AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene34500

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34500.t1 MTR_1g101190 98.529 136 2 0 1 136 463 598 1.00e-93 282
MS.gene34500.t1 MTR_5g010430 83.088 136 23 0 1 136 4 139 4.54e-85 245
MS.gene34500.t1 MTR_8g098470 78.676 136 29 0 1 136 2 137 4.23e-80 232
MS.gene34500.t1 MTR_1g068950 75.000 136 32 1 1 134 2 137 7.60e-75 219
MS.gene34500.t1 MTR_2g028670 71.533 137 37 1 1 135 2 138 3.42e-73 215
MS.gene34500.t1 MTR_8g088210 70.073 137 39 1 1 135 2 138 1.27e-71 211
MS.gene34500.t1 MTR_8g088210 68.702 131 39 1 7 135 1 131 7.45e-67 199
MS.gene34500.t1 MTR_7g096890 60.294 136 52 1 2 135 10 145 1.25e-62 188
MS.gene34500.t1 MTR_4g073590 59.259 135 53 1 3 135 8 142 2.44e-58 177
MS.gene34500.t1 MTR_1g076170 54.745 137 60 1 1 135 10 146 1.17e-55 171
MS.gene34500.t1 MTR_4g073590 59.770 87 33 1 3 87 8 94 2.96e-34 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34500.t1 AT4G25590 84.559 136 21 0 1 136 2 137 1.28e-84 244
MS.gene34500.t1 AT5G52360 82.353 136 24 0 1 136 2 137 5.57e-82 237
MS.gene34500.t1 AT4G25590 83.846 130 21 0 7 136 1 130 8.45e-80 231
MS.gene34500.t1 AT1G01750 78.832 137 27 1 1 135 2 138 7.86e-79 229
MS.gene34500.t1 AT1G01750 78.832 137 27 1 1 135 7 143 1.17e-78 229
MS.gene34500.t1 AT3G46010 75.912 137 31 1 1 135 13 149 2.07e-77 226
MS.gene34500.t1 AT3G46010 75.912 137 31 1 1 135 2 138 2.66e-77 225
MS.gene34500.t1 AT4G00680 77.206 136 29 1 1 134 2 137 4.70e-77 224
MS.gene34500.t1 AT4G00680 77.206 136 29 1 1 134 12 147 1.35e-76 224
MS.gene34500.t1 AT3G46000 74.627 134 34 0 1 134 2 135 2.09e-76 223
MS.gene34500.t1 AT3G46000 74.074 135 35 0 1 135 21 155 4.99e-76 223
MS.gene34500.t1 AT5G59890 75.000 136 32 1 1 134 2 137 1.68e-75 221
MS.gene34500.t1 AT3G46000 72.868 129 35 0 7 135 1 129 8.90e-72 211
MS.gene34500.t1 AT5G59890 73.282 131 33 1 7 135 1 131 7.15e-71 209
MS.gene34500.t1 AT5G59890 73.282 131 33 1 7 135 1 131 7.15e-71 209
MS.gene34500.t1 AT5G59880 67.883 137 42 1 1 135 2 138 8.06e-71 209
MS.gene34500.t1 AT5G59880 59.124 137 39 2 1 135 2 123 5.41e-57 173
MS.gene34500.t1 AT2G16700 57.778 135 55 1 3 135 8 142 6.03e-56 171
MS.gene34500.t1 AT2G31200 55.882 136 58 1 2 135 10 145 1.11e-55 171
MS.gene34500.t1 AT2G16700 58.015 131 53 1 7 135 1 131 7.00e-54 166
MS.gene34500.t1 AT2G16700 58.015 131 53 1 7 135 1 131 7.00e-54 166
MS.gene34500.t1 AT4G34970 52.206 136 63 1 2 135 5 140 7.28e-53 164
MS.gene34500.t1 AT3G45990 54.815 135 50 3 7 134 1 131 1.65e-46 147
MS.gene34500.t1 AT2G16700 56.322 87 36 1 3 87 8 94 9.24e-32 109

Find 20 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTCCTCATAGGTTTCTTC+TGG 0.304000 1.2:-75317081 None:intergenic
TGTGTTTAAGATTGAGAATC+AGG 0.305840 1.2:+75317032 MS.gene34500:CDS
TGTCTCACCTTTGATATATC+CGG 0.399831 1.2:-75317777 None:intergenic
TTCCCTCTTGAATCTGTCCT+TGG 0.421769 1.2:-75317820 None:intergenic
GTTTAGGCTAACGCAGCATC+TGG 0.423899 1.2:+75316940 None:intergenic
CATACTATTAATTAGGTCTC+CGG 0.481390 1.2:+75317758 MS.gene34500:intron
ACATGCACTAAAGTCCTCAT+AGG 0.515011 1.2:-75317091 None:intergenic
TAAGATTGAGAATCAGGAAG+TGG 0.543052 1.2:+75317038 MS.gene34500:CDS
AGATTCAAGAGGGAACTTGA+TGG 0.558974 1.2:+75317828 MS.gene34500:CDS
GCATAACGACACTCATCAGC+AGG 0.564625 1.2:-75317117 None:intergenic
ATCAAAGGTGAGACATAAGA+TGG 0.575725 1.2:+75317785 MS.gene34500:CDS
GGCTAACGCAGCATCTGGAA+TGG 0.577657 1.2:+75316945 None:intergenic
ATATCAAAGCTCATTTCACT+AGG 0.602593 1.2:-75317879 None:intergenic
TAGGTCTCCGGATATATCAA+AGG 0.618274 1.2:+75317770 MS.gene34500:intron
GTGGTACTAGAGAAACTTGG+AGG 0.618555 1.2:+75317057 MS.gene34500:CDS
GAAGTGGTACTAGAGAAACT+TGG 0.638480 1.2:+75317054 MS.gene34500:CDS
CACCAAGGACAGATTCAAGA+GGG 0.658439 1.2:+75317818 MS.gene34500:CDS
AGGTCCAGAAGAAACCTATG+AGG 0.672047 1.2:+75317077 MS.gene34500:CDS
GCACCAAGGACAGATTCAAG+AGG 0.681401 1.2:+75317817 MS.gene34500:CDS
GATGGTCTATGCTAGCACCA+AGG 0.722814 1.2:+75317803 MS.gene34500:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAAAGTTATATTAGAT+AGG + chr1.2:75317678-75317697 MS.gene34500:intron 10.0%
!! AAAAAGCAAAATAATAGATT+TGG - chr1.2:75317518-75317537 None:intergenic 15.0%
!! TGTTTCACATACTATTAATT+AGG + chr1.2:75317751-75317770 MS.gene34500:intron 20.0%
! AGTAAACATGTTAATAGTGT+TGG + chr1.2:75317338-75317357 MS.gene34500:intron 25.0%
! TATGTGAAACAACAATGTAA+CGG - chr1.2:75317742-75317761 None:intergenic 25.0%
! TTATTAGATCTTTACACACT+TGG + chr1.2:75317614-75317633 MS.gene34500:intron 25.0%
!! TTTTTCTTCTTCTTTCGTAT+GGG + chr1.2:75317237-75317256 MS.gene34500:intron 25.0%
!!! TTTTTTCTTCTTCTTTCGTA+TGG + chr1.2:75317236-75317255 MS.gene34500:intron 25.0%
ACATCCAAATCTAAGAATAG+TGG - chr1.2:75317310-75317329 None:intergenic 30.0%
ATATCAAAGCTCATTTCACT+AGG - chr1.2:75317882-75317901 None:intergenic 30.0%
CATACTATTAATTAGGTCTC+CGG + chr1.2:75317758-75317777 MS.gene34500:intron 30.0%
! AAAAAAGCATGCAAGAACTA+AGG - chr1.2:75317222-75317241 None:intergenic 30.0%
! TGTGTTTAAGATTGAGAATC+AGG + chr1.2:75317032-75317051 MS.gene34500:CDS 30.0%
ATCAAAGGTGAGACATAAGA+TGG + chr1.2:75317785-75317804 MS.gene34500:CDS 35.0%
CACACCACTATTCTTAGATT+TGG + chr1.2:75317303-75317322 MS.gene34500:intron 35.0%
GCATTAATGCATGAATTTGC+TGG + chr1.2:75317481-75317500 MS.gene34500:intron 35.0%
TAAGATTGAGAATCAGGAAG+TGG + chr1.2:75317038-75317057 MS.gene34500:CDS 35.0%
TGTCTCACCTTTGATATATC+CGG - chr1.2:75317780-75317799 None:intergenic 35.0%
! GCAAGATTTTCTTCATTGCA+TGG + chr1.2:75317184-75317203 MS.gene34500:CDS 35.0%
! TAATAGTGTTGGATCGAGAT+CGG + chr1.2:75317349-75317368 MS.gene34500:intron 35.0%
AAGTCCTCATAGGTTTCTTC+TGG - chr1.2:75317084-75317103 None:intergenic 40.0%
ACATGCACTAAAGTCCTCAT+AGG - chr1.2:75317094-75317113 None:intergenic 40.0%
AGATTCAAGAGGGAACTTGA+TGG + chr1.2:75317828-75317847 MS.gene34500:CDS 40.0%
AGTATTCGTTGAGTCGAGAT+CGG - chr1.2:75317446-75317465 None:intergenic 40.0%
CTTCTTCTTTCGTATGGGTA+TGG + chr1.2:75317242-75317261 MS.gene34500:intron 40.0%
GAAGTGGTACTAGAGAAACT+TGG + chr1.2:75317054-75317073 MS.gene34500:CDS 40.0%
TAGGTCTCCGGATATATCAA+AGG + chr1.2:75317770-75317789 MS.gene34500:intron 40.0%
! CTTTTGAGCATACAAAGACG+CGG + chr1.2:75317574-75317593 MS.gene34500:intron 40.0%
! TTTCATGCAGTTTTCAGCAG+TGG - chr1.2:75317163-75317182 None:intergenic 40.0%
AGGTCCAGAAGAAACCTATG+AGG + chr1.2:75317077-75317096 MS.gene34500:CDS 45.0%
ATGGGTATGGTGTACCACTT+TGG + chr1.2:75317255-75317274 MS.gene34500:intron 45.0%
CACCAAGGACAGATTCAAGA+GGG + chr1.2:75317818-75317837 MS.gene34500:CDS 45.0%
CGACTCAACGAATACTGATG+CGG + chr1.2:75317450-75317469 MS.gene34500:intron 45.0%
GTATTCGTTGAGTCGAGATC+GGG - chr1.2:75317445-75317464 None:intergenic 45.0%
GTGGTACTAGAGAAACTTGG+AGG + chr1.2:75317057-75317076 MS.gene34500:CDS 45.0%
TACACCACATGCATCCAAAG+TGG - chr1.2:75317272-75317291 None:intergenic 45.0%
TGTACCACTTTGGATGCATG+TGG + chr1.2:75317265-75317284 MS.gene34500:intron 45.0%
TTCCCTCTTGAATCTGTCCT+TGG - chr1.2:75317823-75317842 None:intergenic 45.0%
CTCAACGAATACTGATGCGG+TGG + chr1.2:75317453-75317472 MS.gene34500:intron 50.0%
GATGGTCTATGCTAGCACCA+AGG + chr1.2:75317803-75317822 MS.gene34500:CDS 50.0%
GCACCAAGGACAGATTCAAG+AGG + chr1.2:75317817-75317836 MS.gene34500:CDS 50.0%
GCATAACGACACTCATCAGC+AGG - chr1.2:75317120-75317139 None:intergenic 50.0%
TTCGTTGAGTCGAGATCGGG+TGG - chr1.2:75317442-75317461 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 75316946 75317923 75316946 ID=MS.gene34500
chr1.2 mRNA 75316946 75317923 75316946 ID=MS.gene34500.t1;Parent=MS.gene34500
chr1.2 exon 75316946 75317205 75316946 ID=MS.gene34500.t1.exon1;Parent=MS.gene34500.t1
chr1.2 CDS 75316946 75317205 75316946 ID=cds.MS.gene34500.t1;Parent=MS.gene34500.t1
chr1.2 exon 75317773 75317923 75317773 ID=MS.gene34500.t1.exon2;Parent=MS.gene34500.t1
chr1.2 CDS 75317773 75317923 75317773 ID=cds.MS.gene34500.t1;Parent=MS.gene34500.t1
Gene Sequence

>MS.gene34500

GCTAACGCAGCATCTGGAATGGCTGTTAATGATGAATGTAAATTGAAGTTTCTTGAGTTAAAAGCAAAGAGAAACTATCGTTTTATTGTGTTTAAGATTGAGAATCAGGAAGTGGTACTAGAGAAACTTGGAGGTCCAGAAGAAACCTATGAGGACTTTAGTGCATGTCTACCTGCTGATGAGTGTCGTTATGCAGTCTTTGATTTTGATTTCACCACTGCTGAAAACTGCATGAAAAGCAAGATTTTCTTCATTGCATGGTAATGTTATCTTCCTTAGTTCTTGCATGCTTTTTTCTTCTTCTTTCGTATGGGTATGGTGTACCACTTTGGATGCATGTGGTGTATTGATACATTACACACCACTATTCTTAGATTTGGATGTGATCATGCAGTAAACATGTTAATAGTGTTGGATCGAGATCGGACAATTCATATTTTTATATTTTGACATTACTATTTTCTTAAAATCAAAATCTGTATTAAAATCTAAACCACCCGATCTCGACTCAACGAATACTGATGCGGTGGTGACTGCATTAATGCATGAATTTGCTGGTTTCTGAAAATCCAAATCTATTATTTTGCTTTTTATATTTCATTATTTAAAATTAGAGTCATGCAGTGATCTTTTGAGCATACAAAGACGCGGTTTTAAGATTATTAACATTATTAGATCTTTACACACTTGGAAAAAAAATCTTAATAATTTTTTTTACATTTCTTTTGAGAAATAAAAAAGTTATATTAGATAGGAAAATAGCTGTTTATTTTGCTATTATATATACTTAAAACCGTTACATTGTTGTTTCACATACTATTAATTAGGTCTCCGGATATATCAAAGGTGAGACATAAGATGGTCTATGCTAGCACCAAGGACAGATTCAAGAGGGAACTTGATGGCATTCAAGTTGAGCTGCAAGCAACTGATCCTAGTGAAATGAGCTTTGATATCATAAAATCACGTGCACTATAA
Protein sequence

>MS.gene34500.t1

ANAASGMAVNDECKLKFLELKAKRNYRFIVFKIENQEVVLEKLGGPEETYEDFSACLPADECRYAVFDFDFTTAENCMKSKIFFIAWSPDISKVRHKMVYASTKDRFKRELDGIQVELQATDPSEMSFDIIKSRAL