AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008322

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008322 MtrunA17_Chr5g0393511 65.823 79 27 0 79 157 15 93 2.37e-31 110
MsaG008322 MtrunA17_Chr8g0359031 72.059 68 19 0 90 157 26 93 3.20e-31 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATGCAGCACTTTCCTAAA+TGG 0.195617 2:-32556362 MsaT008322.1:intron
GAAGAATCAGCTACCCATTT+AGG 0.222831 2:+32556348 None:intergenic
CCTTTACCTATGAAATATTC+AGG 0.293308 2:+32556234 None:intergenic
TCACAGAAATTCTTCATGTT+GGG 0.354778 2:-32556144 MsaT008322.1:CDS
CCACGTTAAGATTGAGATCC+TGG 0.378443 2:+32556196 None:intergenic
ACACGTACAAGATTATGATT+TGG 0.385022 2:+32555225 None:intergenic
ATTGGCTTCAGCAATATGTT+TGG 0.387614 2:+32555374 None:intergenic
AAACTGATGAAACAACTAAC+TGG 0.395133 2:-32556284 MsaT008322.1:CDS
CCAGCTCGTGTTTGGCTTGG+AGG 0.398723 2:-32556169 MsaT008322.1:CDS
AAAACAGGAGGCACTTCAAC+TGG 0.411351 2:+32555300 None:intergenic
TTTCTCTTAACATTCAAAAC+AGG 0.413783 2:+32555285 None:intergenic
TTCTTCATTCATTAGAGTTA+CGG 0.416555 2:+32556305 None:intergenic
AGAGTTACGGTATCAATAGT+TGG 0.416559 2:+32556318 None:intergenic
GTGGGAGACCAGCTCGTGTT+TGG 0.418194 2:-32556177 MsaT008322.1:CDS
GAATGTTAAGAGAAATTCTT+GGG 0.431550 2:-32555277 MsaT008322.1:CDS
ATCACAGAAATTCTTCATGT+TGG 0.435946 2:-32556145 MsaT008322.1:CDS
AGACCAGCTCGTGTTTGGCT+TGG 0.438939 2:-32556172 MsaT008322.1:CDS
TATGCAGCACTTTCCTAAAT+GGG 0.440092 2:-32556361 MsaT008322.1:intron
TGAATGTTAAGAGAAATTCT+TGG 0.446011 2:-32555278 MsaT008322.1:CDS
CACTTCCTGAGTAACCTCAT+TGG 0.448482 2:+32555356 None:intergenic
GTCAGCATTATGTTCTTCTC+AGG 0.453714 2:+32555092 None:intergenic
ATCCCTCCTGAATATTTCAT+AGG 0.469816 2:-32556240 MsaT008322.1:CDS
CCTGAATATTTCATAGGTAA+AGG 0.472642 2:-32556234 MsaT008322.1:CDS
GAGTTACGGTATCAATAGTT+GGG 0.481384 2:+32556319 None:intergenic
CCTCCAAGCCAAACACGAGC+TGG 0.518337 2:+32556169 None:intergenic
CACAGAAATTCTTCATGTTG+GGG 0.534270 2:-32556143 MsaT008322.1:intron
CACGTTAAGATTGAGATCCT+GGG 0.551244 2:+32556197 None:intergenic
CTCTTAACATTCAAAACAGG+AGG 0.574715 2:+32555288 None:intergenic
TACCTATGAAATATTCAGGA+GGG 0.575074 2:+32556238 None:intergenic
TGAAGCCAATGAGGTTACTC+AGG 0.582017 2:-32555361 MsaT008322.1:CDS
ACGGTATCAATAGTTGGGAG+TGG 0.591362 2:+32556324 None:intergenic
AATATTTCATAGGTAAAGGA+TGG 0.596620 2:-32556230 MsaT008322.1:CDS
TACTCAGGAAGTGACAAAAG+TGG 0.597387 2:-32555346 MsaT008322.1:CDS
CCTTCGTAAGTAAGATGACA+AGG 0.604325 2:+32555125 None:intergenic
ACATATTGCTGAAGCCAATG+AGG 0.619819 2:-32555370 MsaT008322.1:CDS
CCAGGATCTCAATCTTAACG+TGG 0.620737 2:-32556196 MsaT008322.1:CDS
AGGATGGTATAAGTTTGCCC+AGG 0.629082 2:-32556214 MsaT008322.1:CDS
TTACCTATGAAATATTCAGG+AGG 0.638429 2:+32556237 None:intergenic
CCTTGTCATCTTACTTACGA+AGG 0.665161 2:-32555125 MsaT008322.1:CDS
CAGGATCTCAATCTTAACGT+GGG 0.683186 2:-32556195 MsaT008322.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 32555088 32556480 32555088 ID=MsaG008322
Chr2 mRNA 32555088 32556480 32555088 ID=MsaT008322.1;Parent=MsaG008322
Chr2 exon 32555088 32555153 32555088 ID=MsaT008322.1.exon4;Parent=MsaT008322.1
Chr2 CDS 32555088 32555153 32555088 ID=cds.MsaT008322.1;Parent=MsaT008322.1
Chr2 exon 32555233 32555404 32555233 ID=MsaT008322.1.exon3;Parent=MsaT008322.1
Chr2 CDS 32555233 32555404 32555233 ID=cds.MsaT008322.1;Parent=MsaT008322.1
Chr2 exon 32556144 32556376 32556144 ID=MsaT008322.1.exon2;Parent=MsaT008322.1
Chr2 CDS 32556144 32556376 32556144 ID=cds.MsaT008322.1;Parent=MsaT008322.1
Chr2 exon 32556478 32556480 32556478 ID=MsaT008322.1.exon1;Parent=MsaT008322.1
Chr2 CDS 32556478 32556480 32556478 ID=cds.MsaT008322.1;Parent=MsaT008322.1
Gene Sequence

>MsaT008322.1

ATGCACTTTCCTAAATGGGTAGCTGATTCTTCTCCACTCCCAACTATTGATACCGTAACTCTAATGAATGAAGAAACTGATGAAACAACTAACTGGAAAGTGAAAATATCAAACAAAATCCCTCCTGAATATTTCATAGGTAAAGGATGGTATAAGTTTGCCCAGGATCTCAATCTTAACGTGGGAGACCAGCTCGTGTTTGGCTTGGAGGAATCACAGAAATTCTTCATGTTGGGTGTTGGATCCAAACATATTGCTGAAGCCAATGAGGTTACTCAGGAAGTGACAAAAGTGGAACTGATTGACAATTATCGTGAACCAGTTGAAGTGCCTCCTGTTTTGAATGTTAAGAGAAATTCTTGGGAGATGATTGTGACTGCATCTCATGTTCAACCAAATCATAATCTTCGTCTACCTTGTCATCTTACTTACGAAGGTGTTTTGAGTCCTGAGAAGAACATAATGCTGACGTAA
Protein sequence

>MsaT008322.1

MHFPKWVADSSPLPTIDTVTLMNEETDETTNWKVKISNKIPPEYFIGKGWYKFAQDLNLNVGDQLVFGLEESQKFFMLGVGSKHIAEANEVTQEVTKVELIDNYREPVEVPPVLNVKRNSWEMIVTASHVQPNHNLRLPCHLTYEGVLSPEKNIMLT*