACGTACTACATATTCTAATAATTTCCAATTATTCATATTATTGTTTCTGTATTAAACTAACCAACATGTTTTTTGTGTGTGTTTGTGTTTGGTTGCAGAATCAACAAGGAAAAAAAGTGGGCAATTTCGGAGTGTATTGCAAGAAGAAAGACATACACCCAAAATTCTACGAAGATGCTAAGGTTTACTGTAACAACGAGCTTGTGATGACAACTGGTGGAACCCAGAAAGAGTATGTGGTTGATGTTTGGTCTGGGAACCATCCATTTTACCTAGGTAACAGGTCTGCTCTTATGGTGAGTGATGATCAGGTGGAGAAGTTTCGTAAGAAGTTCGGTGAATTGTCGCAGATTATGGAGATTCCTGTGCTTAAAGGTGAGATTGTTATTCCTTCTAGACGTAAAGGGATTAAAAGTGGTGGTGGGAAGAAGAAGTGA

Protein sequence

>MsG0080049068.01.T01

MAQCITNTFVQGKPFLPLPTKNVLHILIISNYSYYCFCIKLTNMFFVCVCVWLQNQQGKKVGNFGVYCKKKDIHPKFYEDAKVYCNNELVMTTGGTQKEYVVDVWSGNHPFYLGNRSALMVSDDQVEKFRKKFGELSQIMEIPVLKGEIVIPSRRKGIKSGGGKKK*