AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1131220


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 15 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATATGTTCTCAAAATTT+TGG 0.127513 7_3:-83769545 None:intergenic
GAACAATTTATGGGATTAAA+TGG 0.170061 7_3:+83769743 Msa1131220:CDS
AGAGTTTATAGAACAATTTA+TGG 0.254847 7_3:+83769733 Msa1131220:CDS
AAAGATCAACTTAGCATTGT+TGG 0.297378 7_3:-83769710 None:intergenic
AGTTCATCGGATTCTGCATT+TGG 0.303861 7_3:+83769650 Msa1131220:CDS
ATCAAGAGAATGCTTCAAAC+TGG 0.364802 7_3:+83769683 Msa1131220:CDS
GAGTTTATAGAACAATTTAT+GGG 0.389704 7_3:+83769734 Msa1131220:CDS
GTTCATCGGATTCTGCATTT+GGG 0.414475 7_3:+83769651 Msa1131220:CDS
TCTTGTTCTTATGTTGAAGC+TGG 0.444656 7_3:+83769768 Msa1131220:CDS
AAATGCAGAATCCGATGAAC+TGG 0.458650 7_3:-83769648 None:intergenic
GGGTGAAGATTTCTACTGTA+GGG 0.492870 7_3:+83769570 Msa1131220:CDS
ATCGGATTCTGCATTTGGGA+TGG 0.499346 7_3:+83769655 Msa1131220:CDS
GCAACGATGAAAATTTGAAA+AGG 0.504776 7_3:-83769484 None:intergenic
TGGGTGAAGATTTCTACTGT+AGG 0.558363 7_3:+83769569 Msa1131220:CDS
TCAAGAGAATGCTTCAAACT+GGG 0.611932 7_3:+83769684 Msa1131220:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TACATATGTTCTCAAAATTT+TGG - chr7_3:83769548-83769567 None:intergenic 20.0%
!!! AATTTTGAGAACATATGTAT+TGG + chr7_3:83769549-83769568 Msa1131220:CDS 20.0%
!!! ATTTTGAGAACATATGTATT+GGG + chr7_3:83769550-83769569 Msa1131220:CDS 20.0%
!! AGAGTTTATAGAACAATTTA+TGG + chr7_3:83769733-83769752 Msa1131220:CDS 20.0%
!! GAGTTTATAGAACAATTTAT+GGG + chr7_3:83769734-83769753 Msa1131220:CDS 20.0%
! GAACAATTTATGGGATTAAA+TGG + chr7_3:83769743-83769762 Msa1131220:CDS 25.0%
GCAACGATGAAAATTTGAAA+AGG - chr7_3:83769487-83769506 None:intergenic 30.0%
! TCAAATTTTCATCGTTGCAT+TGG + chr7_3:83769489-83769508 Msa1131220:CDS 30.0%
!!! GATGTTTTTTACCAGTTCAT+CGG + chr7_3:83769637-83769656 Msa1131220:CDS 30.0%
AAAGATCAACTTAGCATTGT+TGG - chr7_3:83769713-83769732 None:intergenic 30.0%
ATCAAGAGAATGCTTCAAAC+TGG + chr7_3:83769683-83769702 Msa1131220:CDS 35.0%
TCAAGAGAATGCTTCAAACT+GGG + chr7_3:83769684-83769703 Msa1131220:CDS 35.0%
TCTTGTTCTTATGTTGAAGC+TGG + chr7_3:83769768-83769787 Msa1131220:CDS 35.0%
!! ATTTTCATCGTTGCATTGGC+TGG + chr7_3:83769493-83769512 Msa1131220:CDS 40.0%
TGGGTGAAGATTTCTACTGT+AGG + chr7_3:83769569-83769588 Msa1131220:CDS 40.0%
GGGTGAAGATTTCTACTGTA+GGG + chr7_3:83769570-83769589 Msa1131220:CDS 40.0%
AAATGCAGAATCCGATGAAC+TGG - chr7_3:83769651-83769670 None:intergenic 40.0%
AGTTCATCGGATTCTGCATT+TGG + chr7_3:83769650-83769669 Msa1131220:CDS 40.0%
GTTCATCGGATTCTGCATTT+GGG + chr7_3:83769651-83769670 Msa1131220:CDS 40.0%
ATCGGATTCTGCATTTGGGA+TGG + chr7_3:83769655-83769674 Msa1131220:CDS 45.0%
Chromosome Type Strat End Strand Name
chr7_3 gene 83769481 83769804 83769481 ID=Msa1131220;Name=Msa1131220
chr7_3 mRNA 83769481 83769804 83769481 ID=Msa1131220-mRNA-1;Parent=Msa1131220;Name=Msa1131220-mRNA-1;_AED=0.72;_eAED=1.00;_QI=0|-1|0|1|-1|1|1|0|107
chr7_3 exon 83769481 83769804 83769481 ID=Msa1131220-mRNA-1:exon:24855;Parent=Msa1131220-mRNA-1
chr7_3 CDS 83769481 83769804 83769481 ID=Msa1131220-mRNA-1:cds;Parent=Msa1131220-mRNA-1
Gene Sequence

>Msa1131220

ATGCCTTTTCAAATTTTCATCGTTGCATTGGCTGGTAAGATTAATCAGCAATTGTCGCATAAAGCCAAAATTTTGAGAACATATGTATTGGGTGAAGATTTCTACTGTAGGGATCATGTACTTCTTTTCAATTTTGCTAAAGCTGCAGTTAACACTGATGTTTTTTACCAGTTCATCGGATTCTGCATTTGGGATGGACATGATCAAGAGAATGCTTCAAACTGGGCATCCAACAATGCTAAGTTGATCTTTAGAGTTTATAGAACAATTTATGGGATTAAATGGATTCTTGTTCTTATGTTGAAGCTGGAAATCTGTTGCTAA

Protein sequence

>Msa1131220

MPFQIFIVALAGKINQQLSHKAKILRTYVLGEDFYCRDHVLLFNFAKAAVNTDVFYQFIGFCIWDGHDQENASNWASNNAKLIFRVYRTIYGIKWILVLMLKLEICC*