AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003601

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003601 MtrunA17_Chr4g0031161 59.890 182 70 2 1 179 1 182 1.60e-65 199
MsaG003601 MtrunA17_Chr1g0187701 51.667 180 58 6 2 179 4 156 1.70e-46 150
MsaG003601 MtrunA17_Chr1g0187511 34.104 173 73 5 13 179 8 145 2.99e-20 82.0
MsaG003601 MtrunA17_Chr1g0187541 33.136 169 78 5 13 179 11 146 2.73e-17 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTACTATTGGAAAATT+TGG 0.112651 1:-59391137 None:intergenic
GAAAATGGGTTGTCATTAAT+TGG 0.221537 1:-59391040 None:intergenic
ACAACCTCTCATGTCATCTT+TGG 0.248681 1:+59391286 MsaT003601.1:CDS
GAGCGAAATGAGACTGAAAA+TGG 0.269352 1:-59391055 None:intergenic
CAAAATGTGCAGGCAAAATA+AGG 0.288111 1:-59390996 None:intergenic
CAACCTCTCATGTCATCTTT+GGG 0.292269 1:+59391287 MsaT003601.1:CDS
GAGGGAACTTATGGAAGTTT+TGG 0.297913 1:+59391164 MsaT003601.1:CDS
TGCAAGAATTGATTTGTTAT+TGG 0.301298 1:-59391239 None:intergenic
CCCTCCATCAACATTACTAT+TGG 0.305799 1:-59391146 None:intergenic
GTACTCTTTGAGAGTTAATC+TGG 0.323940 1:-59391106 None:intergenic
ATGTTGATGGAGGGAACTTA+TGG 0.372547 1:+59391155 MsaT003601.1:CDS
GGTAAAGACTTCTCATGATA+AGG 0.404088 1:-59391085 None:intergenic
ATCGGTTGGAGACACCTCTA+TGG 0.420654 1:-59391375 None:intergenic
TAAGATATATATAGACCAAC+TGG 0.434180 1:+59391403 MsaT003601.1:CDS
ACAAACACATTGTTATCGAT+TGG 0.463185 1:-59391431 None:intergenic
TATCGATTGGTTTATCCAGT+TGG 0.471473 1:-59391418 None:intergenic
GGTTGTCATTAATTGGTAGT+TGG 0.481188 1:-59391033 None:intergenic
ATTGGTAGTTGGTGAAAACT+TGG 0.517484 1:-59391022 None:intergenic
AGCAACCACCACAACAACCT+TGG 0.526275 1:+59391204 MsaT003601.1:CDS
TCCAATAGTAATGTTGATGG+AGG 0.540613 1:+59391145 MsaT003601.1:CDS
AACTTGGCTGCAAAATGTGC+AGG 0.547777 1:-59391006 None:intergenic
ATGTGCAGGCAAAATAAGGC+TGG 0.570360 1:-59390992 None:intergenic
CCAATAGTAATGTTGATGGA+GGG 0.570777 1:+59391146 MsaT003601.1:CDS
AGGCAAAATAAGGCTGGTTG+AGG 0.574955 1:-59390986 None:intergenic
TAGAGAAAATGCTGCCATAG+AGG 0.582088 1:+59391361 MsaT003601.1:CDS
AGCGAAATGAGACTGAAAAT+GGG 0.587414 1:-59391054 None:intergenic
GACATCAACCAAGGTTGTTG+TGG 0.605926 1:-59391212 None:intergenic
AACCTCTCATGTCATCTTTG+GGG 0.617848 1:+59391288 MsaT003601.1:CDS
AATTGGTGGAGCTACAAATG+AGG 0.628180 1:-59391336 None:intergenic
ATCAACCAAGGTTGTTGTGG+TGG 0.645799 1:-59391209 None:intergenic
ATTGGTTGAGACATCAACCA+AGG 0.645904 1:-59391221 None:intergenic
TTCCCCAAAGATGACATGAG+AGG 0.655028 1:-59391290 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 59390966 59391505 59390966 ID=MsaG003601
Chr1 mRNA 59390966 59391505 59390966 ID=MsaT003601.1;Parent=MsaG003601
Chr1 exon 59390966 59391505 59390966 ID=MsaT003601.1.exon1;Parent=MsaT003601.1
Chr1 CDS 59390966 59391505 59390966 ID=cds.MsaT003601.1;Parent=MsaT003601.1
Gene Sequence

>MsaT003601.1

ATGGCCGCCATGTTTTTCATCCTCAACCAGCCTTATTTTGCCTGCACATTTTGCAGCCAAGTTTTCACCAACTACCAATTAATGACAACCCATTTTCAGTCTCATTTCGCTCAAGAAAACCTTATCATGAGAAGTCTTTACCAGATTAACTCTCAAAGAGTACTTTTGCAACCAAATTTTCCAATAGTAATGTTGATGGAGGGAACTTATGGAAGTTTTGGTGGAAATATAGTTTTTCAGCAACCACCACAACAACCTTGGTTGATGTCTCAACCAATAACAAATCAATTCTTGCATACTAACATGCAAGTTGTTGCTTCACAACCTCTCATGTCATCTTTGGGGAACAATGTTAATGCTAATAACGTGACCTCATTTGTAGCTCCACCAATTTCTAGAGAAAATGCTGCCATAGAGGTGTCTCCAACCGATAAAACTAAGATATATATAGACCAACTGGATAAACCAATCGATAACAATGTGTTTGTCAATTCTGCTGATATCAATGATGACTCATTGAATCTGCAGTTAGAACTCTAG
Protein sequence

>MsaT003601.1

MAAMFFILNQPYFACTFCSQVFTNYQLMTTHFQSHFAQENLIMRSLYQINSQRVLLQPNFPIVMLMEGTYGSFGGNIVFQQPPQQPWLMSQPITNQFLHTNMQVVASQPLMSSLGNNVNANNVTSFVAPPISRENAAIEVSPTDKTKIYIDQLDKPIDNNVFVNSADINDDSLNLQLEL*