AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026777.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGCGCATGGAAGCTTT+TGG 0.285980 5:-44569634 MsG0580026777.01.T01:CDS
AATTATGGGTAGATGTTGTT+GGG 0.294283 5:-44569890 None:intergenic
CGAGGTAATTGTTATGGTAC+TGG 0.324310 5:-44569859 MsG0580026777.01.T01:CDS
GATCAGCTTCAGCAGCTCTT+TGG 0.342233 5:+44569707 None:intergenic
CAATTATGGGTAGATGTTGT+TGG 0.353756 5:-44569891 None:intergenic
CTACTGCTATGGAAGAATTC+AGG 0.367453 5:-44569654 MsG0580026777.01.T01:CDS
TTGTCTCGAGGTAATTGTTA+TGG 0.375766 5:-44569865 MsG0580026777.01.T01:CDS
GGCTGCTGCAGCACGTGCTG+AGG 0.435827 5:-44569743 MsG0580026777.01.T01:CDS
GAGGTAATTGTTATGGTACT+GGG 0.483970 5:-44569858 MsG0580026777.01.T01:CDS
GGTGATAGAAATCTTTCGTC+AGG 0.501028 5:-44569767 MsG0580026777.01.T01:CDS
GAATCAATTCTCTACTGCTA+TGG 0.520159 5:-44569665 MsG0580026777.01.T01:CDS
TGAGTCAGATGACTTACCCC+TGG 0.525124 5:+44569814 None:intergenic
ATTATGGGTAGATGTTGTTG+GGG 0.545796 5:-44569889 MsG0580026777.01.T01:CDS
TGTTGTTGGGGTTTGTCTCG+AGG 0.554513 5:-44569877 MsG0580026777.01.T01:CDS
TTATCTTTCAACATTAGACC+AGG 0.567117 5:-44569832 MsG0580026777.01.T01:CDS
ATGTCGTCCTCCTGAAAATG+AGG 0.579452 5:-44569788 MsG0580026777.01.T01:CDS
GGAAGAATTCAGGAAGCGCA+TGG 0.584480 5:-44569644 MsG0580026777.01.T01:CDS
ATCTTTCAACATTAGACCAG+GGG 0.586886 5:-44569830 MsG0580026777.01.T01:CDS
TATCTTTCAACATTAGACCA+GGG 0.629793 5:-44569831 MsG0580026777.01.T01:CDS
AGGTAATTGTTATGGTACTG+GGG 0.660624 5:-44569857 MsG0580026777.01.T01:CDS
GATAGAAATCTTTCGTCAGG+AGG 0.670758 5:-44569764 MsG0580026777.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TATCTTTCAACATTAGACCA+GGG - Chr5:44569649-44569668 MsG0580026777.01.T01:CDS 30.0%
TTATCTTTCAACATTAGACC+AGG - Chr5:44569648-44569667 MsG0580026777.01.T01:CDS 30.0%
! ATTTCTATCACCTCATTTTC+AGG + Chr5:44569705-44569724 None:intergenic 30.0%
AGGTAATTGTTATGGTACTG+GGG - Chr5:44569623-44569642 MsG0580026777.01.T01:CDS 35.0%
ATCTTTCAACATTAGACCAG+GGG - Chr5:44569650-44569669 MsG0580026777.01.T01:CDS 35.0%
GAATCAATTCTCTACTGCTA+TGG - Chr5:44569815-44569834 MsG0580026777.01.T01:CDS 35.0%
GAGGTAATTGTTATGGTACT+GGG - Chr5:44569622-44569641 MsG0580026777.01.T01:CDS 35.0%
TTGTCTCGAGGTAATTGTTA+TGG - Chr5:44569615-44569634 MsG0580026777.01.T01:CDS 35.0%
CGAGGTAATTGTTATGGTAC+TGG - Chr5:44569621-44569640 MsG0580026777.01.T01:CDS 40.0%
CTACTGCTATGGAAGAATTC+AGG - Chr5:44569826-44569845 MsG0580026777.01.T01:CDS 40.0%
GATAGAAATCTTTCGTCAGG+AGG - Chr5:44569716-44569735 MsG0580026777.01.T01:CDS 40.0%
GGTGATAGAAATCTTTCGTC+AGG - Chr5:44569713-44569732 MsG0580026777.01.T01:CDS 40.0%
!! TCTATCACCTCATTTTCAGG+AGG + Chr5:44569702-44569721 None:intergenic 40.0%
ATGTCGTCCTCCTGAAAATG+AGG - Chr5:44569692-44569711 MsG0580026777.01.T01:CDS 45.0%
GATCAGCTTCAGCAGCTCTT+TGG + Chr5:44569776-44569795 None:intergenic 50.0%
TGAGTCAGATGACTTACCCC+TGG + Chr5:44569669-44569688 None:intergenic 50.0%
TGTTGTTGGGGTTTGTCTCG+AGG - Chr5:44569603-44569622 MsG0580026777.01.T01:CDS 50.0%
! GGAAGAATTCAGGAAGCGCA+TGG - Chr5:44569836-44569855 MsG0580026777.01.T01:CDS 50.0%
!! AGGAAGCGCATGGAAGCTTT+TGG - Chr5:44569846-44569865 MsG0580026777.01.T01:CDS 50.0%
GGCTGCTGCAGCACGTGCTG+AGG - Chr5:44569737-44569756 MsG0580026777.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr5 gene 44569594 44569908 44569594 ID=MsG0580026777.01;Name=MsG0580026777.01
Chr5 mRNA 44569594 44569908 44569594 ID=MsG0580026777.01.T01;Parent=MsG0580026777.01;Name=MsG0580026777.01.T01;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|104
Chr5 exon 44569594 44569908 44569594 ID=MsG0580026777.01.T01:exon:13889;Parent=MsG0580026777.01.T01
Chr5 CDS 44569594 44569908 44569594 ID=MsG0580026777.01.T01:cds;Parent=MsG0580026777.01.T01
Gene Sequence

>MsG0580026777.01.T01

ATGGGTAGATGTTGTTGGGGTTTGTCTCGAGGTAATTGTTATGGTACTGGGGCTTTATCTTTCAACATTAGACCAGGGGTAAGTCATCTGACTCAAGAATGTCGTCCTCCTGAAAATGAGGTGATAGAAATCTTTCGTCAGGAGGCTGCTGCAGCACGTGCTGAGGCTGCTGCAGCGAACCAAAGAGCTGCTGAAGCTGATCAGCGTTCAAAACAGCTAGAGAATCAATTCTCTACTGCTATGGAAGAATTCAGGAAGCGCATGGAAGCTTTTGGATTACGTTTAGTTTCTACTAATTTGATGTTTAAGACTTAA

Protein sequence

>MsG0580026777.01.T01

MGRCCWGLSRGNCYGTGALSFNIRPGVSHLTQECRPPENEVIEIFRQEAAAARAEAAAANQRAAEADQRSKQLENQFSTAMEEFRKRMEAFGLRLVSTNLMFKT*