AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001071.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001071.01.T01 MTR_1g029990 93.636 110 7 0 1 110 1 110 1.94e-65 193
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001071.01.T01 AT1G44414 63.636 110 31 2 1 110 1 101 4.73e-44 139

Find 36 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGTTCTTCTTCTTTGC+AGG 0.269891 1:+15611185 None:intergenic
CAGCGGTGGTTCAACGTTGC+CGG 0.362958 1:+15611418 MsG0180001071.01.T01:CDS
GTTCCCGTTTGGCGGTGGCC+AGG 0.363736 1:+15611320 MsG0180001071.01.T01:CDS
TACCGACATCGCAAGGCTTC+CGG 0.400549 1:-15611437 None:intergenic
GTTCGCCAGGTGGTGAAATC+AGG 0.405267 1:+15611224 MsG0180001071.01.T01:CDS
TTCCCTGGCCACCGCCAAAC+GGG 0.406298 1:-15611323 None:intergenic
CTTCCCTGGCCACCGCCAAA+CGG 0.426962 1:-15611324 None:intergenic
ATTTCACCACCTGGCGAACC+TGG 0.448778 1:-15611220 None:intergenic
CCACCGCTGAACGGCGGAGG+AGG 0.452717 1:-15611404 None:intergenic
TTCCCGTTTGGCGGTGGCCA+GGG 0.453465 1:+15611321 MsG0180001071.01.T01:CDS
TGCGATGTCGGTACTGTGAT+CGG 0.460955 1:+15611447 MsG0180001071.01.T01:CDS
TACAGTTGTTCACCACAGTA+AGG 0.478529 1:-15611497 None:intergenic
CGCTGAACGGCGGAGGAGGA+AGG 0.489136 1:-15611400 None:intergenic
TGCAGGAGGGTTAGAAAACC+AGG 0.493973 1:+15611202 MsG0180001071.01.T01:CDS
TACAAAAGAGTTTCCTTCCC+TGG 0.503579 1:-15611338 None:intergenic
GTTAGAAAACCAGGTTCGCC+AGG 0.505813 1:+15611211 MsG0180001071.01.T01:CDS
TCTTCGTTCCCGTTTGGCGG+TGG 0.506122 1:+15611315 MsG0180001071.01.T01:CDS
GGAGGAAGGGAATGCGATTG+AGG 0.522381 1:-15611386 None:intergenic
TGCCGGAAGCCTTGCGATGT+CGG 0.532323 1:+15611435 MsG0180001071.01.T01:CDS
CGTTTGGCGGTGGCCAGGGA+AGG 0.537051 1:+15611325 MsG0180001071.01.T01:CDS
ATGTTCTTCTTCTTTGCAGG+AGG 0.539886 1:+15611188 MsG0180001071.01.T01:CDS
GAACCACCGCTGAACGGCGG+AGG 0.540583 1:-15611407 None:intergenic
CCTCCTCCGCCGTTCAGCGG+TGG 0.547007 1:+15611404 MsG0180001071.01.T01:CDS
CTTCCTCCTCCGCCGTTCAG+CGG 0.551469 1:+15611401 MsG0180001071.01.T01:CDS
GCTGAACGGCGGAGGAGGAA+GGG 0.555153 1:-15611399 None:intergenic
TGTTCTTCTTCTTTGCAGGA+GGG 0.566427 1:+15611189 MsG0180001071.01.T01:CDS
CCACACCTGATTTCACCACC+TGG 0.568190 1:-15611229 None:intergenic
AACGTTGAACCACCGCTGAA+CGG 0.577584 1:-15611413 None:intergenic
CCAGGTGGTGAAATCAGGTG+TGG 0.601448 1:+15611229 MsG0180001071.01.T01:CDS
ATCACAGTACCGACATCGCA+AGG 0.607291 1:-15611444 None:intergenic
CAGGTGGTGAAATCAGGTGT+GGG 0.626180 1:+15611230 MsG0180001071.01.T01:CDS
TTCACGTTCTGTCCTTACTG+TGG 0.627118 1:+15611485 MsG0180001071.01.T01:CDS
TGGTGAAATCAGGTGTGGGA+AGG 0.629446 1:+15611234 MsG0180001071.01.T01:CDS
AGAAAACCAGGTTCGCCAGG+TGG 0.662890 1:+15611214 MsG0180001071.01.T01:CDS
GTTGAACCACCGCTGAACGG+CGG 0.676269 1:-15611410 None:intergenic
GTACTGTGATCGGAATGTAG+CGG 0.728562 1:+15611457 MsG0180001071.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTCTTCTTCTTTGCAGG+AGG + Chr1:15611188-15611207 MsG0180001071.01.T01:CDS 40.0%
TACAAAAGAGTTTCCTTCCC+TGG - Chr1:15611341-15611360 None:intergenic 40.0%
TACAGTTGTTCACCACAGTA+AGG - Chr1:15611500-15611519 None:intergenic 40.0%
TGTTCTTCTTCTTTGCAGGA+GGG + Chr1:15611189-15611208 MsG0180001071.01.T01:CDS 40.0%
GTACTGTGATCGGAATGTAG+CGG + Chr1:15611457-15611476 MsG0180001071.01.T01:CDS 45.0%
TTCACGTTCTGTCCTTACTG+TGG + Chr1:15611485-15611504 MsG0180001071.01.T01:CDS 45.0%
! AGCTTTTCTTCGTTCCCGTT+TGG + Chr1:15611309-15611328 MsG0180001071.01.T01:CDS 45.0%
! TTTTCTTCGTTCCCGTTTGG+CGG + Chr1:15611312-15611331 MsG0180001071.01.T01:CDS 45.0%
AACGTTGAACCACCGCTGAA+CGG - Chr1:15611416-15611435 None:intergenic 50.0%
CAGGTGGTGAAATCAGGTGT+GGG + Chr1:15611230-15611249 MsG0180001071.01.T01:CDS 50.0%
GTTAGAAAACCAGGTTCGCC+AGG + Chr1:15611211-15611230 MsG0180001071.01.T01:CDS 50.0%
TGCAGGAGGGTTAGAAAACC+AGG + Chr1:15611202-15611221 MsG0180001071.01.T01:CDS 50.0%
TGCGATGTCGGTACTGTGAT+CGG + Chr1:15611447-15611466 MsG0180001071.01.T01:CDS 50.0%
TGGTGAAATCAGGTGTGGGA+AGG + Chr1:15611234-15611253 MsG0180001071.01.T01:CDS 50.0%
!! ATCACAGTACCGACATCGCA+AGG - Chr1:15611447-15611466 None:intergenic 50.0%
AGAAAACCAGGTTCGCCAGG+TGG + Chr1:15611214-15611233 MsG0180001071.01.T01:CDS 55.0%
ATTTCACCACCTGGCGAACC+TGG - Chr1:15611223-15611242 None:intergenic 55.0%
CCACACCTGATTTCACCACC+TGG - Chr1:15611232-15611251 None:intergenic 55.0%
CCAGGTGGTGAAATCAGGTG+TGG + Chr1:15611229-15611248 MsG0180001071.01.T01:CDS 55.0%
GGAGGAAGGGAATGCGATTG+AGG - Chr1:15611389-15611408 None:intergenic 55.0%
GTTCGCCAGGTGGTGAAATC+AGG + Chr1:15611224-15611243 MsG0180001071.01.T01:CDS 55.0%
TACCGACATCGCAAGGCTTC+CGG - Chr1:15611440-15611459 None:intergenic 55.0%
CAGCGGTGGTTCAACGTTGC+CGG + Chr1:15611418-15611437 MsG0180001071.01.T01:CDS 60.0%
GTTGAACCACCGCTGAACGG+CGG - Chr1:15611413-15611432 None:intergenic 60.0%
TCTTCGTTCCCGTTTGGCGG+TGG + Chr1:15611315-15611334 MsG0180001071.01.T01:CDS 60.0%
TGCCGGAAGCCTTGCGATGT+CGG + Chr1:15611435-15611454 MsG0180001071.01.T01:CDS 60.0%
CTTCCCTGGCCACCGCCAAA+CGG - Chr1:15611327-15611346 None:intergenic 65.0%
CTTCCTCCTCCGCCGTTCAG+CGG + Chr1:15611401-15611420 MsG0180001071.01.T01:CDS 65.0%
GCTGAACGGCGGAGGAGGAA+GGG - Chr1:15611402-15611421 None:intergenic 65.0%
TTCCCGTTTGGCGGTGGCCA+GGG + Chr1:15611321-15611340 MsG0180001071.01.T01:CDS 65.0%
TTCCCTGGCCACCGCCAAAC+GGG - Chr1:15611326-15611345 None:intergenic 65.0%
CGCTGAACGGCGGAGGAGGA+AGG - Chr1:15611403-15611422 None:intergenic 70.0%
CGTTTGGCGGTGGCCAGGGA+AGG + Chr1:15611325-15611344 MsG0180001071.01.T01:CDS 70.0%
GAACCACCGCTGAACGGCGG+AGG - Chr1:15611410-15611429 None:intergenic 70.0%
GTTCCCGTTTGGCGGTGGCC+AGG + Chr1:15611320-15611339 MsG0180001071.01.T01:CDS 70.0%
CCACCGCTGAACGGCGGAGG+AGG - Chr1:15611407-15611426 None:intergenic 75.0%
CCTCCTCCGCCGTTCAGCGG+TGG + Chr1:15611404-15611423 MsG0180001071.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
Chr1 gene 15611188 15611520 15611188 ID=MsG0180001071.01;Name=MsG0180001071.01
Chr1 mRNA 15611188 15611520 15611188 ID=MsG0180001071.01.T01;Parent=MsG0180001071.01;Name=MsG0180001071.01.T01;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|1|1|0|110
Chr1 exon 15611188 15611520 15611188 ID=MsG0180001071.01.T01:exon:12272;Parent=MsG0180001071.01.T01
Chr1 CDS 15611188 15611520 15611188 ID=MsG0180001071.01.T01:cds;Parent=MsG0180001071.01.T01
Gene Sequence

>MsG0180001071.01.T01

ATGTTCTTCTTCTTTGCAGGAGGGTTAGAAAACCAGGTTCGCCAGGTGGTGAAATCAGGTGTGGGAAGGTGCATCAACTGCAATTCACGCGCTGATCTTGTTGAATACGATAAAGTTCTGAAGCTTTTCTTCGTTCCCGTTTGGCGGTGGCCAGGGAAGGAAACTCTTTTGTATTGTCAAGACTGCAAGTTCATGTTTCCTCAATCGCATTCCCTTCCTCCTCCGCCGTTCAGCGGTGGTTCAACGTTGCCGGAAGCCTTGCGATGTCGGTACTGTGATCGGAATGTAGCGGTTGATTTCACGTTCTGTCCTTACTGTGGTGAACAACTGTAA
Protein sequence

>MsG0180001071.01.T01

MFFFFAGGLENQVRQVVKSGVGRCINCNSRADLVEYDKVLKLFFVPVWRWPGKETLLYCQDCKFMFPQSHSLPPPPFSGGSTLPEALRCRYCDRNVAVDFTFCPYCGEQL*