AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071329

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071329.t1 MTR_7g070390 96.875 192 6 0 1 192 1 192 2.20e-138 384
MS.gene071329.t1 MTR_4g013350 68.927 177 53 2 17 192 22 197 2.03e-88 258
MS.gene071329.t1 MTR_4g013345 69.101 178 53 2 16 192 20 196 7.03e-87 254
MS.gene071329.t1 MTR_4g013320 71.345 171 47 2 23 192 30 199 1.14e-86 253
MS.gene071329.t1 MTR_4g013335 68.824 170 51 2 23 192 29 196 1.36e-84 248
MS.gene071329.t1 MTR_4g013330 68.605 172 50 2 24 192 29 199 1.81e-84 248
MS.gene071329.t1 MTR_4g013325 69.231 169 49 2 25 192 33 199 1.08e-81 241
MS.gene071329.t1 MTR_4g013310 66.082 171 54 3 23 192 30 197 8.35e-79 233
MS.gene071329.t1 MTR_4g013385 57.447 188 77 1 5 192 6 190 1.44e-76 228
MS.gene071329.t1 MTR_0433s0040 57.447 188 77 1 5 192 6 190 1.44e-76 228
MS.gene071329.t1 MTR_4g013770 56.983 179 72 2 16 192 16 191 2.02e-68 207
MS.gene071329.t1 MTR_1g054525 48.958 192 89 5 5 192 6 192 1.03e-58 182
MS.gene071329.t1 MTR_4g013355 47.619 189 85 3 5 192 4 179 9.51e-58 179
MS.gene071329.t1 MTR_4g073950 48.235 170 81 2 30 192 23 192 9.24e-54 170
MS.gene071329.t1 MTR_7g093870 51.282 156 70 2 43 192 38 193 7.34e-53 168
MS.gene071329.t1 MTR_7g093850 50.000 168 78 4 28 192 30 194 3.23e-50 161
MS.gene071329.t1 MTR_7g093790 44.385 187 97 4 11 192 7 191 3.51e-50 160
MS.gene071329.t1 MTR_1g056370 43.915 189 93 3 7 191 6 185 5.93e-50 160
MS.gene071329.t1 MTR_7g093820 51.634 153 70 3 43 192 43 194 9.59e-50 160
MS.gene071329.t1 MTR_7g093830 44.845 194 100 5 2 192 4 193 2.56e-49 159
MS.gene071329.t1 MTR_3g105640 42.162 185 96 3 11 192 12 188 5.23e-47 152
MS.gene071329.t1 MTR_3g105630 40.000 190 102 3 7 192 8 189 5.28e-45 147
MS.gene071329.t1 MTR_5g096120 41.026 195 98 5 5 192 5 189 2.03e-44 146
MS.gene071329.t1 MTR_4g078885 45.223 157 85 1 36 192 30 185 2.49e-44 145
MS.gene071329.t1 MTR_3g034030 45.223 157 85 1 36 192 30 185 5.50e-44 145
MS.gene071329.t1 MTR_4g122110 33.117 154 99 2 40 192 30 180 5.38e-23 90.9
MS.gene071329.t1 MTR_4g122130 33.117 154 99 2 40 192 30 180 2.13e-21 86.7
MS.gene071329.t1 MTR_4g049550 27.333 150 108 1 39 187 24 173 9.71e-18 77.0
MS.gene071329.t1 MTR_4g049570 27.338 139 100 1 50 187 35 173 1.83e-15 71.2
MS.gene071329.t1 MTR_8g099115 30.769 143 89 3 44 177 33 174 6.46e-15 70.1
MS.gene071329.t1 MTR_8g099135 30.435 138 86 3 49 177 34 170 2.39e-14 68.2
MS.gene071329.t1 MTR_1g115510 34.454 119 71 3 80 191 235 353 1.41e-12 65.5
MS.gene071329.t1 MTR_1g046800 36.957 92 57 1 79 170 135 225 7.68e-12 62.4
MS.gene071329.t1 MTR_1g046500 36.957 92 57 1 79 170 135 225 1.05e-11 62.0
MS.gene071329.t1 MTR_1g046490 33.696 92 60 1 79 170 121 211 1.71e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071329.t1 AT1G58170 68.182 154 48 1 40 192 32 185 7.39e-77 228
MS.gene071329.t1 AT1G55210 54.301 186 82 3 7 192 5 187 1.43e-68 207
MS.gene071329.t1 AT1G55210 54.301 186 82 3 7 192 5 187 1.43e-68 207
MS.gene071329.t1 AT5G49040 53.646 192 84 3 5 192 1 191 2.82e-67 204
MS.gene071329.t1 AT3G13650 51.613 186 86 3 7 192 5 186 1.94e-65 199
MS.gene071329.t1 AT1G65870 52.318 151 71 1 42 191 39 189 2.34e-55 174
MS.gene071329.t1 AT5G49030 52.809 178 79 3 5 178 1 177 5.93e-52 179
MS.gene071329.t1 AT3G13660 57.600 125 53 0 68 192 1 125 1.92e-51 162
MS.gene071329.t1 AT2G21100 46.711 152 80 1 41 191 36 187 3.13e-49 158
MS.gene071329.t1 AT2G21100 46.711 152 80 1 41 191 36 187 3.13e-49 158
MS.gene071329.t1 AT1G22900 50.993 151 71 2 42 191 45 193 5.04e-49 158
MS.gene071329.t1 AT3G13662 52.027 148 68 2 31 178 27 171 7.64e-49 157
MS.gene071329.t1 AT5G42500 47.333 150 76 2 43 191 38 185 4.19e-48 155
MS.gene071329.t1 AT5G42510 46.667 150 77 2 43 191 35 182 1.07e-46 152
MS.gene071329.t1 AT4G38700 36.082 194 111 5 6 192 3 190 1.19e-38 131
MS.gene071329.t1 AT3G58090 50.000 110 55 0 82 191 162 271 2.68e-38 133
MS.gene071329.t1 AT2G21110 39.355 155 89 1 43 192 32 186 5.63e-36 124
MS.gene071329.t1 AT4G11210 30.345 145 95 3 27 171 24 162 3.32e-14 67.8

Find 41 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTAGCACCATCACTATTT+TGG 0.149780 7.3:-34303729 MS.gene071329:CDS
AATTCAGGTCCTAAGGTTAA+AGG 0.192169 7.3:+34303860 None:intergenic
AGACCTCAAAGAATTAAATT+TGG 0.222841 7.3:-34304026 MS.gene071329:CDS
GAGTGGTGAAGAGGAGAAAA+AGG 0.264990 7.3:+34304104 None:intergenic
GTCTAATGAACGTACGAAAT+TGG 0.292324 7.3:+34304045 None:intergenic
ACCAATTTGGAACTCAATTC+AGG 0.296828 7.3:+34303845 None:intergenic
GTTAGGGAAATGCCTATAAT+TGG 0.317348 7.3:-34303683 MS.gene071329:CDS
TAATCCATTTAAAATTCTAT+TGG 0.320311 7.3:-34303985 MS.gene071329:CDS
ACCTGAATTGAGTTCCAAAT+TGG 0.324732 7.3:-34303846 MS.gene071329:CDS
AGACCACTACCACCAATTAT+AGG 0.344419 7.3:+34303671 None:intergenic
TCTCCAAATTTAATTCTTTG+AGG 0.362138 7.3:+34304023 None:intergenic
TCCCTAACCTTATCATAAAC+AGG 0.368028 7.3:+34303698 None:intergenic
TTCAAAGGTGGTGGAACAAT+TGG 0.377643 7.3:+34303926 None:intergenic
ATTCAGGTCCTAAGGTTAAA+GGG 0.391274 7.3:+34303861 None:intergenic
ATCCTGTTTATGATAAGGTT+AGG 0.398598 7.3:-34303700 MS.gene071329:CDS
ATGCTCAACTTAGAACTCAT+TGG 0.409836 7.3:-34303628 MS.gene071329:CDS
AACTATAGCATCATTTGTCT+TGG 0.421397 7.3:+34303598 None:intergenic
GAGGAATCCTGTTTATGATA+AGG 0.426161 7.3:-34303705 MS.gene071329:CDS
TATTGGCATGACATAGTTAG+TGG 0.428044 7.3:-34303968 MS.gene071329:CDS
ATTGAGAACCCTTTAACCTT+AGG 0.428940 7.3:-34303869 MS.gene071329:CDS
GGAACAATTGGTATTGAAGA+AGG 0.439349 7.3:+34303938 None:intergenic
TGCTTTGATTAAAGATGTAA+AGG 0.447724 7.3:+34304081 None:intergenic
TCCTGTTTATGATAAGGTTA+GGG 0.471393 7.3:-34303699 MS.gene071329:CDS
GAATTGAGTTCCAAATTGGT+TGG 0.472993 7.3:-34303842 MS.gene071329:CDS
CAAAATTCATAGCCATGATA+AGG 0.483642 7.3:+34303774 None:intergenic
GGAACTCAATTCAGGTCCTA+AGG 0.484438 7.3:+34303853 None:intergenic
GCTTTGATTAAAGATGTAAA+GGG 0.491098 7.3:+34304082 None:intergenic
GAGCATATCCTCTAGCAAAT+CGG 0.492927 7.3:+34303645 None:intergenic
ATGCCTATAATTGGTGGTAG+TGG 0.495021 7.3:-34303674 MS.gene071329:CDS
ATGTAAAGGGAGTGGTGAAG+AGG 0.506300 7.3:+34304095 None:intergenic
GAACAATTGGTATTGAAGAA+GGG 0.509427 7.3:+34303939 None:intergenic
TATCTCACTTTGTGATGTTG+AGG 0.532804 7.3:+34303799 None:intergenic
GATTAAAGATGTAAAGGGAG+TGG 0.544683 7.3:+34304087 None:intergenic
AGGGAAATGCCTATAATTGG+TGG 0.578046 7.3:-34303680 MS.gene071329:CDS
AAATTGGTTGGAAAAGCACA+AGG 0.580992 7.3:-34303830 MS.gene071329:CDS
GTTAACTAAACCAAAGGCAG+TGG 0.584234 7.3:+34303895 None:intergenic
AAGTGAGATAGACCTTATCA+TGG 0.591488 7.3:-34303786 MS.gene071329:CDS
AATCATGTTAACTAAACCAA+AGG 0.600759 7.3:+34303889 None:intergenic
ATTCCTCCCCAAAATAGTGA+TGG 0.635430 7.3:+34303721 None:intergenic
ATTATTGAAGGAAAGTACAA+TGG 0.648578 7.3:-34303749 MS.gene071329:CDS
AATTGGTTGGAAAAGCACAA+GGG 0.705686 7.3:-34303829 MS.gene071329:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATCCATTTAAAATTCTAT+TGG - chr7.3:34303707-34303726 MS.gene071329:CDS 15.0%
!!! ATGAATTTTGCTATTATTGA+AGG - chr7.3:34303931-34303950 MS.gene071329:CDS 20.0%
! AATCATGTTAACTAAACCAA+AGG + chr7.3:34303806-34303825 None:intergenic 25.0%
! AGACCTCAAAGAATTAAATT+TGG - chr7.3:34303666-34303685 MS.gene071329:CDS 25.0%
! GCTTTGATTAAAGATGTAAA+GGG + chr7.3:34303613-34303632 None:intergenic 25.0%
! TCTCCAAATTTAATTCTTTG+AGG + chr7.3:34303672-34303691 None:intergenic 25.0%
! TGCTTTGATTAAAGATGTAA+AGG + chr7.3:34303614-34303633 None:intergenic 25.0%
!! ATTATTGAAGGAAAGTACAA+TGG - chr7.3:34303943-34303962 MS.gene071329:CDS 25.0%
!! CATGCCAATAGAATTTTAAA+TGG + chr7.3:34303714-34303733 None:intergenic 25.0%
AACTATAGCATCATTTGTCT+TGG + chr7.3:34304097-34304116 None:intergenic 30.0%
ATCCTGTTTATGATAAGGTT+AGG - chr7.3:34303992-34304011 MS.gene071329:CDS 30.0%
CAAAATTCATAGCCATGATA+AGG + chr7.3:34303921-34303940 None:intergenic 30.0%
TCCTGTTTATGATAAGGTTA+GGG - chr7.3:34303993-34304012 MS.gene071329:CDS 30.0%
! GAACAATTGGTATTGAAGAA+GGG + chr7.3:34303756-34303775 None:intergenic 30.0%
AAGTGAGATAGACCTTATCA+TGG - chr7.3:34303906-34303925 MS.gene071329:CDS 35.0%
AATTCAGGTCCTAAGGTTAA+AGG + chr7.3:34303835-34303854 None:intergenic 35.0%
ACCTGAATTGAGTTCCAAAT+TGG - chr7.3:34303846-34303865 MS.gene071329:CDS 35.0%
ATGCTCAACTTAGAACTCAT+TGG - chr7.3:34304064-34304083 MS.gene071329:CDS 35.0%
ATTCAGGTCCTAAGGTTAAA+GGG + chr7.3:34303834-34303853 None:intergenic 35.0%
ATTGAGAACCCTTTAACCTT+AGG - chr7.3:34303823-34303842 MS.gene071329:CDS 35.0%
GAATTGAGTTCCAAATTGGT+TGG - chr7.3:34303850-34303869 MS.gene071329:CDS 35.0%
GAGGAATCCTGTTTATGATA+AGG - chr7.3:34303987-34304006 MS.gene071329:CDS 35.0%
GATTAAAGATGTAAAGGGAG+TGG + chr7.3:34303608-34303627 None:intergenic 35.0%
GTCTAATGAACGTACGAAAT+TGG + chr7.3:34303650-34303669 None:intergenic 35.0%
GTTAGGGAAATGCCTATAAT+TGG - chr7.3:34304009-34304028 MS.gene071329:CDS 35.0%
TATCTCACTTTGTGATGTTG+AGG + chr7.3:34303896-34303915 None:intergenic 35.0%
TATTGGCATGACATAGTTAG+TGG - chr7.3:34303724-34303743 MS.gene071329:CDS 35.0%
TCCCTAACCTTATCATAAAC+AGG + chr7.3:34303997-34304016 None:intergenic 35.0%
! AAATTGGTTGGAAAAGCACA+AGG - chr7.3:34303862-34303881 MS.gene071329:CDS 35.0%
! AATTGGTTGGAAAAGCACAA+GGG - chr7.3:34303863-34303882 MS.gene071329:CDS 35.0%
! ACCAATTTGGAACTCAATTC+AGG + chr7.3:34303850-34303869 None:intergenic 35.0%
! GGAACAATTGGTATTGAAGA+AGG + chr7.3:34303757-34303776 None:intergenic 35.0%
! TTGTGCTTTTCCAACCAATT+TGG + chr7.3:34303863-34303882 None:intergenic 35.0%
AAAAACTCAACCACTGCCTT+TGG - chr7.3:34303787-34303806 MS.gene071329:CDS 40.0%
AGACCACTACCACCAATTAT+AGG + chr7.3:34304024-34304043 None:intergenic 40.0%
AGGGAAATGCCTATAATTGG+TGG - chr7.3:34304012-34304031 MS.gene071329:CDS 40.0%
ATTCCTCCCCAAAATAGTGA+TGG + chr7.3:34303974-34303993 None:intergenic 40.0%
GAGCATATCCTCTAGCAAAT+CGG + chr7.3:34304050-34304069 None:intergenic 40.0%
GGAGAAAAAGGATGGAGAAT+TGG + chr7.3:34303579-34303598 None:intergenic 40.0%
GTTAACTAAACCAAAGGCAG+TGG + chr7.3:34303800-34303819 None:intergenic 40.0%
! ATGCCTATAATTGGTGGTAG+TGG - chr7.3:34304018-34304037 MS.gene071329:CDS 40.0%
! GGTAGCACCATCACTATTTT+GGG - chr7.3:34303964-34303983 MS.gene071329:CDS 40.0%
! GTAGCACCATCACTATTTTG+GGG - chr7.3:34303965-34303984 MS.gene071329:CDS 40.0%
! TGGTAGCACCATCACTATTT+TGG - chr7.3:34303963-34303982 MS.gene071329:CDS 40.0%
!! GCAGTGGTTGAGTTTTTCAA+AGG + chr7.3:34303784-34303803 None:intergenic 40.0%
!! GTGGTTGAGTTTTTCAAAGG+TGG + chr7.3:34303781-34303800 None:intergenic 40.0%
!! GTTGAGTTTTTCAAAGGTGG+TGG + chr7.3:34303778-34303797 None:intergenic 40.0%
!! TTCAAAGGTGGTGGAACAAT+TGG + chr7.3:34303769-34303788 None:intergenic 40.0%
ATGTAAAGGGAGTGGTGAAG+AGG + chr7.3:34303600-34303619 None:intergenic 45.0%
GAGTGGTGAAGAGGAGAAAA+AGG + chr7.3:34303591-34303610 None:intergenic 45.0%
GGAACTCAATTCAGGTCCTA+AGG + chr7.3:34303842-34303861 None:intergenic 45.0%
GGTGAAGAGGAGAAAAAGGA+TGG + chr7.3:34303587-34303606 None:intergenic 45.0%
!!! GGTCTTTTCCGATTTGCTAG+AGG - chr7.3:34304039-34304058 MS.gene071329:CDS 45.0%
!! GCACCATCACTATTTTGGGG+AGG - chr7.3:34303968-34303987 MS.gene071329:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 34303568 34304146 34303568 ID=MS.gene071329
chr7.3 mRNA 34303568 34304146 34303568 ID=MS.gene071329.t1;Parent=MS.gene071329
chr7.3 exon 34303568 34304146 34303568 ID=MS.gene071329.t1.exon1;Parent=MS.gene071329.t1
chr7.3 CDS 34303568 34304146 34303568 ID=cds.MS.gene071329.t1;Parent=MS.gene071329.t1
Gene Sequence

>MS.gene071329

ATGTTCATCCAATTCTCCATCCTTTTTCTCCTCTTCACCACTCCCTTTACATCTTTAATCAAAGCAAAACAAGATGATGCCAATTTCGTACGTTCATTAGACCTCAAAGAATTAAATTTGGAGAATAAACAAGAGAAGCTAATCCATTTAAAATTCTATTGGCATGACATAGTTAGTGGAAACAACCCTTCTTCAATACCAATTGTTCCACCACCTTTGAAAAACTCAACCACTGCCTTTGGTTTAGTTAACATGATTGAGAACCCTTTAACCTTAGGACCTGAATTGAGTTCCAAATTGGTTGGAAAAGCACAAGGGTTCTATGCCTCAACATCACAAAGTGAGATAGACCTTATCATGGCTATGAATTTTGCTATTATTGAAGGAAAGTACAATGGTAGCACCATCACTATTTTGGGGAGGAATCCTGTTTATGATAAGGTTAGGGAAATGCCTATAATTGGTGGTAGTGGTCTTTTCCGATTTGCTAGAGGATATGCTCAACTTAGAACTCATTGGTTTTCATCCAAGACAAATGATGCTATAGTTGAGTATAATATTTATGTGTTACATTATTAA
Protein sequence

>MS.gene071329.t1

MFIQFSILFLLFTTPFTSLIKAKQDDANFVRSLDLKELNLENKQEKLIHLKFYWHDIVSGNNPSSIPIVPPPLKNSTTAFGLVNMIENPLTLGPELSSKLVGKAQGFYASTSQSEIDLIMAMNFAIIEGKYNGSTITILGRNPVYDKVREMPIIGGSGLFRFARGYAQLRTHWFSSKTNDAIVEYNIYVLHY