AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene029705

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene029705.t1 MTR_1g062160 100.000 203 0 0 1 203 1 203 6.31e-155 427
MS.gene029705.t1 MTR_7g102790 78.922 204 40 2 1 202 1 203 2.66e-109 311
MS.gene029705.t1 MTR_5g007230 55.612 196 79 4 7 202 21 208 2.38e-72 218
MS.gene029705.t1 MTR_5g030130 54.680 203 79 4 7 202 35 231 5.60e-72 218
MS.gene029705.t1 MTR_8g066820 55.340 206 73 5 7 202 33 229 3.79e-70 213
MS.gene029705.t1 MTR_4g078170 53.465 202 81 4 7 202 15 209 4.25e-70 213
MS.gene029705.t1 MTR_5g030130 66.667 129 42 1 7 135 35 162 4.46e-59 184
MS.gene029705.t1 MTR_2g084495 38.136 236 100 7 4 201 2 229 1.07e-45 151
MS.gene029705.t1 MTR_2g060500 50.000 146 63 4 1 137 5 149 4.46e-42 139
MS.gene029705.t1 MTR_2g060540 51.408 142 59 4 1 133 5 145 9.84e-42 138
MS.gene029705.t1 MTR_2g084510 37.398 246 101 7 4 201 1 241 6.62e-40 136
MS.gene029705.t1 MTR_2g084525 46.951 164 74 6 4 158 1 160 5.42e-38 131
MS.gene029705.t1 MTR_2g055210 42.308 130 72 3 5 134 100 226 2.49e-33 122
MS.gene029705.t1 MTR_4g094680 32.877 219 119 6 7 201 22 236 3.88e-30 111
MS.gene029705.t1 MTR_4g116300 42.188 128 72 2 7 134 6 131 1.75e-29 110
MS.gene029705.t1 MTR_2g036170 31.250 224 118 6 7 202 37 252 6.25e-28 105
MS.gene029705.t1 MTR_8g105930 36.054 147 70 6 9 134 15 158 6.32e-20 84.7
MS.gene029705.t1 MTR_5g077740 29.744 195 106 6 7 201 23 186 2.81e-19 81.6
MS.gene029705.t1 MTR_8g097310 32.075 159 96 3 46 201 4 153 5.26e-19 80.1
MS.gene029705.t1 MTR_2g083710 49.206 63 30 2 1 62 1 62 1.90e-15 68.2
MS.gene029705.t1 MTR_1g032880 39.535 86 47 3 54 135 27 111 1.25e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene029705.t1 AT1G32700 53.769 199 86 3 7 202 12 207 2.55e-71 216
MS.gene029705.t1 AT2G27930 54.327 208 66 3 4 202 1 188 6.56e-68 206
MS.gene029705.t1 AT2G27930 54.327 208 66 3 4 202 1 188 6.56e-68 206
MS.gene029705.t1 AT1G76590 46.957 230 85 4 7 201 18 245 3.65e-65 201
MS.gene029705.t1 AT1G21000 45.923 233 86 6 7 201 13 243 1.68e-64 199
MS.gene029705.t1 AT1G21000 45.923 233 86 6 7 201 16 246 1.88e-64 199
MS.gene029705.t1 AT4G17900 51.471 204 81 7 7 202 20 213 2.81e-64 198
MS.gene029705.t1 AT4G17900 51.471 204 81 7 7 202 34 227 3.51e-64 198
MS.gene029705.t1 AT1G43000 45.581 215 100 5 2 201 11 223 2.32e-60 188
MS.gene029705.t1 AT1G43000 45.581 215 100 5 2 201 4 216 2.67e-60 188
MS.gene029705.t1 AT2G27930 61.290 155 51 1 4 149 1 155 7.39e-59 182
MS.gene029705.t1 AT2G27930 61.290 155 51 1 4 149 1 155 7.39e-59 182
MS.gene029705.t1 AT5G46710 48.744 199 97 4 7 201 12 209 1.69e-57 181
MS.gene029705.t1 AT5G46710 48.744 199 97 4 7 201 28 225 3.42e-57 180
MS.gene029705.t1 AT1G32700 52.632 171 75 3 35 202 1 168 1.05e-55 174
MS.gene029705.t1 AT5G46710 58.140 129 52 2 7 134 28 155 3.35e-49 158
MS.gene029705.t1 AT2G27930 52.318 151 43 3 61 202 61 191 8.59e-42 140
MS.gene029705.t1 AT2G27930 52.318 151 43 3 61 202 61 191 8.59e-42 140
MS.gene029705.t1 AT1G31040 34.361 227 114 7 7 201 19 242 3.71e-35 124
MS.gene029705.t1 AT3G60670 38.650 163 91 4 1 156 1 161 5.62e-31 114
MS.gene029705.t1 AT2G12646 43.750 128 70 2 7 134 3 128 1.62e-29 110
MS.gene029705.t1 AT2G12646 43.750 128 70 2 7 134 6 131 1.80e-29 110
MS.gene029705.t1 AT2G12646 43.750 128 70 2 7 134 6 131 1.80e-29 110
MS.gene029705.t1 AT2G01818 30.516 213 124 7 9 201 13 221 8.15e-23 92.0

Find 44 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAGTTCGTTTCTGTTCTT+TGG 0.184177 1.2:+47308498 MS.gene029705:CDS
AGAAGTGGTTTGAGCCATTT+AGG 0.226031 1.2:-47307974 None:intergenic
AGAAACGAACTTGGTCTAAA+AGG 0.306972 1.2:-47308489 None:intergenic
ATTCCTCATAGGGCTCCTTT+TGG 0.317747 1.2:+47309114 MS.gene029705:CDS
ACACAATGTTGGTTCCTAAA+TGG 0.324494 1.2:+47307960 MS.gene029705:CDS
CAAGGATCATCAAGTCATTC+AGG 0.333682 1.2:+47308117 MS.gene029705:CDS
TTTCTTCTCCTTGCGTTTGA+AGG 0.347275 1.2:-47309087 None:intergenic
CAAGTTCGTTTCTGTTCTTT+GGG 0.351554 1.2:+47308499 MS.gene029705:CDS
CTTGTAGGAATAAAGAGAAA+TGG 0.373461 1.2:+47308931 MS.gene029705:CDS
TTTCTGTTCTTTGGGATGTA+AGG 0.374729 1.2:+47308507 MS.gene029705:CDS
CAGAAAATGTTGGACATTAG+TGG 0.376562 1.2:+47308358 MS.gene029705:CDS
GGAGGTGTTGGAGGAGTTGC+TGG 0.378339 1.2:-47309066 None:intergenic
GAGAGGCCTCAACCAAAATC+TGG 0.407501 1.2:+47308427 MS.gene029705:CDS
GAAGAAAAGGGATTCCTCAT+AGG 0.407985 1.2:+47309103 MS.gene029705:CDS
CAATGATTGAATTAGCTTGT+AGG 0.416656 1.2:+47308916 MS.gene029705:intron
TTGTAGGAATAAAGAGAAAT+GGG 0.420634 1.2:+47308932 MS.gene029705:CDS
TCAAACGCAAGGAGAAGAAA+AGG 0.442491 1.2:+47309090 MS.gene029705:CDS
CCTTACATTTGTGAGATTTG+TGG 0.451494 1.2:+47308460 MS.gene029705:CDS
CTTGCGTTTGAAGGAGGTGT+TGG 0.453994 1.2:-47309078 None:intergenic
CCAAAGAACAGAAACGAACT+TGG 0.484387 1.2:-47308498 None:intergenic
CCACAAATCTCACAAATGTA+AGG 0.486176 1.2:-47308460 None:intergenic
TAAAATGACTAGGGTCCAAA+AGG 0.492758 1.2:-47309129 None:intergenic
GCGTTTGAAGGAGGTGTTGG+AGG 0.501278 1.2:-47309075 None:intergenic
CTTCTCCTTGCGTTTGAAGG+AGG 0.504177 1.2:-47309084 None:intergenic
GAGGTATCAACAATGGAAGA+AGG 0.508623 1.2:+47308988 MS.gene029705:CDS
GGCTGAAATTCAGAAAATGT+TGG 0.529817 1.2:+47308348 MS.gene029705:CDS
ATTTGTGAGATTTGTGGAAG+AGG 0.530195 1.2:+47308466 MS.gene029705:CDS
ACATTCACTCCTTGCGGCGT+CGG 0.535957 1.2:-47308032 None:intergenic
AAGAAAAGGGATTCCTCATA+GGG 0.544259 1.2:+47309104 MS.gene029705:CDS
CAAACGCAAGGAGAAGAAAA+GGG 0.546728 1.2:+47309091 MS.gene029705:CDS
AGAACGACAATAGAAGCAAA+AGG 0.552138 1.2:-47308086 None:intergenic
GGATTCACGCCGACGCCGCA+AGG 0.566326 1.2:+47308023 MS.gene029705:CDS
AGGTATCAACAATGGAAGAA+GGG 0.569523 1.2:+47308989 MS.gene029705:CDS
GGTCCAAAAGGAGCCCTATG+AGG 0.587771 1.2:-47309117 None:intergenic
TTTAGATGCAAATAACAATG+AGG 0.589036 1.2:+47308969 MS.gene029705:CDS
CTTCATATCATGATGTAGTG+AGG 0.591334 1.2:+47308323 MS.gene029705:CDS
TAACAATGAGGTATCAACAA+TGG 0.597297 1.2:+47308981 MS.gene029705:CDS
TTCATATCATGATGTAGTGA+GGG 0.599632 1.2:+47308324 MS.gene029705:CDS
TTGTCGTTCTTCAAAACACA+AGG 0.606276 1.2:+47308099 MS.gene029705:CDS
CAACACCTCCTTCAAACGCA+AGG 0.609547 1.2:+47309079 MS.gene029705:CDS
TTGCGTGAAGGCTCACAACA+AGG 0.621390 1.2:+47309036 MS.gene029705:CDS
CATGTTACATTCACTCCTTG+CGG 0.659509 1.2:-47308038 None:intergenic
CAAGAAGAAGAATTGCGTGA+AGG 0.666815 1.2:+47309024 MS.gene029705:CDS
ATATCATGATGTAGTGAGGG+TGG 0.676670 1.2:+47308327 MS.gene029705:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAAAAAATATATACTTT+AGG - chr1.2:47308278-47308297 None:intergenic 10.0%
!! ATAATTATTGAATAGTAGAT+AGG + chr1.2:47308810-47308829 MS.gene029705:intron 15.0%
!!! GTATATATTTTTTTTGTTGT+TGG + chr1.2:47308281-47308300 MS.gene029705:intron 15.0%
!!! TTATGCACATTTTTTATAAT+GGG + chr1.2:47308168-47308187 MS.gene029705:intron 15.0%
!! TATATGAAGCATATAACTAT+AGG + chr1.2:47308700-47308719 MS.gene029705:intron 20.0%
!!! CTTATGCACATTTTTTATAA+TGG + chr1.2:47308167-47308186 MS.gene029705:intron 20.0%
!!! TATGCACATTTTTTATAATG+GGG + chr1.2:47308169-47308188 MS.gene029705:intron 20.0%
!!! TTTAAAATTATGATGTGAAG+AGG - chr1.2:47308605-47308624 None:intergenic 20.0%
! ATACACATGATGATTAATGA+TGG - chr1.2:47308683-47308702 None:intergenic 25.0%
! ATACTAATTAATTGTTGTGC+TGG + chr1.2:47308893-47308912 MS.gene029705:intron 25.0%
! GTGCATAAGAAAAATAATTG+AGG - chr1.2:47308156-47308175 None:intergenic 25.0%
! TAAATGTGATGAAATGTCAA+TGG - chr1.2:47308735-47308754 None:intergenic 25.0%
! TGATGGAAGGAATATAATTA+TGG - chr1.2:47308666-47308685 None:intergenic 25.0%
! TTGTAGGAATAAAGAGAAAT+GGG + chr1.2:47308932-47308951 MS.gene029705:CDS 25.0%
! TTTAGATGCAAATAACAATG+AGG + chr1.2:47308969-47308988 MS.gene029705:CDS 25.0%
!!! TTTGATTTTGATTTTTGAGC+AGG + chr1.2:47307937-47307956 MS.gene029705:intron 25.0%
AAAAATGGTGTACTAAGAAG+TGG - chr1.2:47307992-47308011 None:intergenic 30.0%
AAGTCATTCAGGTAAATTAG+AGG + chr1.2:47308128-47308147 MS.gene029705:intron 30.0%
AGTCATTCAGGTAAATTAGA+GGG + chr1.2:47308129-47308148 MS.gene029705:intron 30.0%
ATGAGCTTTCCAAATAATGT+AGG - chr1.2:47308639-47308658 None:intergenic 30.0%
CTTGTAGGAATAAAGAGAAA+TGG + chr1.2:47308931-47308950 MS.gene029705:CDS 30.0%
TTCATATCATGATGTAGTGA+GGG + chr1.2:47308324-47308343 MS.gene029705:CDS 30.0%
TTGAATAGTAGATAGGAACA+TGG + chr1.2:47308817-47308836 MS.gene029705:intron 30.0%
! ACATGATGATTAATGATGGA+AGG - chr1.2:47308679-47308698 None:intergenic 30.0%
! TAACAATGAGGTATCAACAA+TGG + chr1.2:47308981-47309000 MS.gene029705:CDS 30.0%
!! CAATGATTGAATTAGCTTGT+AGG + chr1.2:47308916-47308935 MS.gene029705:intron 30.0%
!!! CACATTTTTTATAATGGGGT+TGG + chr1.2:47308173-47308192 MS.gene029705:intron 30.0%
AAGAAAAGGGATTCCTCATA+GGG + chr1.2:47309104-47309123 MS.gene029705:CDS 35.0%
AGAAACGAACTTGGTCTAAA+AGG - chr1.2:47308492-47308511 None:intergenic 35.0%
AGAACGACAATAGAAGCAAA+AGG - chr1.2:47308089-47308108 None:intergenic 35.0%
AGCTTTCCAAATAATGTAGG+TGG - chr1.2:47308636-47308655 None:intergenic 35.0%
AGGTATCAACAATGGAAGAA+GGG + chr1.2:47308989-47309008 MS.gene029705:CDS 35.0%
ATTTGTGAGATTTGTGGAAG+AGG + chr1.2:47308466-47308485 MS.gene029705:CDS 35.0%
CAAGTTCGTTTCTGTTCTTT+GGG + chr1.2:47308499-47308518 MS.gene029705:CDS 35.0%
CAGAAAATGTTGGACATTAG+TGG + chr1.2:47308358-47308377 MS.gene029705:CDS 35.0%
CCACAAATCTCACAAATGTA+AGG - chr1.2:47308463-47308482 None:intergenic 35.0%
CCTTACATTTGTGAGATTTG+TGG + chr1.2:47308460-47308479 MS.gene029705:CDS 35.0%
CTTCATATCATGATGTAGTG+AGG + chr1.2:47308323-47308342 MS.gene029705:CDS 35.0%
GGCTGAAATTCAGAAAATGT+TGG + chr1.2:47308348-47308367 MS.gene029705:CDS 35.0%
TTCCAAATAATGTAGGTGGT+GGG - chr1.2:47308632-47308651 None:intergenic 35.0%
TTGTCGTTCTTCAAAACACA+AGG + chr1.2:47308099-47308118 MS.gene029705:CDS 35.0%
TTTCCAAATAATGTAGGTGG+TGG - chr1.2:47308633-47308652 None:intergenic 35.0%
!! ACACAATGTTGGTTCCTAAA+TGG + chr1.2:47307960-47307979 MS.gene029705:CDS 35.0%
!! TTTCTGTTCTTTGGGATGTA+AGG + chr1.2:47308507-47308526 MS.gene029705:CDS 35.0%
!!! GAGTTTTGTTTCTGAATGAG+AGG + chr1.2:47308410-47308429 MS.gene029705:CDS 35.0%
AGAAGTGGTTTGAGCCATTT+AGG - chr1.2:47307977-47307996 None:intergenic 40.0%
ATATCATGATGTAGTGAGGG+TGG + chr1.2:47308327-47308346 MS.gene029705:CDS 40.0%
ATCCGACACTCGTTGAAAAA+TGG - chr1.2:47308007-47308026 None:intergenic 40.0%
CAAACGCAAGGAGAAGAAAA+GGG + chr1.2:47309091-47309110 MS.gene029705:CDS 40.0%
CAAGAAGAAGAATTGCGTGA+AGG + chr1.2:47309024-47309043 MS.gene029705:CDS 40.0%
CAAGGATCATCAAGTCATTC+AGG + chr1.2:47308117-47308136 MS.gene029705:CDS 40.0%
CATGTTACATTCACTCCTTG+CGG - chr1.2:47308041-47308060 None:intergenic 40.0%
CCAAAGAACAGAAACGAACT+TGG - chr1.2:47308501-47308520 None:intergenic 40.0%
CCAAGTTCGTTTCTGTTCTT+TGG + chr1.2:47308498-47308517 MS.gene029705:CDS 40.0%
GAAGAAAAGGGATTCCTCAT+AGG + chr1.2:47309103-47309122 MS.gene029705:CDS 40.0%
TCAAACGCAAGGAGAAGAAA+AGG + chr1.2:47309090-47309109 MS.gene029705:CDS 40.0%
TTTCTTCTCCTTGCGTTTGA+AGG - chr1.2:47309090-47309109 None:intergenic 40.0%
! GAGGTATCAACAATGGAAGA+AGG + chr1.2:47308988-47309007 MS.gene029705:CDS 40.0%
! TTTTGAGCAGGACACAATGT+TGG + chr1.2:47307949-47307968 MS.gene029705:intron 40.0%
!! CACCATTTTTCAACGAGTGT+CGG + chr1.2:47308002-47308021 MS.gene029705:CDS 40.0%
!! GGAACTGCTTTTCCAGATTT+TGG - chr1.2:47308442-47308461 None:intergenic 40.0%
!!! GCTTTTCCAGATTTTGGTTG+AGG - chr1.2:47308436-47308455 None:intergenic 40.0%
CACCCACCACCTACATTATT+TGG + chr1.2:47308627-47308646 MS.gene029705:intron 45.0%
! ATTCCTCATAGGGCTCCTTT+TGG + chr1.2:47309114-47309133 MS.gene029705:CDS 45.0%
CAACACCTCCTTCAAACGCA+AGG + chr1.2:47309079-47309098 MS.gene029705:CDS 50.0%
CTTCTCCTTGCGTTTGAAGG+AGG - chr1.2:47309087-47309106 None:intergenic 50.0%
GAGAGGCCTCAACCAAAATC+TGG + chr1.2:47308427-47308446 MS.gene029705:CDS 50.0%
TTGCGTGAAGGCTCACAACA+AGG + chr1.2:47309036-47309055 MS.gene029705:CDS 50.0%
! CTTGCGTTTGAAGGAGGTGT+TGG - chr1.2:47309081-47309100 None:intergenic 50.0%
ACATTCACTCCTTGCGGCGT+CGG - chr1.2:47308035-47308054 None:intergenic 55.0%
GGTCCAAAAGGAGCCCTATG+AGG - chr1.2:47309120-47309139 None:intergenic 55.0%
!! GCGTTTGAAGGAGGTGTTGG+AGG - chr1.2:47309078-47309097 None:intergenic 55.0%
!! GGAGGTGTTGGAGGAGTTGC+TGG - chr1.2:47309069-47309088 None:intergenic 60.0%
GGATTCACGCCGACGCCGCA+AGG + chr1.2:47308023-47308042 MS.gene029705:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 47307863 47309143 47307863 ID=MS.gene029705
chr1.2 mRNA 47307863 47309143 47307863 ID=MS.gene029705.t1;Parent=MS.gene029705
chr1.2 exon 47307863 47307865 47307863 ID=MS.gene029705.t1.exon1;Parent=MS.gene029705.t1
chr1.2 CDS 47307863 47307865 47307863 ID=cds.MS.gene029705.t1;Parent=MS.gene029705.t1
chr1.2 exon 47307959 47308138 47307959 ID=MS.gene029705.t1.exon2;Parent=MS.gene029705.t1
chr1.2 CDS 47307959 47308138 47307959 ID=cds.MS.gene029705.t1;Parent=MS.gene029705.t1
chr1.2 exon 47308313 47308528 47308313 ID=MS.gene029705.t1.exon3;Parent=MS.gene029705.t1
chr1.2 CDS 47308313 47308528 47308313 ID=cds.MS.gene029705.t1;Parent=MS.gene029705.t1
chr1.2 exon 47308931 47309143 47308931 ID=MS.gene029705.t1.exon4;Parent=MS.gene029705.t1
chr1.2 CDS 47308931 47309143 47308931 ID=cds.MS.gene029705.t1;Parent=MS.gene029705.t1
Gene Sequence

>MS.gene029705

ATGGTATGTATGTATATACACATATGTTATAACTTATGTTTTGAATTTAATATGTTCATATGATTGATTTTGATTTTGATTTTGATTTTTGAGCAGGACACAATGTTGGTTCCTAAATGGCTCAAACCACTTCTTAGTACACCATTTTTCAACGAGTGTCGGATTCACGCCGACGCCGCAAGGAGTGAATGTAACATGTTTTGTCTAGATTGCAATGTTGATGCCTTTTGCTTCTATTGTCGTTCTTCAAAACACAAGGATCATCAAGTCATTCAGGTAAATTAGAGGGTCCTCAATTATTTTTCTTATGCACATTTTTTATAATGGGGTTGGTTAAATTTTGTGATTTTTTAATATGTTTATAATGATTGAAATTCAGCACTCTTATTATATGATCGTCATTTTTCTTTATCCTAAAGTATATATTTTTTTTGTTGTTGGTTTAATTAGATAAGACGATCTTCATATCATGATGTAGTGAGGGTGGCTGAAATTCAGAAAATGTTGGACATTAGTGGAGTACAAACATATGTGATCAATAGTGCTAGAGTTTTGTTTCTGAATGAGAGGCCTCAACCAAAATCTGGAAAAGCAGTTCCTTACATTTGTGAGATTTGTGGAAGAGGCCTTTTAGACCAAGTTCGTTTCTGTTCTTTGGGATGTAAGGTGAGATTTTGTTTCATAAACATTTTTCATAGCATCAAAATGTACATATAATTCACAAATCAAATAGCTTAGTCCTCTTCACATCATAATTTTAAAAACACCCACCACCTACATTATTTGGAAAGCTCATCACACCATAATTATATTCCTTCCATCATTAATCATCATGTGTATATGAAGCATATAACTATAGGCGCAGTACTCCATTGACATTTCATCACATTTATAAAAATAATCATATTATTATCTAGTTAATATTATTGATATATTTTTTTATAAAGATAATTATTGAATAGTAGATAGGAACATGGTATAATAATGTGTATAAAATAATAATGAATCAATATATGATTTGTTTAATTTGATACTAATTAATTGTTGTGCTGGCAATGATTGAATTAGCTTGTAGGAATAAAGAGAAATGGGAATGCAAGCTTTGTTTTAGATGCAAATAACAATGAGGTATCAACAATGGAAGAAGGGATGTCAAGACAACAAGAAGAAGAATTGCGTGAAGGCTCACAACAAGGCATGTATCCAGCAACTCCTCCAACACCTCCTTCAAACGCAAGGAGAAGAAAAGGGATTCCTCATAGGGCTCCTTTTGGACCCTAG
Protein sequence

>MS.gene029705.t1

MDTMLVPKWLKPLLSTPFFNECRIHADAARSECNMFCLDCNVDAFCFYCRSSKHKDHQVIQIRRSSYHDVVRVAEIQKMLDISGVQTYVINSARVLFLNERPQPKSGKAVPYICEICGRGLLDQVRFCSLGCKLVGIKRNGNASFVLDANNNEVSTMEEGMSRQQEEELREGSQQGMYPATPPTPPSNARRRKGIPHRAPFGP