AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027319.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027319.01.T01 MTR_5g054770 97.701 87 2 0 3 89 70 156 2.14e-60 181
MsG0580027319.01.T01 MTR_6g085050 83.908 87 14 0 3 89 74 160 2.52e-52 160
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027319.01.T01 AT1G68660 86.207 87 12 0 3 89 73 159 1.45e-53 164
MsG0580027319.01.T01 AT1G68660 57.471 87 7 1 3 89 73 129 3.48e-27 96.3

Find 23 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCATTGTATGCAACTTAG+AGG 0.399829 5:+58384655 MsG0580027319.01.T01:CDS
TTGTGCAATATTACACGATA+TGG 0.414798 5:-58384484 None:intergenic
GCATTATCAAGGGTCATTCC+AGG 0.425052 5:-58384559 None:intergenic
TGATGTTAACTGCATTATCA+AGG 0.464225 5:-58384570 None:intergenic
CTGGCATTTCTAAGATGTGC+AGG 0.481246 5:+58384440 None:intergenic
TGTATGCAACTTAGAGGCAA+TGG 0.502603 5:+58384661 MsG0580027319.01.T01:CDS
CTCAGTTCAATTGAACCTGC+AGG 0.507343 5:+58384688 MsG0580027319.01.T01:CDS
AATGATCTTCAGCATCAGCT+TGG 0.508043 5:-58384639 None:intergenic
ATGATCTTCAGCATCAGCTT+GGG 0.510156 5:-58384638 None:intergenic
GGATCACCTTCATAAGTACT+TGG 0.538715 5:-58384537 None:intergenic
CTAAGATGTGCAGGAAATCA+CGG 0.554342 5:+58384449 None:intergenic
CATCAGCAACCATCACCTGC+AGG 0.555211 5:-58384703 None:intergenic
TGTTGTCCAAGTACTTATGA+AGG 0.564357 5:+58384531 MsG0580027319.01.T01:CDS
GTACTTATGAAGGTGATCCC+TGG 0.569299 5:+58384541 MsG0580027319.01.T01:CDS
TCAATTGAACCTGCAGGTGA+TGG 0.594938 5:+58384694 MsG0580027319.01.T01:CDS
CATTATCAAGGGTCATTCCA+GGG 0.602128 5:-58384558 None:intergenic
GATGTTAACTGCATTATCAA+GGG 0.610327 5:-58384569 None:intergenic
CAATGACAACTTCAACAGAC+GGG 0.612734 5:+58384504 MsG0580027319.01.T01:CDS
TGCAATATTACACGATATGG+CGG 0.626220 5:-58384481 None:intergenic
ACAATGACAACTTCAACAGA+CGG 0.629056 5:+58384503 MsG0580027319.01.T01:CDS
ATGCAAGAAGCTCACCACAA+TGG 0.636426 5:+58384592 MsG0580027319.01.T01:CDS
TCACCACAATGGAATGTCAG+TGG 0.665125 5:+58384603 MsG0580027319.01.T01:CDS
TCACCACTGACATTCCATTG+TGG 0.707546 5:-58384606 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GATGTTAACTGCATTATCAA+GGG - Chr5:58384572-58384591 None:intergenic 30.0%
TGATGTTAACTGCATTATCA+AGG - Chr5:58384573-58384592 None:intergenic 30.0%
TTGTGCAATATTACACGATA+TGG - Chr5:58384487-58384506 None:intergenic 30.0%
ACAATGACAACTTCAACAGA+CGG + Chr5:58384503-58384522 MsG0580027319.01.T01:CDS 35.0%
GATCATTGTATGCAACTTAG+AGG + Chr5:58384655-58384674 MsG0580027319.01.T01:CDS 35.0%
TGCAATATTACACGATATGG+CGG - Chr5:58384484-58384503 None:intergenic 35.0%
TGTTGTCCAAGTACTTATGA+AGG + Chr5:58384531-58384550 MsG0580027319.01.T01:CDS 35.0%
AATGATCTTCAGCATCAGCT+TGG - Chr5:58384642-58384661 None:intergenic 40.0%
ATGATCTTCAGCATCAGCTT+GGG - Chr5:58384641-58384660 None:intergenic 40.0%
CAATGACAACTTCAACAGAC+GGG + Chr5:58384504-58384523 MsG0580027319.01.T01:CDS 40.0%
CATTATCAAGGGTCATTCCA+GGG - Chr5:58384561-58384580 None:intergenic 40.0%
GGATCACCTTCATAAGTACT+TGG - Chr5:58384540-58384559 None:intergenic 40.0%
TGTATGCAACTTAGAGGCAA+TGG + Chr5:58384661-58384680 MsG0580027319.01.T01:CDS 40.0%
ATGCAAGAAGCTCACCACAA+TGG + Chr5:58384592-58384611 MsG0580027319.01.T01:CDS 45.0%
CTCAGTTCAATTGAACCTGC+AGG + Chr5:58384688-58384707 MsG0580027319.01.T01:CDS 45.0%
GCATTATCAAGGGTCATTCC+AGG - Chr5:58384562-58384581 None:intergenic 45.0%
GTACTTATGAAGGTGATCCC+TGG + Chr5:58384541-58384560 MsG0580027319.01.T01:CDS 45.0%
TCAATTGAACCTGCAGGTGA+TGG + Chr5:58384694-58384713 MsG0580027319.01.T01:CDS 45.0%
TCACCACAATGGAATGTCAG+TGG + Chr5:58384603-58384622 MsG0580027319.01.T01:CDS 45.0%
TCACCACTGACATTCCATTG+TGG - Chr5:58384609-58384628 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 58384454 58384723 58384454 ID=MsG0580027319.01;Name=MsG0580027319.01
Chr5 mRNA 58384454 58384723 58384454 ID=MsG0580027319.01.T01;Parent=MsG0580027319.01;Name=MsG0580027319.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|89
Chr5 exon 58384454 58384723 58384454 ID=MsG0580027319.01.T01:exon:21867;Parent=MsG0580027319.01.T01
Chr5 CDS 58384454 58384723 58384454 ID=MsG0580027319.01.T01:cds;Parent=MsG0580027319.01.T01
Gene Sequence

>MsG0580027319.01.T01

ATGTGCAGGAAATCACGGAAAACAGCGCCGCCATATCGTGTAATATTGCACAATGACAACTTCAACAGACGGGAGTATGTTGTCCAAGTACTTATGAAGGTGATCCCTGGAATGACCCTTGATAATGCAGTTAACATCATGCAAGAAGCTCACCACAATGGAATGTCAGTGGTGATTATATGTGCCCAAGCTGATGCTGAAGATCATTGTATGCAACTTAGAGGCAATGGATTACTCAGTTCAATTGAACCTGCAGGTGATGGTTGCTGA

Protein sequence

>MsG0580027319.01.T01

MCRKSRKTAPPYRVILHNDNFNRREYVVQVLMKVIPGMTLDNAVNIMQEAHHNGMSVVIICAQADAEDHCMQLRGNGLLSSIEPAGDGC*