AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001070.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001070.01.T01 MTR_1g029860 94.615 130 7 0 1 130 50 179 5.59e-89 256
MsG0180001070.01.T01 MTR_1g029910 50.000 128 60 3 3 130 72 195 3.64e-35 120
MsG0180001070.01.T01 MTR_5g094680 36.957 138 75 4 1 127 83 219 7.40e-25 94.7
MsG0180001070.01.T01 MTR_8g085520 34.228 149 77 5 1 129 3 150 6.33e-20 80.5
MsG0180001070.01.T01 MTR_5g006240 34.667 150 72 4 1 129 82 226 1.51e-19 80.9
MsG0180001070.01.T01 MTR_5g037840 37.313 134 53 3 24 129 1 131 2.34e-19 78.2
MsG0180001070.01.T01 MTR_5g037810 36.567 134 54 3 24 129 1 131 2.46e-18 75.5
MsG0180001070.01.T01 MTR_8g085550 36.735 147 67 5 4 129 9 150 3.05e-18 75.9
MsG0180001070.01.T01 MTR_7g093310 31.933 119 69 4 12 129 31 138 4.89e-14 64.7
MsG0180001070.01.T01 MTR_8g085530 48.077 52 26 1 75 126 245 295 7.72e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATATGATCATTGAATTT+CGG 0.294019 1:+15562355 MsG0180001069.01.T01:intron
CATCGAAGGACGTCGTATAT+TGG 0.300905 1:-15562630 MsG0180001070.01.T01:CDS
ACCGAGCAACACACTGTTGA+TGG 0.376620 1:+15562432 MsG0180001069.01.T01:intron
TGCAGATACCGCTTGTTCAA+TGG 0.408956 1:-15562537 MsG0180001070.01.T01:CDS
ACAATGCTCAATTTGTTTGA+AGG 0.447677 1:-15562513 MsG0180001070.01.T01:CDS
CACTTGGTACGAACAATGCC+TGG 0.480453 1:+15562467 MsG0180001069.01.T01:intron
TCCATCAACAGTGTGTTGCT+CGG 0.494652 1:-15562433 MsG0180001070.01.T01:CDS
TTCAACACTTCGGAAGGAAT+AGG 0.497761 1:+15562704 MsG0180001069.01.T01:intron
GAAGCATGCTTTACTTCGCA+TGG 0.540601 1:-15562684 MsG0180001070.01.T01:CDS
AAGCATGCTTTACTTCGCAT+GGG 0.564308 1:-15562683 MsG0180001070.01.T01:CDS
GTATGCGAGAAATATGATTA+CGG 0.565646 1:-15562657 MsG0180001070.01.T01:CDS
TTCGGAACGACACAATGGAC+AGG 0.575041 1:+15562373 MsG0180001069.01.T01:intron
AACGAATGTCATGAATTCGT+TGG 0.583343 1:-15562582 MsG0180001070.01.T01:CDS
GCATTGTTCCATTGAACAAG+CGG 0.583792 1:+15562529 MsG0180001069.01.T01:intron
GCATGCTTCAACACTTCGGA+AGG 0.589552 1:+15562698 MsG0180001069.01.T01:intron
TAAAGCATGCTTCAACACTT+CGG 0.596936 1:+15562694 MsG0180001069.01.T01:intron
ATGATTACGGTCAACATCGA+AGG 0.603646 1:-15562644 MsG0180001070.01.T01:CDS
ATGGAAAACATGCATGCACT+TGG 0.606258 1:+15562451 MsG0180001069.01.T01:intron
TACAATGAAACAGAAGTACC+AGG 0.606558 1:-15562485 MsG0180001070.01.T01:CDS
TGAATTTCGGAACGACACAA+TGG 0.618892 1:+15562368 MsG0180001069.01.T01:intron
ATCAACAGTGTGTTGCTCGG+TGG 0.626740 1:-15562430 MsG0180001070.01.T01:CDS
TTCGTTGGAGAAGATCAAAG+TGG 0.661611 1:-15562567 MsG0180001070.01.T01:CDS
TTCGGAAGGAATAGGCACGA+TGG 0.689899 1:+15562712 MsG0180001069.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTATGCGAGAAATATGATTA+CGG - Chr1:15562441-15562460 MsG0180001070.01.T01:CDS 30.0%
! ACAATGCTCAATTTGTTTGA+AGG - Chr1:15562585-15562604 MsG0180001070.01.T01:CDS 30.0%
AACGAATGTCATGAATTCGT+TGG - Chr1:15562516-15562535 MsG0180001070.01.T01:CDS 35.0%
TAAAGCATGCTTCAACACTT+CGG + Chr1:15562407-15562426 MsG0180001069.01.T01:intron 35.0%
!! TACAATGAAACAGAAGTACC+AGG - Chr1:15562613-15562632 MsG0180001070.01.T01:CDS 35.0%
AAGCATGCTTTACTTCGCAT+GGG - Chr1:15562415-15562434 MsG0180001070.01.T01:CDS 40.0%
ATGATTACGGTCAACATCGA+AGG - Chr1:15562454-15562473 MsG0180001070.01.T01:CDS 40.0%
ATGGAAAACATGCATGCACT+TGG + Chr1:15562650-15562669 MsG0180001069.01.T01:intron 40.0%
GCATTGTTCCATTGAACAAG+CGG + Chr1:15562572-15562591 MsG0180001069.01.T01:intron 40.0%
TGAATTTCGGAACGACACAA+TGG + Chr1:15562733-15562752 MsG0180001069.01.T01:intron 40.0%
TTCAACACTTCGGAAGGAAT+AGG + Chr1:15562397-15562416 MsG0180001069.01.T01:intron 40.0%
TTCGTTGGAGAAGATCAAAG+TGG - Chr1:15562531-15562550 MsG0180001070.01.T01:CDS 40.0%
CATCGAAGGACGTCGTATAT+TGG - Chr1:15562468-15562487 MsG0180001070.01.T01:CDS 45.0%
GAAGCATGCTTTACTTCGCA+TGG - Chr1:15562414-15562433 MsG0180001070.01.T01:CDS 45.0%
TGCAGATACCGCTTGTTCAA+TGG - Chr1:15562561-15562580 MsG0180001070.01.T01:CDS 45.0%
! TCCATCAACAGTGTGTTGCT+CGG - Chr1:15562665-15562684 MsG0180001070.01.T01:CDS 45.0%
ACCGAGCAACACACTGTTGA+TGG + Chr1:15562669-15562688 MsG0180001069.01.T01:intron 50.0%
CACTTGGTACGAACAATGCC+TGG + Chr1:15562634-15562653 MsG0180001069.01.T01:intron 50.0%
GCATGCTTCAACACTTCGGA+AGG + Chr1:15562403-15562422 MsG0180001069.01.T01:intron 50.0%
TTCGGAACGACACAATGGAC+AGG + Chr1:15562728-15562747 MsG0180001069.01.T01:intron 50.0%
TTCGGAAGGAATAGGCACGA+TGG + Chr1:15562389-15562408 MsG0180001069.01.T01:intron 50.0%
! ATCAACAGTGTGTTGCTCGG+TGG - Chr1:15562668-15562687 MsG0180001070.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 15562364 15562756 15562364 ID=MsG0180001070.01;Name=MsG0180001070.01
Chr1 mRNA 15562364 15562756 15562364 ID=MsG0180001070.01.T01;Parent=MsG0180001070.01;Name=MsG0180001070.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|130
Chr1 exon 15562364 15562756 15562364 ID=MsG0180001070.01.T01:exon:12273;Parent=MsG0180001070.01.T01
Chr1 CDS 15562364 15562756 15562364 ID=MsG0180001070.01.T01:cds;Parent=MsG0180001070.01.T01
Gene Sequence

>MsG0180001070.01.T01

ATGTTTTTACTCAACACTTTCTCCATCGTGCCTATTCCTTCCGAAGTGTTGAAGCATGCTTTACTTCGCATGGGTGAGTATGCGAGAAATATGATTACGGTCAACATCGAAGGACGTCGTATATTGGAGATGAATGTTACTGTTCACGATGTAACGAATGTCATGAATTCGTTGGAGAAGATCAAAGTGGAAGACATTGCAGATACCGCTTGTTCAATGGAACAATGCTCAATTTGTTTGAAGGAGTTTTACAATGAAACAGAAGTACCAGGCATTGTTCGTACCAAGTGCATGCATGTTTTCCATCAACAGTGTGTTGCTCGGTGGCTTATGCAGTGTTGCATTAGCAATCGATTATATTCCTGTCCATTGTGTCGTTCCGAAATTCAATGA
Protein sequence

>MsG0180001070.01.T01

MFLLNTFSIVPIPSEVLKHALLRMGEYARNMITVNIEGRRILEMNVTVHDVTNVMNSLEKIKVEDIADTACSMEQCSICLKEFYNETEVPGIVRTKCMHVFHQQCVARWLMQCCISNRLYSCPLCRSEIQ*