AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000091.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000091.01.T01 MTR_1g023660 100.000 33 0 0 1 33 33 65 5.80e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000091.01.T01 AT5G42520 87.879 33 4 0 1 33 24 56 1.12e-12 61.6
MsG0180000091.01.T01 AT5G42520 87.879 33 4 0 1 33 28 60 1.39e-12 61.6

Find 22 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGGCCCTCTCTGAGAAAA+AGG 0.293315 1:-1325751 MsG0180000091.01.T01:CDS
GATTGACATAATTTGCTTCA+TGG 0.306231 1:+1325809 None:intergenic
GGAACGGAAATATTCACTTA+TGG 0.340021 1:-1325677 MsG0180000091.01.T01:CDS
GGCCAGATTTCTTTCTTGAA+TGG 0.411936 1:+1325767 None:intergenic
CGAGAAAATGCTTTGGCCAA+TGG 0.428561 1:-1325623 MsG0180000091.01.T01:CDS
CAGCACTTGCAGAACGTGAC+TGG 0.468374 1:-1325728 MsG0180000091.01.T01:CDS
TCAGTTTCGAGAAAATGCTT+TGG 0.485734 1:-1325630 MsG0180000091.01.T01:CDS
AGCCATTCAAGAAAGAAATC+TGG 0.489436 1:-1325769 MsG0180000091.01.T01:CDS
CCCCGTGAGATTTGACATCC+TGG 0.492305 1:+1325581 None:intergenic
GAAGCAAATTATGTCAATCA+TGG 0.497300 1:-1325805 MsG0180000091.01.T01:CDS
GGTATGTCATCATGCCCTCC+AGG 0.518820 1:-1325599 MsG0180000091.01.T01:CDS
CAATTGCAGTATCTCGCTGC+AGG 0.542654 1:+1325701 None:intergenic
TCCAGGATGTCAAATCTCAC+GGG 0.552910 1:-1325582 MsG0180000091.01.T01:CDS
AAATATTCACTTATGGAAAG+AGG 0.562697 1:-1325670 MsG0180000091.01.T01:CDS
CTCCAGGATGTCAAATCTCA+CGG 0.563255 1:-1325583 MsG0180000091.01.T01:CDS
GCATGATGACATACCACCAT+TGG 0.567052 1:+1325607 None:intergenic
GAGATACTGCAATTGCGGAA+CGG 0.606489 1:-1325693 MsG0180000091.01.T01:CDS
GCAGCGAGATACTGCAATTG+CGG 0.613903 1:-1325698 MsG0180000091.01.T01:CDS
GAAAATGCTTTGGCCAATGG+TGG 0.615877 1:-1325620 MsG0180000091.01.T01:CDS
GTGAGATTTGACATCCTGGA+GGG 0.655568 1:+1325585 None:intergenic
CCAGGATGTCAAATCTCACG+GGG 0.670697 1:-1325581 MsG0180000091.01.T01:CDS
CGTGAGATTTGACATCCTGG+AGG 0.739694 1:+1325584 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATATTCACTTATGGAAAG+AGG - Chr1:1325712-1325731 MsG0180000091.01.T01:CDS 25.0%
GAAGCAAATTATGTCAATCA+TGG - Chr1:1325577-1325596 MsG0180000091.01.T01:CDS 30.0%
AGCCATTCAAGAAAGAAATC+TGG - Chr1:1325613-1325632 MsG0180000091.01.T01:CDS 35.0%
GGAACGGAAATATTCACTTA+TGG - Chr1:1325705-1325724 MsG0180000091.01.T01:CDS 35.0%
TCAGTTTCGAGAAAATGCTT+TGG - Chr1:1325752-1325771 MsG0180000091.01.T01:CDS 35.0%
! AAGCATTTTCTCGAAACTGA+AGG + Chr1:1325752-1325771 None:intergenic 35.0%
! AGCATTTTCTCGAAACTGAA+GGG + Chr1:1325751-1325770 None:intergenic 35.0%
GGCCAGATTTCTTTCTTGAA+TGG + Chr1:1325618-1325637 None:intergenic 40.0%
CGAGAAAATGCTTTGGCCAA+TGG - Chr1:1325759-1325778 MsG0180000091.01.T01:CDS 45.0%
CTCCAGGATGTCAAATCTCA+CGG - Chr1:1325799-1325818 MsG0180000091.01.T01:CDS 45.0%
GAAAATGCTTTGGCCAATGG+TGG - Chr1:1325762-1325781 MsG0180000091.01.T01:CDS 45.0%
GAGATACTGCAATTGCGGAA+CGG - Chr1:1325689-1325708 MsG0180000091.01.T01:CDS 45.0%
GCATGATGACATACCACCAT+TGG + Chr1:1325778-1325797 None:intergenic 45.0%
GTGAGATTTGACATCCTGGA+GGG + Chr1:1325800-1325819 None:intergenic 45.0%
TCCAGGATGTCAAATCTCAC+GGG - Chr1:1325800-1325819 MsG0180000091.01.T01:CDS 45.0%
! TGCTGCCTTTTTCTCAGAGA+GGG + Chr1:1325639-1325658 None:intergenic 45.0%
CAATTGCAGTATCTCGCTGC+AGG + Chr1:1325684-1325703 None:intergenic 50.0%
CCAGGATGTCAAATCTCACG+GGG - Chr1:1325801-1325820 MsG0180000091.01.T01:CDS 50.0%
CGTGAGATTTGACATCCTGG+AGG + Chr1:1325801-1325820 None:intergenic 50.0%
GCAGCGAGATACTGCAATTG+CGG - Chr1:1325684-1325703 MsG0180000091.01.T01:CDS 50.0%
! GTGCTGCCTTTTTCTCAGAG+AGG + Chr1:1325640-1325659 None:intergenic 50.0%
! TCTGGCCCTCTCTGAGAAAA+AGG - Chr1:1325631-1325650 MsG0180000091.01.T01:CDS 50.0%
CAGCACTTGCAGAACGTGAC+TGG - Chr1:1325654-1325673 MsG0180000091.01.T01:CDS 55.0%
CCCCGTGAGATTTGACATCC+TGG + Chr1:1325804-1325823 None:intergenic 55.0%
GGTATGTCATCATGCCCTCC+AGG - Chr1:1325783-1325802 MsG0180000091.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 1325575 1325829 1325575 ID=MsG0180000091.01;Name=MsG0180000091.01
Chr1 mRNA 1325575 1325829 1325575 ID=MsG0180000091.01.T01;Parent=MsG0180000091.01;Name=MsG0180000091.01.T01;_AED=0.46;_eAED=0.51;_QI=0|-1|0|1|-1|0|1|0|84
Chr1 exon 1325575 1325829 1325575 ID=MsG0180000091.01.T01:exon:7345;Parent=MsG0180000091.01.T01
Chr1 CDS 1325575 1325829 1325575 ID=MsG0180000091.01.T01:cds;Parent=MsG0180000091.01.T01
Gene Sequence

>MsG0180000091.01.T01

ATGAAGCAAATTATGTCAATCATGGCTGAACGAGATGCAGCCATTCAAGAAAGAAATCTGGCCCTCTCTGAGAAAAAGGCAGCACTTGCAGAACGTGACTGGCATTCCTGCAGCGAGATACTGCAATTGCGGAACGGAAATATTCACTTATGGAAAGAGGTATGCGATTGCAACCCTTCAGTTTCGAGAAAATGCTTTGGCCAATGGTGGTATGTCATCATGCCCTCCAGGATGTCAAATCTCACGGGGAGTTAA

Protein sequence

>MsG0180000091.01.T01

MKQIMSIMAERDAAIQERNLALSEKKAALAERDWHSCSEILQLRNGNIHLWKEVCDCNPSVSRKCFGQWWYVIMPSRMSNLTGS*