AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1160480


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1160480 MtrunA17_Chr7g0256311 98.485 66 1 0 1 66 1 66 9.35e-39 136
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCTGCAGCGCTTGGTATTA+CGG 0.424330 7_4:+50441574 None:intergenic
CAATCTACGGCTGCAGCGCT+TGG 0.424516 7_4:+50441566 None:intergenic
AAGAAACCGGACCTTAGGTT+TGG 0.424873 7_4:+50441440 None:intergenic
TCGGAAGTTGACGGCGAAGA+AGG 0.427700 7_4:+50441465 None:intergenic
GGCGAAGAAGGAGGAGGAGC+AGG 0.440298 7_4:+50441477 None:intergenic
GGATGAAGAAACCGGACCTT+AGG 0.458069 7_4:+50441435 None:intergenic
CCACGACGAAGAAGAAAATT+CGG 0.477627 7_4:+50441395 None:intergenic
GGCGCTGAACACGGTGTCAT+CGG 0.488080 7_4:-50441673 Msa1160480:CDS
CCGATTCCAAACCTAAGGTC+CGG 0.490959 7_4:-50441446 Msa1160480:CDS
CCGGACCTTAGGTTTGGAAT+CGG 0.502356 7_4:+50441446 None:intergenic
TTGCGCGATGGCGCTGAACA+CGG 0.504007 7_4:-50441682 None:intergenic
GAATCGCCGGCGTCAATCTA+CGG 0.504093 7_4:+50441553 None:intergenic
ATAGCAACGGATGAAGAAAC+CGG 0.536535 7_4:+50441427 None:intergenic
GAGCTCCGACGGAGAATCGC+CGG 0.542174 7_4:+50441540 None:intergenic
AACTTCCGATTCCAAACCTA+AGG 0.542314 7_4:-50441451 Msa1160480:CDS
CTACGTCTCTCCGATACAAT+CGG 0.560654 7_4:-50441633 Msa1160480:CDS
CAGCTTTAACAGAGCTCCGA+CGG 0.573336 7_4:+50441529 None:intergenic
GTTGACGGCGAAGAAGGAGG+AGG 0.575226 7_4:+50441471 None:intergenic
CGCTTGGTATTACGGCGGAA+AGG 0.576279 7_4:+50441582 None:intergenic
CTGCAGCCGTAGATTGACGC+CGG 0.613942 7_4:-50441559 Msa1160480:CDS
GAAGTTGACGGCGAAGAAGG+AGG 0.614620 7_4:+50441468 None:intergenic
GGTTTGGAATCGGAAGTTGA+CGG 0.626024 7_4:+50441456 None:intergenic
GTGACGGTTACCGATTGTAT+CGG 0.631438 7_4:+50441623 None:intergenic
TGACGCCGGCGATTCTCCGT+CGG 0.634170 7_4:-50441545 Msa1160480:CDS
CGAAGTCTACGAACAAGTGA+CGG 0.663902 7_4:+50441607 None:intergenic
TGCAGCGCTTGGTATTACGG+CGG 0.708503 7_4:+50441577 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACTTCCGATTCCAAACCTA+AGG - chr7_4:50441610-50441629 Msa1160480:CDS 40.0%
ATAGCAACGGATGAAGAAAC+CGG + chr7_4:50441637-50441656 None:intergenic 40.0%
TCGGTGTGCAAAAATAGCAA+CGG + chr7_4:50441650-50441669 None:intergenic 40.0%
CCACGACGAAGAAGAAAATT+CGG + chr7_4:50441669-50441688 None:intergenic 40.0%
CTACGTCTCTCCGATACAAT+CGG - chr7_4:50441428-50441447 Msa1160480:CDS 45.0%
! GTGACGGTTACCGATTGTAT+CGG + chr7_4:50441441-50441460 None:intergenic 45.0%
CGAAGTCTACGAACAAGTGA+CGG + chr7_4:50441457-50441476 None:intergenic 45.0%
! GGTTTGGAATCGGAAGTTGA+CGG + chr7_4:50441608-50441627 None:intergenic 45.0%
AAGAAACCGGACCTTAGGTT+TGG + chr7_4:50441624-50441643 None:intergenic 45.0%
! CCGAATTTTCTTCTTCGTCG+TGG - chr7_4:50441666-50441685 Msa1160480:CDS 45.0%
! CAGCTTTAACAGAGCTCCGA+CGG + chr7_4:50441535-50441554 None:intergenic 50.0%
! CCGGACCTTAGGTTTGGAAT+CGG + chr7_4:50441618-50441637 None:intergenic 50.0%
CCGATTCCAAACCTAAGGTC+CGG - chr7_4:50441615-50441634 Msa1160480:CDS 50.0%
GGATGAAGAAACCGGACCTT+AGG + chr7_4:50441629-50441648 None:intergenic 50.0%
CGCTTGGTATTACGGCGGAA+AGG + chr7_4:50441482-50441501 None:intergenic 55.0%
TGCAGCGCTTGGTATTACGG+CGG + chr7_4:50441487-50441506 None:intergenic 55.0%
GGCTGCAGCGCTTGGTATTA+CGG + chr7_4:50441490-50441509 None:intergenic 55.0%
GAATCGCCGGCGTCAATCTA+CGG + chr7_4:50441511-50441530 None:intergenic 55.0%
GAAGTTGACGGCGAAGAAGG+AGG + chr7_4:50441596-50441615 None:intergenic 55.0%
TCGGAAGTTGACGGCGAAGA+AGG + chr7_4:50441599-50441618 None:intergenic 55.0%
!! GGCGCTGAACACGGTGTCAT+CGG - chr7_4:50441388-50441407 Msa1160480:CDS 60.0%
CAATCTACGGCTGCAGCGCT+TGG + chr7_4:50441498-50441517 None:intergenic 60.0%
CTGCAGCCGTAGATTGACGC+CGG - chr7_4:50441502-50441521 Msa1160480:CDS 60.0%
GTTGACGGCGAAGAAGGAGG+AGG + chr7_4:50441593-50441612 None:intergenic 60.0%
TGACGCCGGCGATTCTCCGT+CGG - chr7_4:50441516-50441535 Msa1160480:CDS 65.0%
GAGCTCCGACGGAGAATCGC+CGG + chr7_4:50441524-50441543 None:intergenic 65.0%
GGCGAAGAAGGAGGAGGAGC+AGG + chr7_4:50441587-50441606 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
chr7_4 gene 50441386 50441697 50441386 ID=Msa1160480;Name=Msa1160480
chr7_4 mRNA 50441386 50441697 50441386 ID=Msa1160480-mRNA-1;Parent=Msa1160480;Name=Msa1160480-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|-1|0|1|-1|1|1|0|103
chr7_4 exon 50441386 50441697 50441386 ID=Msa1160480-mRNA-1:exon:14074;Parent=Msa1160480-mRNA-1
chr7_4 CDS 50441386 50441697 50441386 ID=Msa1160480-mRNA-1:cds;Parent=Msa1160480-mRNA-1
Gene Sequence

>Msa1160480

ATGGCGCTGAACACGGTGTCATCGGTTTCTCTTTCTCAAGTGCTACGTCTCTCCGATACAATCGGTAACCGTCACTTGTTCGTAGACTTCGCTCCTTTCCGCCGTAATACCAAGCGCTGCAGCCGTAGATTGACGCCGGCGATTCTCCGTCGGAGCTCTGTTAAAGCTGTTCTTCAACTTGATAATAATCATCTCAATCCTGCTCCTCCTCCTTCTTCGCCGTCAACTTCCGATTCCAAACCTAAGGTCCGGTTTCTTCATCCGTTGCTATTTTTGCACACCGAATTTTCTTCTTCGTCGTGGATTTCGTAG

Protein sequence

>Msa1160480

MALNTVSSVSLSQVLRLSDTIGNRHLFVDFAPFRRNTKRCSRRLTPAILRRSSVKAVLQLDNNHLNPAPPPSSPSTSDSKPKVRFLHPLLFLHTEFSSSSWIS*