AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene037983

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037983.t1 MTR_1g068950 97.826 138 3 0 34 171 2 139 1.61e-97 278
MS.gene037983.t1 MTR_2g028670 78.261 138 30 0 34 171 2 139 3.20e-81 236
MS.gene037983.t1 MTR_8g088210 76.087 138 33 0 34 171 2 139 7.10e-78 228
MS.gene037983.t1 MTR_5g010430 74.286 140 34 1 31 170 1 138 9.13e-77 225
MS.gene037983.t1 MTR_8g098470 71.533 137 37 1 34 170 2 136 2.54e-73 216
MS.gene037983.t1 MTR_8g088210 75.000 132 33 0 40 171 1 132 5.48e-73 216
MS.gene037983.t1 MTR_1g101190 72.464 138 36 1 32 169 461 596 1.30e-67 216
MS.gene037983.t1 MTR_7g096890 59.574 141 57 0 31 171 6 146 3.98e-65 196
MS.gene037983.t1 MTR_1g076170 61.594 138 53 0 34 171 10 147 4.70e-59 181
MS.gene037983.t1 MTR_4g073590 60.000 135 54 0 36 170 8 142 6.03e-58 178
MS.gene037983.t1 MTR_4g073590 60.920 87 34 0 36 122 8 94 2.19e-35 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037983.t1 AT5G59890 81.884 138 25 0 34 171 2 139 2.26e-84 244
MS.gene037983.t1 AT3G46010 81.884 138 25 0 34 171 13 150 8.03e-84 244
MS.gene037983.t1 AT3G46010 81.884 138 25 0 34 171 2 139 1.66e-83 243
MS.gene037983.t1 AT5G59890 81.061 132 25 0 40 171 1 132 1.48e-79 232
MS.gene037983.t1 AT5G59890 81.061 132 25 0 40 171 1 132 1.48e-79 232
MS.gene037983.t1 AT1G01750 72.917 144 39 0 28 171 1 144 7.88e-79 231
MS.gene037983.t1 AT4G00680 72.917 144 38 1 28 171 7 149 1.58e-78 230
MS.gene037983.t1 AT5G59880 74.638 138 35 0 34 171 2 139 9.57e-78 228
MS.gene037983.t1 AT4G00680 73.913 138 36 0 34 171 2 139 1.33e-77 228
MS.gene037983.t1 AT1G01750 74.638 138 35 0 34 171 2 139 4.02e-77 226
MS.gene037983.t1 AT3G46000 76.812 138 30 1 34 171 2 137 2.25e-76 224
MS.gene037983.t1 AT3G46000 76.812 138 30 1 34 171 21 156 4.76e-76 224
MS.gene037983.t1 AT4G25590 75.182 137 32 1 34 170 2 136 6.56e-74 218
MS.gene037983.t1 AT5G52360 75.182 137 32 1 34 170 2 136 7.37e-72 213
MS.gene037983.t1 AT3G46000 75.758 132 30 1 40 171 1 130 1.66e-71 212
MS.gene037983.t1 AT4G25590 74.046 131 32 1 40 170 1 129 5.57e-69 205
MS.gene037983.t1 AT5G59880 63.768 138 35 1 34 171 2 124 1.26e-62 189
MS.gene037983.t1 AT2G31200 58.156 141 59 0 31 171 6 146 1.43e-61 187
MS.gene037983.t1 AT2G16700 53.676 136 63 0 36 171 8 143 5.52e-54 168
MS.gene037983.t1 AT4G34970 53.285 137 64 0 35 171 5 141 5.78e-54 168
MS.gene037983.t1 AT2G16700 53.788 132 61 0 40 171 1 132 8.44e-52 162
MS.gene037983.t1 AT2G16700 53.788 132 61 0 40 171 1 132 8.44e-52 162
MS.gene037983.t1 AT3G45990 51.449 138 56 3 40 171 1 133 3.09e-43 140
MS.gene037983.t1 AT2G16700 49.020 102 52 0 36 137 8 109 1.58e-32 112

Find 30 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCTTACCCTTGAAATATC+AGG 0.195342 1.4:+81907399 None:intergenic
GTATATCATTTACAAGATTA+AGG 0.294112 1.4:-81907701 MS.gene037983:CDS
TACACTAATCTAATGGTAAT+GGG 0.308098 1.4:-81907892 None:intergenic
CTACACTAATCTAATGGTAA+TGG 0.419474 1.4:-81907893 None:intergenic
TTTATGCTAGCTCCAAAGAT+AGG 0.430442 1.4:-81907368 MS.gene037983:CDS
AAATCATCGTAACCATTTGC+AGG 0.435601 1.4:+81907640 None:intergenic
GAAGGTGCCCTGATATTTCA+AGG 0.462729 1.4:-81907407 MS.gene037983:intron
TTACAGGCGAATGCAGCATC+AGG 0.463408 1.4:-81907787 MS.gene037983:CDS
GCTCCAAAGATAGGTTCAAA+AGG 0.469123 1.4:-81907359 MS.gene037983:CDS
GCATATCGACACTCGTCGGC+AGG 0.482779 1.4:+81907604 None:intergenic
TGTGGCGTTGAAAGTGTGTA+TGG 0.483413 1.4:-81907851 MS.gene037983:CDS
GGTTCAAAAGGGAGCTTGAT+GGG 0.491075 1.4:-81907347 MS.gene037983:CDS
ACATCAGATGCATCAACAAA+AGG 0.502015 1.4:+81907820 None:intergenic
GGCGAATGCAGCATCAGGTA+TGG 0.502868 1.4:-81907782 MS.gene037983:CDS
GCCCTGATATTTCAAGGGTA+AGG 0.520257 1.4:-81907401 MS.gene037983:CDS
CAAGTTGTTGTTGACAAGGT+TGG 0.532386 1.4:-81907667 MS.gene037983:CDS
CTCCAAAGATAGGTTCAAAA+GGG 0.546134 1.4:-81907358 MS.gene037983:CDS
AGCTACTGATCCTACTGAGA+TGG 0.549628 1.4:-81907307 MS.gene037983:CDS
AGGTTCAAAAGGGAGCTTGA+TGG 0.551429 1.4:-81907348 MS.gene037983:CDS
GTTGTTAGTATGCTTGTTTG+TGG 0.553370 1.4:-81907869 MS.gene037983:CDS
TCCTTACCCTTGAAATATCA+GGG 0.558692 1.4:+81907400 None:intergenic
AAGGTTGGTGATCCTGCAAA+TGG 0.580318 1.4:-81907652 MS.gene037983:CDS
GAAGCAAGTTGTTGTTGACA+AGG 0.580658 1.4:-81907671 MS.gene037983:CDS
AAGGTGCCCTGATATTTCAA+GGG 0.592018 1.4:-81907406 MS.gene037983:CDS
CTTGTAAATGATATACCGAT+AGG 0.592223 1.4:+81907708 None:intergenic
ACATCAAGATCCATCTCAGT+AGG 0.597944 1.4:+81907297 None:intergenic
AACAGCATATCGACACTCGT+CGG 0.602599 1.4:+81907600 None:intergenic
TCAAGGCGAAGAGGACCTAT+CGG 0.606898 1.4:-81907723 MS.gene037983:CDS
ACACTAATCTAATGGTAATG+GGG 0.642233 1.4:-81907891 None:intergenic
TCACAAAAGATTAATTGACA+CGG 0.694452 1.4:+81907265 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAAATCAATCATAAAAAA+TGG + chr1.4:81907698-81907717 None:intergenic 10.0%
!! GTATATCATTTACAAGATTA+AGG - chr1.4:81907454-81907473 MS.gene037983:intron 20.0%
! AAGCAACAAAATGATATACT+CGG + chr1.4:81907722-81907741 None:intergenic 25.0%
! CAACAGTTAACTTATAGATT+TGG - chr1.4:81907667-81907686 MS.gene037983:CDS 25.0%
!! TGAATGCAAGTTAAAGTTTT+TGG - chr1.4:81907406-81907425 MS.gene037983:CDS 25.0%
!! TGATGTTTGTGAAATTTTAC+AGG - chr1.4:81907352-81907371 MS.gene037983:CDS 25.0%
!!! ATTTTGTTGCTTTTGTTTGA+AGG - chr1.4:81907730-81907749 MS.gene037983:CDS 25.0%
AGCAACAAAATGATATACTC+GGG + chr1.4:81907721-81907740 None:intergenic 30.0%
CTTGTAAATGATATACCGAT+AGG + chr1.4:81907450-81907469 None:intergenic 30.0%
!! TGAAGAAAATTCTGCTTTTC+TGG + chr1.4:81907613-81907632 None:intergenic 30.0%
!!! TGATTTTGATTTTGTCACTG+AGG - chr1.4:81907580-81907599 MS.gene037983:CDS 30.0%
AAATCATCGTAACCATTTGC+AGG + chr1.4:81907518-81907537 None:intergenic 35.0%
ACATCAGATGCATCAACAAA+AGG + chr1.4:81907338-81907357 None:intergenic 35.0%
CTCCAAAGATAGGTTCAAAA+GGG - chr1.4:81907797-81907816 MS.gene037983:CDS 35.0%
GTTGTTAGTATGCTTGTTTG+TGG - chr1.4:81907286-81907305 MS.gene037983:CDS 35.0%
TCCTTACCCTTGAAATATCA+GGG + chr1.4:81907758-81907777 None:intergenic 35.0%
TTTATGCTAGCTCCAAAGAT+AGG - chr1.4:81907787-81907806 MS.gene037983:CDS 35.0%
! GCAGAATTTTCTTCATAGCT+TGG - chr1.4:81907618-81907637 MS.gene037983:CDS 35.0%
!!! GCTTGGTAATGTCAACTTTT+TGG - chr1.4:81907635-81907654 MS.gene037983:CDS 35.0%
!!! GTTAAAGTTTTTGGAGCTCA+AGG - chr1.4:81907415-81907434 MS.gene037983:intron 35.0%
ACATCAAGATCCATCTCAGT+AGG + chr1.4:81907861-81907880 None:intergenic 40.0%
CTCCTTACCCTTGAAATATC+AGG + chr1.4:81907759-81907778 None:intergenic 40.0%
GCTCCAAAGATAGGTTCAAA+AGG - chr1.4:81907796-81907815 MS.gene037983:CDS 40.0%
! AAGGTGCCCTGATATTTCAA+GGG - chr1.4:81907749-81907768 MS.gene037983:CDS 40.0%
! CAAGTTGTTGTTGACAAGGT+TGG - chr1.4:81907488-81907507 MS.gene037983:intron 40.0%
! CTCCCTTTTGAACCTATCTT+TGG + chr1.4:81907802-81907821 None:intergenic 40.0%
! GAAGCAAGTTGTTGTTGACA+AGG - chr1.4:81907484-81907503 MS.gene037983:intron 40.0%
AACAGCATATCGACACTCGT+CGG + chr1.4:81907558-81907577 None:intergenic 45.0%
AGCTACTGATCCTACTGAGA+TGG - chr1.4:81907848-81907867 MS.gene037983:CDS 45.0%
AGGTTCAAAAGGGAGCTTGA+TGG - chr1.4:81907807-81907826 MS.gene037983:CDS 45.0%
GCCCTGATATTTCAAGGGTA+AGG - chr1.4:81907754-81907773 MS.gene037983:CDS 45.0%
GGTTCAAAAGGGAGCTTGAT+GGG - chr1.4:81907808-81907827 MS.gene037983:CDS 45.0%
! TGTGGCGTTGAAAGTGTGTA+TGG - chr1.4:81907304-81907323 MS.gene037983:CDS 45.0%
!! AAGGTTGGTGATCCTGCAAA+TGG - chr1.4:81907503-81907522 MS.gene037983:intron 45.0%
!! GAAGGTGCCCTGATATTTCA+AGG - chr1.4:81907748-81907767 MS.gene037983:CDS 45.0%
TCAAGGCGAAGAGGACCTAT+CGG - chr1.4:81907432-81907451 MS.gene037983:intron 50.0%
TTACAGGCGAATGCAGCATC+AGG - chr1.4:81907368-81907387 MS.gene037983:CDS 50.0%
!!! TTTTGGAGCTCAAGGCGAAG+AGG - chr1.4:81907423-81907442 MS.gene037983:intron 50.0%
GGCGAATGCAGCATCAGGTA+TGG - chr1.4:81907373-81907392 MS.gene037983:CDS 55.0%
GCATATCGACACTCGTCGGC+AGG + chr1.4:81907554-81907573 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 81907275 81907902 81907275 ID=MS.gene037983
chr1.4 mRNA 81907275 81907902 81907275 ID=MS.gene037983.t1;Parent=MS.gene037983
chr1.4 exon 81907538 81907902 81907538 ID=MS.gene037983.t1.exon1;Parent=MS.gene037983.t1
chr1.4 CDS 81907538 81907902 81907538 ID=cds.MS.gene037983.t1;Parent=MS.gene037983.t1
chr1.4 exon 81907275 81907425 81907275 ID=MS.gene037983.t1.exon2;Parent=MS.gene037983.t1
chr1.4 CDS 81907275 81907425 81907275 ID=cds.MS.gene037983.t1;Parent=MS.gene037983.t1
Gene Sequence

>MS.gene037983

ATGGTAATGGGGTTGTTAGTATGCTTGTTTGTGGCGTTGAAAGTGTGTATGGAGAAATTTCCTTTTGTTGATGCATCTGATGTTTGTGAAATTTTACAGGCGAATGCAGCATCAGGTATGGATGTGAATGATGAATGCAAGTTAAAGTTTTTGGAGCTCAAGGCGAAGAGGACCTATCGGTATATCATTTACAAGATTAAGGTGAAGCAGAAGCAAGTTGTTGTTGACAAGGTTGGTGATCCTGCAAATGGTTACGATGATTTCACTGCTAATCTTCCTGCCGACGAGTGTCGATATGCTGTTTATGATTTTGATTTTGTCACTGAGGAGAATTGCCAGAAAAGCAGAATTTTCTTCATAGCTTGGTAATGTCAACTTTTTGGATCTTAAAGCAACAGTTAACTTATAGATTTGGATATTCCATTTTTTATGATTGATTTTAACCCGAGTATATCATTTTGTTGCTTTTGTTTGAAGGTGCCCTGATATTTCAAGGGTAAGGAGCAAGATGATTTATGCTAGCTCCAAAGATAGGTTCAAAAGGGAGCTTGATGGGATTCAAGTTGAGTTGCAAGCTACTGATCCTACTGAGATGGATCTTGATGTGTTCAAAAGCCGTGTCAATTAA
Protein sequence

>MS.gene037983.t1

MVMGLLVCLFVALKVCMEKFPFVDASDVCEILQANAASGMDVNDECKLKFLELKAKRTYRYIIYKIKVKQKQVVVDKVGDPANGYDDFTANLPADECRYAVYDFDFVTEENCQKSRIFFIAWCPDISRVRSKMIYASSKDRFKRELDGIQVELQATDPTEMDLDVFKSRVN