AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008557.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008557.01.T01 MTR_2g044210 89.247 186 5 1 1 186 1 171 1.59e-111 319
MsG0280008557.01.T01 MTR_2g044210 89.247 186 5 1 1 186 1 171 1.87e-111 318
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008557.01.T01 AT5G49010 56.085 189 64 2 1 189 1 170 5.90e-64 196
MsG0280008557.01.T01 AT5G49010 53.659 205 73 3 1 205 1 183 9.11e-63 194

Find 34 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCACAGTTTCTTCCTGTAAA+AGG 0.200767 2:+33927424 None:intergenic
ATAGAACCTTGTTTCTATTA+AGG 0.244460 2:-33927341 MsG0280008557.01.T01:CDS
AACTTTGGAACAGACTTTCT+AGG 0.280314 2:-33926893 MsG0280008557.01.T01:CDS
AAGAAATAACAAAACCAAAA+AGG 0.347885 2:+33926583 None:intergenic
CAAAGGACAGATTGAATTGA+TGG 0.410021 2:-33927683 MsG0280008557.01.T01:CDS
TGCTCTCTAGATGTTCCTTC+AGG 0.422302 2:+33926703 None:intergenic
AGTCCTAGACAGACACAAAA+TGG 0.422702 2:+33926555 None:intergenic
AACATCAGTGGTTGAAATCA+AGG 0.435422 2:+33927786 None:intergenic
GATTCAAAACGAAGAATCTC+GGG 0.462194 2:+33927724 None:intergenic
TTCTGTATCTCTGTATCAGA+TGG 0.469476 2:-33927370 MsG0280008557.01.T01:CDS
ATCCATGGGTTCAAGATCTA+CGG 0.481878 2:-33927845 None:intergenic
TTGTGTCTGTCTAGGACTGT+AGG 0.494962 2:-33926550 None:intergenic
AGATTCAAAACGAAGAATCT+CGG 0.501966 2:+33927723 None:intergenic
ACTTTGGAACAGACTTTCTA+GGG 0.506098 2:-33926892 MsG0280008557.01.T01:CDS
GCGAGCATGGCGTAACGAAA+AGG 0.511669 2:-33927752 MsG0280008557.01.T01:CDS
GATTTGATCAACCGCGTCAA+AGG 0.524234 2:-33927700 MsG0280008557.01.T01:CDS
TTCCGTAGATCTTGAACCCA+TGG 0.527155 2:+33927843 None:intergenic
TTACCTTCAGGATGCGGATG+CGG 0.527448 2:+33927310 None:intergenic
GACTGATTACCTTCAGGATG+CGG 0.542811 2:+33927304 None:intergenic
CATTAGTGAAGAGGATGACA+TGG 0.553868 2:-33926628 MsG0280008557.01.T01:CDS
TTGAGCTTCTCAAGCGAGCA+TGG 0.560140 2:-33927765 MsG0280008557.01.T01:CDS
ACAATCTGTCATTAGTGAAG+AGG 0.570258 2:-33926637 MsG0280008557.01.T01:CDS
TCTCCGCATCCGCATCCTGA+AGG 0.576234 2:-33927313 MsG0280008557.01.T01:intron
TGATACAGAGATACAGAAAG+AGG 0.584753 2:+33927375 None:intergenic
CTTGAGAAGCTCAACATCAG+TGG 0.611012 2:+33927774 None:intergenic
GATACAGAGATACAGAAAGA+GGG 0.651435 2:+33927376 None:intergenic
CAGGTGCACAGATGACCTGA+AGG 0.652118 2:-33926718 MsG0280008557.01.T01:CDS
GTGGAAGAGAAATTGTCTGT+TGG 0.657885 2:-33927405 MsG0280008557.01.T01:CDS
ATGGGTTCAAGATCTACGGA+AGG 0.674495 2:-33927841 MsG0280008557.01.T01:CDS
ATTCAAAACGAAGAATCTCG+GGG 0.677114 2:+33927725 None:intergenic
ATTCAATCTGTCCTTTGACG+CGG 0.682411 2:+33927689 None:intergenic
ATTAGTGAAGAGGATGACAT+GGG 0.687742 2:-33926627 MsG0280008557.01.T01:CDS
ATATGACCTTAATAGAAACA+AGG 0.692807 2:+33927335 None:intergenic
TTCAAAACGAAGAATCTCGG+GGG 0.737687 2:+33927726 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATCTAGTTAAAGATTAATA+AGG + Chr2:33927253-33927272 None:intergenic 15.0%
!! ATTACATAAAACTATGATAT+AGG + Chr2:33927336-33927355 None:intergenic 15.0%
!!! TAACTAGATTGAAATTTTTT+CGG - Chr2:33927263-33927282 MsG0280008557.01.T01:intron 15.0%
!! AAAATTGAAATTCATTTCAG+TGG + Chr2:33926788-33926807 None:intergenic 20.0%
!! AAGAAATAACAAAACCAAAA+AGG + Chr2:33927812-33927831 None:intergenic 20.0%
!! GAACTTAAATTTCTTATTGT+CGG - Chr2:33926866-33926885 MsG0280008557.01.T01:intron 20.0%
!! TTATTAAATGTGAAGTAACT+AGG + Chr2:33926936-33926955 None:intergenic 20.0%
!! TTGTTGAAATATTTGAATAC+TGG - Chr2:33927371-33927390 MsG0280008557.01.T01:CDS 20.0%
!!! GTTTTTAAATCTAGTTTTCT+GGG - Chr2:33927649-33927668 MsG0280008557.01.T01:intron 20.0%
!!! TGTTTTTAAATCTAGTTTTC+TGG - Chr2:33927648-33927667 MsG0280008557.01.T01:intron 20.0%
!!! TTTGGTTTTGTTATTTCTTA+TGG - Chr2:33927813-33927832 MsG0280008557.01.T01:CDS 20.0%
! AAATATTATCTCGCAAATAG+AGG + Chr2:33927294-33927313 None:intergenic 25.0%
! AAGAAATCACAAAAAGTAGA+AGG + Chr2:33926754-33926773 None:intergenic 25.0%
! AATCTAGTGAATATAGCAAT+AGG + Chr2:33927405-33927424 None:intergenic 25.0%
! ATATGACCTTAATAGAAACA+AGG + Chr2:33927060-33927079 None:intergenic 25.0%
! CAAGTGATAGGATTATTTAT+GGG - Chr2:33927133-33927152 MsG0280008557.01.T01:intron 25.0%
! CTAGTTAAAGATTAATAAGG+CGG + Chr2:33927250-33927269 None:intergenic 25.0%
! GTAAGGCAACAATAAATTAT+TGG + Chr2:33927212-33927231 None:intergenic 25.0%
! TATGATATAGGTAGAAACTA+AGG + Chr2:33927324-33927343 None:intergenic 25.0%
! TCAAGTGATAGGATTATTTA+TGG - Chr2:33927132-33927151 MsG0280008557.01.T01:intron 25.0%
! TTCGATCTGCAATATAAATA+TGG + Chr2:33927448-33927467 None:intergenic 25.0%
!! TCATAAGACTGATAATTTTC+AGG + Chr2:33927732-33927751 None:intergenic 25.0%
!!! ATAGAACCTTGTTTCTATTA+AGG - Chr2:33927051-33927070 MsG0280008557.01.T01:intron 25.0%
!!! GAATTTCAATTTTGAAGACA+TGG - Chr2:33926795-33926814 MsG0280008557.01.T01:intron 25.0%
!!! GTTTTAAAAGATAGCAATGT+AGG - Chr2:33927617-33927636 MsG0280008557.01.T01:intron 25.0%
AGATTCAAAACGAAGAATCT+CGG + Chr2:33926672-33926691 None:intergenic 30.0%
CCAAAAAGGACAACTAATAA+TGG + Chr2:33927798-33927817 None:intergenic 30.0%
! AAACTTTTCACTGAAAGGTA+AGG - Chr2:33927528-33927547 MsG0280008557.01.T01:intron 30.0%
! AGCTATCTTTTACAACACAT+TGG + Chr2:33927558-33927577 None:intergenic 30.0%
! ATGTGTTTTTCTCCTTTTAC+AGG - Chr2:33926956-33926975 MsG0280008557.01.T01:intron 30.0%
! CCATTATTAGTTGTCCTTTT+TGG - Chr2:33927795-33927814 MsG0280008557.01.T01:CDS 30.0%
! GTAACCTTTCATTGATGTTT+TGG - Chr2:33926903-33926922 MsG0280008557.01.T01:CDS 30.0%
! TCCAAAGTTCTTGAGTTTTT+CGG + Chr2:33927488-33927507 None:intergenic 30.0%
AACATCAGTGGTTGAAATCA+AGG + Chr2:33926609-33926628 None:intergenic 35.0%
ACAATCTGTCATTAGTGAAG+AGG - Chr2:33927755-33927774 MsG0280008557.01.T01:CDS 35.0%
ACCACCAAAACATCAATGAA+AGG + Chr2:33926910-33926929 None:intergenic 35.0%
ATTAGTGAAGAGGATGACAT+GGG - Chr2:33927765-33927784 MsG0280008557.01.T01:CDS 35.0%
ATTCAAAACGAAGAATCTCG+GGG + Chr2:33926670-33926689 None:intergenic 35.0%
CAAAGGACAGATTGAATTGA+TGG - Chr2:33926709-33926728 MsG0280008557.01.T01:CDS 35.0%
GATACAGAGATACAGAAAGA+GGG + Chr2:33927019-33927038 None:intergenic 35.0%
GATATAGGTAGAAACTAAGG+TGG + Chr2:33927321-33927340 None:intergenic 35.0%
GATTCAAAACGAAGAATCTC+GGG + Chr2:33926671-33926690 None:intergenic 35.0%
TCCGAAAAACTCAAGAACTT+TGG - Chr2:33927484-33927503 MsG0280008557.01.T01:intron 35.0%
TGATACAGAGATACAGAAAG+AGG + Chr2:33927020-33927039 None:intergenic 35.0%
TTCTGTATCTCTGTATCAGA+TGG - Chr2:33927022-33927041 MsG0280008557.01.T01:intron 35.0%
! ACGAGAAACTTTTCACTGAA+AGG - Chr2:33927523-33927542 MsG0280008557.01.T01:intron 35.0%
! AGCTTTTACACTCAAGTGAT+AGG - Chr2:33927121-33927140 MsG0280008557.01.T01:intron 35.0%
!! AACTTTGGAACAGACTTTCT+AGG - Chr2:33927499-33927518 MsG0280008557.01.T01:intron 35.0%
!! ACCTTTCATTGATGTTTTGG+TGG - Chr2:33926906-33926925 MsG0280008557.01.T01:CDS 35.0%
!! ACTTTGGAACAGACTTTCTA+GGG - Chr2:33927500-33927519 MsG0280008557.01.T01:intron 35.0%
AGATAGCAATGTAGGCTACT+TGG - Chr2:33927625-33927644 MsG0280008557.01.T01:intron 40.0%
AGTCCTAGACAGACACAAAA+TGG + Chr2:33927840-33927859 None:intergenic 40.0%
ATTCAATCTGTCCTTTGACG+CGG + Chr2:33926706-33926725 None:intergenic 40.0%
CATTAGTGAAGAGGATGACA+TGG - Chr2:33927764-33927783 MsG0280008557.01.T01:CDS 40.0%
CCACAGTTTCTTCCTGTAAA+AGG + Chr2:33926971-33926990 None:intergenic 40.0%
GGTGTTAATACTTGAGGGTA+AGG + Chr2:33927229-33927248 None:intergenic 40.0%
GTGGAAGAGAAATTGTCTGT+TGG - Chr2:33926987-33927006 MsG0280008557.01.T01:intron 40.0%
TCCTGAAGGTAATCAGTCAT+AGG - Chr2:33927093-33927112 MsG0280008557.01.T01:intron 40.0%
TTCAAAACGAAGAATCTCGG+GGG + Chr2:33926669-33926688 None:intergenic 40.0%
! AAGGCGGTGTTAATACTTGA+GGG + Chr2:33927234-33927253 None:intergenic 40.0%
! CCTTTTACAGGAAGAAACTG+TGG - Chr2:33926968-33926987 MsG0280008557.01.T01:intron 40.0%
! TAAGGCGGTGTTAATACTTG+AGG + Chr2:33927235-33927254 None:intergenic 40.0%
!! GTTCTTGAGTTTTTCGGATG+TGG + Chr2:33927482-33927501 None:intergenic 40.0%
!!! AAATCTAGTTTTCTGGGTGC+AGG - Chr2:33927655-33927674 MsG0280008557.01.T01:intron 40.0%
ATGGGTTCAAGATCTACGGA+AGG - Chr2:33926551-33926570 MsG0280008557.01.T01:CDS 45.0%
CTTGAGAAGCTCAACATCAG+TGG + Chr2:33926621-33926640 None:intergenic 45.0%
GACTGATTACCTTCAGGATG+CGG + Chr2:33927091-33927110 None:intergenic 45.0%
GATTTGATCAACCGCGTCAA+AGG - Chr2:33926692-33926711 MsG0280008557.01.T01:CDS 45.0%
GCCTATGACTGATTACCTTC+AGG + Chr2:33927097-33927116 None:intergenic 45.0%
TGCTCTCTAGATGTTCCTTC+AGG + Chr2:33927692-33927711 None:intergenic 45.0%
! GGACCATTTTGTGTCTGTCT+AGG - Chr2:33927834-33927853 MsG0280008557.01.T01:CDS 45.0%
TTACCTTCAGGATGCGGATG+CGG + Chr2:33927085-33927104 None:intergenic 50.0%
TTGAGCTTCTCAAGCGAGCA+TGG - Chr2:33926627-33926646 MsG0280008557.01.T01:CDS 50.0%
CAGGTGCACAGATGACCTGA+AGG - Chr2:33927674-33927693 MsG0280008557.01.T01:intron 55.0%
GCGAGCATGGCGTAACGAAA+AGG - Chr2:33926640-33926659 MsG0280008557.01.T01:CDS 55.0%
TCTCCGCATCCGCATCCTGA+AGG - Chr2:33927079-33927098 MsG0280008557.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 33926551 33927863 33926551 ID=MsG0280008557.01;Name=MsG0280008557.01
Chr2 mRNA 33926551 33927863 33926551 ID=MsG0280008557.01.T01;Parent=MsG0280008557.01;Name=MsG0280008557.01.T01;_AED=0.44;_eAED=0.51;_QI=0|0|0|1|0.66|0.5|4|0|205
Chr2 exon 33927679 33927863 33927679 ID=MsG0280008557.01.T01:exon:15195;Parent=MsG0280008557.01.T01
Chr2 exon 33927314 33927476 33927314 ID=MsG0280008557.01.T01:exon:15194;Parent=MsG0280008557.01.T01
Chr2 exon 33926870 33926952 33926870 ID=MsG0280008557.01.T01:exon:15193;Parent=MsG0280008557.01.T01
Chr2 exon 33926551 33926737 33926551 ID=MsG0280008557.01.T01:exon:15192;Parent=MsG0280008557.01.T01
Chr2 CDS 33927679 33927863 33927679 ID=MsG0280008557.01.T01:cds;Parent=MsG0280008557.01.T01
Chr2 CDS 33927314 33927476 33927314 ID=MsG0280008557.01.T01:cds;Parent=MsG0280008557.01.T01
Chr2 CDS 33926870 33926952 33926870 ID=MsG0280008557.01.T01:cds;Parent=MsG0280008557.01.T01
Chr2 CDS 33926551 33926737 33926551 ID=MsG0280008557.01.T01:cds;Parent=MsG0280008557.01.T01
Gene Sequence

>MsG0280008557.01.T01

ATGGGTTCAAGATCTACGGAAGGAGAACAATCATCGCTCGCTGACGATTATGATGCCTTGATTTCAACCACTGATGTTGAGCTTCTCAAGCGAGCATGGCGTAACGAAAAGGCAGCCCCCGAGATTCTTCGTTTTGAATCTGATTTGATCAACCGCGTCAAAGGACAGATTGAATTGATGGCAACTTACTTCACATTTAATAAATGTGTTTTTCTCCTTTTACAGGAAGAAACTGTGGAAGAGAAATTGTCTGTTGGTAGTGACCCTCTTTCTGTATCTCTGTATCAGATGGACTTAGATAGAACCTTGTTTCTATTAAGGTCATATCTCCGCATCCGCATCCTGAAGATCGAAAAGTACATGTTCCACATCCGAAAAACTCAAGAACTTTGGAACAGACTTTCTAGGGACGAGAAACTTTTCACTGAAAGGTGCACAGATGACCTGAAGGAACATCTAGAGAGCAGTGTTCTATCAAAACTACCTGAAAATTATCAGTCTTATGAGAGACAATCTGTCATTAGTGAAGAGGATGACATGGGTAATTTACCATTATTAGTTGTCCTTTTTGGTTTTGTTATTTCTTATGGACCATTTTGTGTCTGTCTAGGACTGTAG

Protein sequence

>MsG0280008557.01.T01

MGSRSTEGEQSSLADDYDALISTTDVELLKRAWRNEKAAPEILRFESDLINRVKGQIELMATYFTFNKCVFLLLQEETVEEKLSVGSDPLSVSLYQMDLDRTLFLLRSYLRIRILKIEKYMFHIRKTQELWNRLSRDEKLFTERCTDDLKEHLESSVLSKLPENYQSYERQSVISEEDDMGNLPLLVVLFGFVISYGPFCVCLGL*