AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0803140


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0803140 MtrunA17_Chr5g0410931 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr5g0410951 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr8g0383851 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr8g0383781 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr8g0390361 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr2g0295191 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr7g0237661 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr4g0033041 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr7g0218971 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr4g0046301 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr8g0364801 100.000 136 0 0 1 136 1 136 3.79e-96 272
Msa0803140 MtrunA17_Chr4g0054161 97.059 136 4 0 1 136 1 136 2.60e-93 265
Msa0803140 MtrunA17_Chr8g0363741 97.059 136 4 0 1 136 1 136 2.60e-93 265
Msa0803140 MtrunA17_Chr1g0156021 97.059 136 4 0 1 136 1 136 2.60e-93 265
Msa0803140 MtrunA17_Chr4g0054151 97.059 136 4 0 1 136 4 139 2.61e-93 265
Msa0803140 MtrunA17_Chr8g0388121 96.324 136 5 0 1 136 1 136 1.09e-92 264
Msa0803140 MtrunA17_Chr2g0319141 89.706 136 14 0 1 136 1 136 1.10e-86 248
Msa0803140 MtrunA17_Chr2g0319151 89.706 136 14 0 1 136 1 136 1.10e-86 248
Msa0803140 MtrunA17_Chr2g0319131 85.616 146 11 1 1 136 1 146 1.38e-82 238
Msa0803140 MtrunA17_Chr2g0319121 84.559 136 19 2 1 135 1 135 5.82e-75 219
Msa0803140 MtrunA17_Chr7g0218961 86.607 112 15 0 25 136 2 113 8.01e-66 195
Msa0803140 MtrunA17_Chr7g0222991 67.164 134 43 1 1 134 10 142 5.47e-56 171
Msa0803140 MtrunA17_Chr5g0407311 67.241 116 35 2 1 116 1 113 1.29e-45 144
Msa0803140 MtrunA17_Chr7g0223001 58.647 133 41 3 3 134 27 146 5.46e-43 139
Msa0803140 MtrunA17_Chr7g0240791 100.000 66 0 0 1 66 1 66 9.61e-41 133
Msa0803140 MtrunA17_Chr8g0347231 55.102 98 43 1 37 133 28 125 3.80e-30 105
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0803140 AT1G09200.1 99.265 136 1 0 1 136 1 136 1.62e-95 271
Msa0803140 AT5G65360.1 99.265 136 1 0 1 136 1 136 1.62e-95 271
Msa0803140 AT5G10390.1 99.265 136 1 0 1 136 1 136 1.62e-95 271
Msa0803140 AT5G10400.1 99.265 136 1 0 1 136 1 136 1.62e-95 271
Msa0803140 AT3G27360.1 99.265 136 1 0 1 136 1 136 1.62e-95 271
Msa0803140 AT4G40030.3 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40030.1 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40030.4 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT5G10980.1 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40040.2 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40040.3 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40040.1 97.059 136 4 0 1 136 1 136 3.59e-93 265
Msa0803140 AT4G40030.2 97.059 136 4 0 1 136 29 164 7.05e-93 266
Msa0803140 AT5G65350.1 94.853 136 7 0 1 136 1 136 5.30e-91 260
Msa0803140 AT1G75600.1 93.382 136 9 0 1 136 1 136 1.25e-89 256
Msa0803140 AT1G13370.1 93.382 136 9 0 1 136 1 136 5.55e-89 254
Msa0803140 AT1G19890.1 89.781 137 13 1 1 136 1 137 1.07e-83 241
Msa0803140 AT5G12910.1 71.111 135 34 2 1 135 1 130 9.90e-67 198
Msa0803140 AT1G01370.2 53.982 113 49 2 24 134 63 174 2.97e-31 110
Msa0803140 AT1G01370.1 53.982 113 49 2 24 134 63 174 2.97e-31 110
Msa0803140 AT1G01370.4 53.982 113 49 2 24 134 63 174 2.97e-31 110
Msa0803140 AT1G01370.3 53.982 113 49 2 24 134 63 174 2.97e-31 110

Find 37 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTTGCCGGAGCAGATTTC+CGG 0.243304 5_3:-18107638 None:intergenic
TTGGTGGCTAGCTGCTTTCT+TGG 0.277587 5_3:-18107609 None:intergenic
TCACGAAGTGCAACGGTTCC+TGG 0.291776 5_3:-18107690 None:intergenic
TTCTTGACTCCTCCGGTTGC+CGG 0.293014 5_3:-18107651 None:intergenic
TGAGAAGCTCAGTGCTCTTC+TGG 0.304985 5_3:-18107725 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 5_3:+18107846 Msa0803140:CDS
AGCAGATTTCCGGGCAGCTT+TGG 0.390197 5_3:-18107628 None:intergenic
CGGAAATCTGCTCCGGCAAC+CGG 0.392471 5_3:+18107639 Msa0803140:CDS
GGTTGCCGGAGCAGATTTCC+GGG 0.407337 5_3:-18107637 None:intergenic
CTTTCTTGGTGCCTTTCCTC+CGG 0.425692 5_3:-18107595 None:intergenic
TTATCTTGTTGGTTTGTTTG+AGG 0.428809 5_3:+18107857 Msa0803140:CDS
CGATTTCACGAACAAGTCTC+TGG 0.432729 5_3:-18107764 None:intergenic
AAACAGCGCTGCTTTGAAAT+CGG 0.457546 5_3:-18107809 None:intergenic
AGATTTCCGGGCAGCTTTGG+TGG 0.468887 5_3:-18107625 None:intergenic
AGCTAGCCACCAAAGCTGCC+CGG 0.491500 5_3:+18107619 Msa0803140:CDS
CGAGCAAGTTGAATATCCTT+AGG 0.499677 5_3:-18107924 None:intergenic
GTGTGGCTTCTTGACTCCTC+CGG 0.501667 5_3:-18107658 None:intergenic
AGCTGCCCGGAAATCTGCTC+CGG 0.505877 5_3:+18107632 Msa0803140:CDS
AGTAACTCTCTTAGCATGAA+TGG 0.521941 5_3:-18107895 None:intergenic
AGAGCACTGAGCTTCTCATA+AGG 0.531497 5_3:+18107730 Msa0803140:CDS
TCGCAAATCCACCGGAGGAA+AGG 0.532804 5_3:+18107584 Msa0803140:CDS
TGTTTGCTTTGTACGAGCCA+TGG 0.537743 5_3:-18107559 None:intergenic
GAGAGTTACTATCATGCCTA+AGG 0.550012 5_3:+18107908 Msa0803140:CDS
ACTTGTTCGTGAAATCGCTC+AGG 0.551065 5_3:+18107770 Msa0803140:CDS
TCTTGGTGCCTTTCCTCCGG+TGG 0.556160 5_3:-18107592 None:intergenic
CAGTGCTCTTCTGGTACTTG+CGG 0.579006 5_3:-18107716 None:intergenic
CAAACAGCTCGCAAATCCAC+CGG 0.586123 5_3:+18107576 Msa0803140:CDS
TCACGAACAAGTCTCTGGAA+TGG 0.590006 5_3:-18107759 None:intergenic
CAACTTGCTCGCAGAATCAG+AGG 0.592233 5_3:+18107936 Msa0803140:CDS
AAATCTGCTCCGGCAACCGG+AGG 0.607496 5_3:+18107642 Msa0803140:CDS
TCGCAGAATCAGAGGCGAGA+GGG 0.615698 5_3:+18107944 Msa0803140:CDS
CTCGCAGAATCAGAGGCGAG+AGG 0.629911 5_3:+18107943 Msa0803140:CDS
AAGCCACACAGATTCCGTCC+AGG 0.632383 5_3:+18107672 Msa0803140:CDS
GCGGATCTCACGAAGTGCAA+CGG 0.633057 5_3:-18107697 None:intergenic
GAAGTGCAACGGTTCCTGGA+CGG 0.655834 5_3:-18107686 None:intergenic
GTTCCTGGACGGAATCTGTG+TGG 0.669194 5_3:-18107675 None:intergenic
ACAGCTCGCAAATCCACCGG+AGG 0.704783 5_3:+18107579 Msa0803140:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCTTGTTGGTTTGTTTG+AGG + chr5_3:18107857-18107876 Msa0803140:CDS 30.0%
AGTAACTCTCTTAGCATGAA+TGG - chr5_3:18107898-18107917 None:intergenic 35.0%
!! AAACAGCGCTGCTTTGAAAT+CGG - chr5_3:18107812-18107831 None:intergenic 40.0%
GAGAGTTACTATCATGCCTA+AGG + chr5_3:18107908-18107927 Msa0803140:CDS 40.0%
! CGAGCAAGTTGAATATCCTT+AGG - chr5_3:18107927-18107946 None:intergenic 40.0%
!! AGAGCACTGAGCTTCTCATA+AGG + chr5_3:18107730-18107749 Msa0803140:CDS 45.0%
! TCACGAACAAGTCTCTGGAA+TGG - chr5_3:18107762-18107781 None:intergenic 45.0%
CGATTTCACGAACAAGTCTC+TGG - chr5_3:18107767-18107786 None:intergenic 45.0%
ACTTGTTCGTGAAATCGCTC+AGG + chr5_3:18107770-18107789 Msa0803140:CDS 45.0%
GCTGCTGAAGCTTATCTTGT+TGG + chr5_3:18107846-18107865 Msa0803140:CDS 45.0%
CAAACAGCTCGCAAATCCAC+CGG + chr5_3:18107576-18107595 Msa0803140:CDS 50.0%
!! CTTTCTTGGTGCCTTTCCTC+CGG - chr5_3:18107598-18107617 None:intergenic 50.0%
! TTGGTGGCTAGCTGCTTTCT+TGG - chr5_3:18107612-18107631 None:intergenic 50.0%
CAGTGCTCTTCTGGTACTTG+CGG - chr5_3:18107719-18107738 None:intergenic 50.0%
TGAGAAGCTCAGTGCTCTTC+TGG - chr5_3:18107728-18107747 None:intergenic 50.0%
! CAACTTGCTCGCAGAATCAG+AGG + chr5_3:18107936-18107955 Msa0803140:CDS 50.0%
TCGCAAATCCACCGGAGGAA+AGG + chr5_3:18107584-18107603 Msa0803140:CDS 55.0%
! AGATTTCCGGGCAGCTTTGG+TGG - chr5_3:18107628-18107647 None:intergenic 55.0%
AGCAGATTTCCGGGCAGCTT+TGG - chr5_3:18107631-18107650 None:intergenic 55.0%
TTCTTGACTCCTCCGGTTGC+CGG - chr5_3:18107654-18107673 None:intergenic 55.0%
GTGTGGCTTCTTGACTCCTC+CGG - chr5_3:18107661-18107680 None:intergenic 55.0%
AAGCCACACAGATTCCGTCC+AGG + chr5_3:18107672-18107691 Msa0803140:CDS 55.0%
GTTCCTGGACGGAATCTGTG+TGG - chr5_3:18107678-18107697 None:intergenic 55.0%
GAAGTGCAACGGTTCCTGGA+CGG - chr5_3:18107689-18107708 None:intergenic 55.0%
TCACGAAGTGCAACGGTTCC+TGG - chr5_3:18107693-18107712 None:intergenic 55.0%
GCGGATCTCACGAAGTGCAA+CGG - chr5_3:18107700-18107719 None:intergenic 55.0%
TCGCAGAATCAGAGGCGAGA+GGG + chr5_3:18107944-18107963 Msa0803140:CDS 55.0%
ACAGCTCGCAAATCCACCGG+AGG + chr5_3:18107579-18107598 Msa0803140:CDS 60.0%
!! TCTTGGTGCCTTTCCTCCGG+TGG - chr5_3:18107595-18107614 None:intergenic 60.0%
AGCTAGCCACCAAAGCTGCC+CGG + chr5_3:18107619-18107638 Msa0803140:CDS 60.0%
AGCTGCCCGGAAATCTGCTC+CGG + chr5_3:18107632-18107651 Msa0803140:CDS 60.0%
GGTTGCCGGAGCAGATTTCC+GGG - chr5_3:18107640-18107659 None:intergenic 60.0%
CGGTTGCCGGAGCAGATTTC+CGG - chr5_3:18107641-18107660 None:intergenic 60.0%
CGGAAATCTGCTCCGGCAAC+CGG + chr5_3:18107639-18107658 Msa0803140:CDS 60.0%
AAATCTGCTCCGGCAACCGG+AGG + chr5_3:18107642-18107661 Msa0803140:CDS 60.0%
CTCGCAGAATCAGAGGCGAG+AGG + chr5_3:18107943-18107962 Msa0803140:CDS 60.0%
Chromosome Type Strat End Strand Name
chr5_3 gene 18107561 18107971 18107561 ID=Msa0803140;Name=Msa0803140
chr5_3 mRNA 18107561 18107971 18107561 ID=Msa0803140-mRNA-1;Parent=Msa0803140;Name=Msa0803140-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|136
chr5_3 exon 18107561 18107971 18107561 ID=Msa0803140-mRNA-1:exon:7466;Parent=Msa0803140-mRNA-1
chr5_3 CDS 18107561 18107971 18107561 ID=Msa0803140-mRNA-1:cds;Parent=Msa0803140-mRNA-1
Gene Sequence

>Msa0803140

ATGGCTCGTACAAAGCAAACAGCTCGCAAATCCACCGGAGGAAAGGCACCAAGAAAGCAGCTAGCCACCAAAGCTGCCCGGAAATCTGCTCCGGCAACCGGAGGAGTCAAGAAGCCACACAGATTCCGTCCAGGAACCGTTGCACTTCGTGAGATCCGCAAGTACCAGAAGAGCACTGAGCTTCTCATAAGGAAGCTTCCATTCCAGAGACTTGTTCGTGAAATCGCTCAGGATTTCAAAACAGATCTCCGATTTCAAAGCAGCGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAGGATACTAATCTCTGTGCCATTCATGCTAAGAGAGTTACTATCATGCCTAAGGATATTCAACTTGCTCGCAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>Msa0803140

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA*