AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1095400


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1095400 MtrunA17_Chr7g0223401 93.431 137 9 0 1 137 6 142 1.73e-90 258
Msa1095400 MtrunA17_Chr7g0223391 91.971 137 11 0 1 137 18 154 1.02e-89 257
Msa1095400 MtrunA17_Chr8g0356181 48.571 140 69 1 1 137 1 140 7.71e-41 133
Msa1095400 MtrunA17_Chr1g0190921 37.405 131 77 2 1 131 1 126 4.72e-19 77.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1095400 AT2G44310.1 46.715 137 71 1 1 135 1 137 1.10e-38 128

Find 28 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCTTCATCTTCAAGGAAA+TGG 0.295262 7_3:-18247101 None:intergenic
TAAACACGAGCAAGCTCGTT+TGG 0.337682 7_3:-18247264 None:intergenic
TAAATGCTTCTTCATCTTCA+AGG 0.342383 7_3:-18247107 None:intergenic
CTTGCAATGGCAGATGGGTT+GGG 0.381320 7_3:+18247372 Msa1095400:CDS
CATGCCAATTCAAATGGTCT+TGG 0.391639 7_3:+18247398 Msa1095400:CDS
TCTTCCAAGACCATTTGAAT+TGG 0.395041 7_3:-18247402 None:intergenic
TTAATAGCTTGGTAGGTAAT+CGG 0.402120 7_3:+18247127 Msa1095400:CDS
CTTGAATGGCACAATTGATC+TGG 0.437675 7_3:+18247317 Msa1095400:CDS
GGGTTTCATGCCAATTCAAA+TGG 0.441784 7_3:+18247392 Msa1095400:CDS
TGAAGAAGCATTTAATAGCT+TGG 0.442582 7_3:+18247116 Msa1095400:CDS
CTCCTTCAACATCTCTTCAT+AGG 0.458078 7_3:-18247187 None:intergenic
GCTTGCAATGGCAGATGGGT+TGG 0.461788 7_3:+18247371 Msa1095400:CDS
AAACACGAGCAAGCTCGTTT+GGG 0.462526 7_3:-18247263 None:intergenic
GAAGGAGCTCCGGAGCTTGA+GGG 0.481338 7_3:+18247203 Msa1095400:CDS
CAGTTCGATCACAACTTGAA+TGG 0.485615 7_3:+18247303 Msa1095400:CDS
CTCCTATGAAGAGATGTTGA+AGG 0.486473 7_3:+18247185 Msa1095400:CDS
GAAGCATTTAATAGCTTGGT+AGG 0.494927 7_3:+18247120 Msa1095400:CDS
TTTCGAAAACCCTCAAGCTC+CGG 0.514432 7_3:-18247212 None:intergenic
TGAAGGAGCTCCGGAGCTTG+AGG 0.522904 7_3:+18247202 Msa1095400:CDS
AATACACTTTGGTATTGATG+TGG 0.523958 7_3:+18247233 Msa1095400:CDS
AAGAGATGTTGAAGGAGCTC+CGG 0.525969 7_3:+18247193 Msa1095400:CDS
TGAAAGAGAGTACAATAAAG+TGG 0.551009 7_3:+18247449 Msa1095400:CDS
ATGATGCTTGCAATGGCAGA+TGG 0.558625 7_3:+18247366 Msa1095400:CDS
GACCGTCGTTGTTTGTGTCG+AGG 0.574792 7_3:-18247158 None:intergenic
TTCAAGGAAATGGAAAATTG+TGG 0.612346 7_3:-18247091 None:intergenic
TAAGCAGATGATGCTTGCAA+TGG 0.622742 7_3:+18247359 Msa1095400:CDS
TGATGCTTGCAATGGCAGAT+GGG 0.629974 7_3:+18247367 Msa1095400:CDS
CGCCTCGACACAAACAACGA+CGG 0.676658 7_3:+18247156 Msa1095400:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAGTGTAGAAATTTTAGA+TGG + chr7_3:18247066-18247085 Msa1095400:CDS 25.0%
!! TGAGTGTAGAAATTTTAGAT+GGG + chr7_3:18247067-18247086 Msa1095400:CDS 25.0%
! GAGTGTAGAAATTTTAGATG+GGG + chr7_3:18247068-18247087 Msa1095400:CDS 30.0%
TTCAAGGAAATGGAAAATTG+TGG - chr7_3:18247094-18247113 None:intergenic 30.0%
TAAATGCTTCTTCATCTTCA+AGG - chr7_3:18247110-18247129 None:intergenic 30.0%
!! TGAAGAAGCATTTAATAGCT+TGG + chr7_3:18247116-18247135 Msa1095400:CDS 30.0%
TTAATAGCTTGGTAGGTAAT+CGG + chr7_3:18247127-18247146 Msa1095400:CDS 30.0%
!! AATACACTTTGGTATTGATG+TGG + chr7_3:18247233-18247252 Msa1095400:CDS 30.0%
! TGAAAGAGAGTACAATAAAG+TGG + chr7_3:18247449-18247468 Msa1095400:CDS 30.0%
CTTCTTCATCTTCAAGGAAA+TGG - chr7_3:18247104-18247123 None:intergenic 35.0%
! GAAGCATTTAATAGCTTGGT+AGG + chr7_3:18247120-18247139 Msa1095400:CDS 35.0%
! AGGGTTTTCGAAATACACTT+TGG + chr7_3:18247222-18247241 Msa1095400:CDS 35.0%
TCTTCCAAGACCATTTGAAT+TGG - chr7_3:18247405-18247424 None:intergenic 35.0%
!! CTCTTTCAACAGCTATTTTG+AGG - chr7_3:18247437-18247456 None:intergenic 35.0%
CTCCTATGAAGAGATGTTGA+AGG + chr7_3:18247185-18247204 Msa1095400:CDS 40.0%
CTCCTTCAACATCTCTTCAT+AGG - chr7_3:18247190-18247209 None:intergenic 40.0%
CAGTTCGATCACAACTTGAA+TGG + chr7_3:18247303-18247322 Msa1095400:CDS 40.0%
CTTGAATGGCACAATTGATC+TGG + chr7_3:18247317-18247336 Msa1095400:CDS 40.0%
TAAGCAGATGATGCTTGCAA+TGG + chr7_3:18247359-18247378 Msa1095400:CDS 40.0%
GGGTTTCATGCCAATTCAAA+TGG + chr7_3:18247392-18247411 Msa1095400:CDS 40.0%
CATGCCAATTCAAATGGTCT+TGG + chr7_3:18247398-18247417 Msa1095400:CDS 40.0%
AAGAGATGTTGAAGGAGCTC+CGG + chr7_3:18247193-18247212 Msa1095400:CDS 45.0%
TTTCGAAAACCCTCAAGCTC+CGG - chr7_3:18247215-18247234 None:intergenic 45.0%
AAACACGAGCAAGCTCGTTT+GGG - chr7_3:18247266-18247285 None:intergenic 45.0%
TAAACACGAGCAAGCTCGTT+TGG - chr7_3:18247267-18247286 None:intergenic 45.0%
ATGATGCTTGCAATGGCAGA+TGG + chr7_3:18247366-18247385 Msa1095400:CDS 45.0%
TGATGCTTGCAATGGCAGAT+GGG + chr7_3:18247367-18247386 Msa1095400:CDS 45.0%
! CTTGCAATGGCAGATGGGTT+GGG + chr7_3:18247372-18247391 Msa1095400:CDS 50.0%
CGCCTCGACACAAACAACGA+CGG + chr7_3:18247156-18247175 Msa1095400:CDS 55.0%
GACCGTCGTTGTTTGTGTCG+AGG - chr7_3:18247161-18247180 None:intergenic 55.0%
GCTTGCAATGGCAGATGGGT+TGG + chr7_3:18247371-18247390 Msa1095400:CDS 55.0%
TGAAGGAGCTCCGGAGCTTG+AGG + chr7_3:18247202-18247221 Msa1095400:CDS 60.0%
GAAGGAGCTCCGGAGCTTGA+GGG + chr7_3:18247203-18247222 Msa1095400:CDS 60.0%
Chromosome Type Strat End Strand Name
chr7_3 gene 18247066 18247479 18247066 ID=Msa1095400;Name=Msa1095400
chr7_3 mRNA 18247066 18247479 18247066 ID=Msa1095400-mRNA-1;Parent=Msa1095400;Name=Msa1095400-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|137
chr7_3 exon 18247066 18247479 18247066 ID=Msa1095400-mRNA-1:exon:3961;Parent=Msa1095400-mRNA-1
chr7_3 CDS 18247066 18247479 18247066 ID=Msa1095400-mRNA-1:cds;Parent=Msa1095400-mRNA-1
Gene Sequence

>Msa1095400

ATGAGTGTAGAAATTTTAGATGGGGCCACAATTTTCCATTTCCTTGAAGATGAAGAAGCATTTAATAGCTTGGTAGGTAATCGGTTTGCTCGCCTCGACACAAACAACGACGGTCTTCTCTCCTATGAAGAGATGTTGAAGGAGCTCCGGAGCTTGAGGGTTTTCGAAATACACTTTGGTATTGATGTGGATTCAGACCCAAACGAGCTTGCTCGTGTTTATGAATCTTTGTTCATACAGTTCGATCACAACTTGAATGGCACAATTGATCTGGAAGAATTCAAGAAAGAAACTAAGCAGATGATGCTTGCAATGGCAGATGGGTTGGGTTTCATGCCAATTCAAATGGTCTTGGAAGAAGACAGCATCCTCAAAATAGCTGTTGAAAGAGAGTACAATAAAGTGGCAGCTTAA

Protein sequence

>Msa1095400

MSVEILDGATIFHFLEDEEAFNSLVGNRFARLDTNNDGLLSYEEMLKELRSLRVFEIHFGIDVDSDPNELARVYESLFIQFDHNLNGTIDLEEFKKETKQMMLAMADGLGFMPIQMVLEEDSILKIAVEREYNKVAA*