AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044846

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044846 MtrunA17_Chr2g0332121 60.944 233 62 5 1 220 1 217 2.59e-87 263
MsaG044846 MtrunA17_Chr4g0002411 68.468 111 35 0 110 220 45 155 3.65e-52 166
MsaG044846 MtrunA17_Chr3g0133791 33.641 217 129 5 7 220 5 209 2.48e-30 112
MsaG044846 MtrunA17_Chr8g0375001 53.333 90 42 0 131 220 34 123 1.19e-28 105
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044846 AT5G58280.1 46.729 214 95 5 10 220 5 202 3.07e-49 162
MsaG044846 AT5G58280.3 41.057 246 94 6 10 220 5 234 4.08e-44 150
MsaG044846 AT5G58280.2 39.271 247 98 6 10 220 5 235 9.75e-44 149
MsaG044846 AT3G19184.1 49.020 102 52 0 119 220 104 205 1.08e-26 103
MsaG044846 AT3G19184.2 49.020 102 52 0 119 220 104 205 1.17e-26 103
MsaG044846 AT5G42700.2 46.078 102 55 0 119 220 59 160 1.40e-25 99.0
MsaG044846 AT5G42700.1 46.078 102 55 0 119 220 104 205 1.68e-25 99.8

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATCTTTAGTCTTTGATTT+TGG 0.141937 8:-65631734 None:intergenic
ATTTGCATTGGAACATAAAT+TGG 0.189949 8:+65636120 MsaT044846.1:CDS
GAAGCGGTTTCTTTCAATTT+TGG 0.202633 8:+65633110 MsaT044846.1:CDS
TTTACCAGGGACTTCTTTGC+AGG 0.341557 8:-65631617 None:intergenic
GCAGAACCTACACGCTCTTC+TGG 0.389885 8:+65631758 MsaT044846.1:CDS
TCTTCCAGGGTCTTCCTAGT+AGG 0.396253 8:+65635978 MsaT044846.1:intron
ACCATTGACTTGATAAATGA+TGG 0.398569 8:-65635780 None:intergenic
GAGTATGATGTTGTCTATAT+TGG 0.436717 8:+65636064 MsaT044846.1:CDS
CTTCACTGTACAAAGAAACT+TGG 0.442960 8:-65631790 None:intergenic
GGTTTCCGAAGTGGCGGTAA+TGG 0.464086 8:-65633059 None:intergenic
GAAACCACCGCAAGATTCTA+CGG 0.473483 8:+65633076 MsaT044846.1:CDS
GTCTATATTGGCAGTAGAAG+TGG 0.481140 8:+65636076 MsaT044846.1:CDS
AACAACAAAGAACTCGTGCT+TGG 0.497832 8:+65635715 MsaT044846.1:CDS
TCCATCATTTATCAAGTCAA+TGG 0.499589 8:+65635779 MsaT044846.1:CDS
TGAAGAAAACAAGAGGTTTG+AGG 0.503429 8:+65623040 MsaT044846.1:CDS
TGTTCCTCACAAAACCTACT+AGG 0.504504 8:-65635992 None:intergenic
AAGTCAATGGTCCGGTCTCA+TGG 0.512045 8:+65635792 MsaT044846.1:CDS
ACAAAGAACTCGTGCTTGGA+AGG 0.515051 8:+65635719 MsaT044846.1:CDS
GACTCTTTAGTTACGTTGCA+AGG 0.524631 8:+65635664 MsaT044846.1:intron
TTTCGCCATTACCGCCACTT+CGG 0.533713 8:+65633054 MsaT044846.1:CDS
ACAGATTTGGTTGACATGAT+CGG 0.538963 8:-65633155 None:intergenic
GAAGTGGGCTAAGTGGTGGC+TGG 0.540038 8:+65636092 MsaT044846.1:CDS
AGTTTCTTTGTACAGTGAAG+AGG 0.543475 8:+65631793 MsaT044846.1:CDS
GGGCTAAGTGGTGGCTGGAG+AGG 0.544907 8:+65636097 MsaT044846.1:CDS
ATGCATAAGCAGATGGCAAA+GGG 0.550562 8:+65622975 None:intergenic
AAAATTGAAAGAAACCGCTT+CGG 0.556402 8:-65633108 None:intergenic
CATTTATCAAGTCAATGGTC+CGG 0.559658 8:+65635784 MsaT044846.1:CDS
AACAGCTAAAACCATGAGAC+CGG 0.566641 8:-65635803 None:intergenic
TTTAGAGGATGAAAATGGCT+CGG 0.571858 8:+65636042 MsaT044846.1:CDS
TCGTGCTTGGAAGGCTGCAG+AGG 0.573588 8:+65635728 MsaT044846.1:CDS
TCTATATTGGCAGTAGAAGT+GGG 0.573838 8:+65636077 MsaT044846.1:CDS
TATGCATAAGCAGATGGCAA+AGG 0.574327 8:+65622974 None:intergenic
AAAGACTTGAAGAAAACAAG+AGG 0.579702 8:+65623033 MsaT044846.1:CDS
TTGGAACATAAATTGGATGA+TGG 0.579994 8:+65636127 MsaT044846.1:CDS
CTCAAGCAACAACTATGAAG+AGG 0.581817 8:+65623001 MsaT044846.1:CDS
TCTTGCGGTGGTTTCCGAAG+TGG 0.583804 8:-65633068 None:intergenic
GGCAGTAGAAGTGGGCTAAG+TGG 0.585137 8:+65636085 MsaT044846.1:CDS
TGCGGTGGTTTCCGAAGTGG+CGG 0.596746 8:-65633065 None:intergenic
TGGCTGGAGAGGATTTGCAT+TGG 0.612968 8:+65636108 MsaT044846.1:CDS
AATTCCTGCAAAGAAGTCCC+TGG 0.616183 8:+65631613 MsaT044846.1:CDS
TACGGTTCTCTCAACCGAAG+CGG 0.629735 8:+65633094 MsaT044846.1:CDS
CTTGCACCAGAAGAGCGTGT+AGG 0.637576 8:-65631764 None:intergenic
GAGAGAACCGTAGAATCTTG+CGG 0.660091 8:-65633083 None:intergenic
AGTAGAAGTGGGCTAAGTGG+TGG 0.694572 8:+65636088 MsaT044846.1:CDS
AGAACCGTAGAATCTTGCGG+TGG 0.704902 8:-65633080 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 65622987 65636168 65622987 ID=MsaG044846
Chr8 mRNA 65622987 65636168 65622987 ID=MsaT044846.1;Parent=MsaG044846
Chr8 exon 65622987 65623061 65622987 ID=MsaT044846.1.exon1;Parent=MsaT044846.1
Chr8 CDS 65622987 65623061 65622987 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Chr8 exon 65631599 65631634 65631599 ID=MsaT044846.1.exon2;Parent=MsaT044846.1
Chr8 CDS 65631599 65631634 65631599 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Chr8 exon 65631719 65631814 65631719 ID=MsaT044846.1.exon3;Parent=MsaT044846.1
Chr8 CDS 65631719 65631814 65631719 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Chr8 exon 65633050 65633162 65633050 ID=MsaT044846.1.exon4;Parent=MsaT044846.1
Chr8 CDS 65633050 65633162 65633050 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Chr8 exon 65635674 65635833 65635674 ID=MsaT044846.1.exon5;Parent=MsaT044846.1
Chr8 CDS 65635674 65635833 65635674 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Chr8 exon 65635986 65636168 65635986 ID=MsaT044846.1.exon6;Parent=MsaT044846.1
Chr8 CDS 65635986 65636168 65635986 ID=cds.MsaT044846.1;Parent=MsaT044846.1
Gene Sequence

>MsaT044846.1

ATGGCAAAGGGTTGCTCAAGCAACAACTATGAAGAGGCTAGAAAACAAAGACTTGAAGAAAACAAGAGGTTTGAGTTGACTGAAATTGCAATTCCTGCAAAGAAGTCCCTGAGTCGTCTTCCCAAACCAAAATCAAAGACTAAAGATGCAGCAGAACCTACACGCTCTTCTGGTGCAAGAAACCAAGTTTCTTTGTACAGTGAAGAGAAGTTTTCGCCATTACCGCCACTTCGGAAACCACCGCAAGATTCTACGGTTCTCTCAACCGAAGCGGTTTCTTTCAATTTTGGTAGTTTTAATTCAGAAATTGTTCCGATCATTTACGTTGCAAGGCCAATAGATGAAATCGAAAAAGCTACAAAACAACAAAGAACTCGTGCTTGGAAGGCTGCAGAGGAACTTCAAATCAATTTGCAGTCTACGAATCCATCATTTATCAAGTCAATGGTCCGGTCTCATGGTTTTAGCTGTTTTTGGTTGGGTCTTCCTAGTAGGTTTTGTGAGGAACATCTTCCAAAAACAGTGCATAACATGATTTTAGAGGATGAAAATGGCTCGGAGTATGATGTTGTCTATATTGGCAGTAGAAGTGGGCTAAGTGGTGGCTGGAGAGGATTTGCATTGGAACATAAATTGGATGATGGTGATGCACTTGTTTTTTAA
Protein sequence

>MsaT044846.1

MAKGCSSNNYEEARKQRLEENKRFELTEIAIPAKKSLSRLPKPKSKTKDAAEPTRSSGARNQVSLYSEEKFSPLPPLRKPPQDSTVLSTEAVSFNFGSFNSEIVPIIYVARPIDEIEKATKQQRTRAWKAAEELQINLQSTNPSFIKSMVRSHGFSCFWLGLPSRFCEEHLPKTVHNMILEDENGSEYDVVYIGSRSGLSGGWRGFALEHKLDDGDALVF*