AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62358

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62358.t1 MTR_7g446520 41.071 224 107 3 6 220 47 254 1.04e-47 160
MS.gene62358.t1 MTR_7g028855 44.079 152 80 1 33 179 112 263 4.64e-35 129
MS.gene62358.t1 MTR_7g446480 52.778 108 51 0 113 220 140 247 2.42e-34 124
MS.gene62358.t1 MTR_8g035530 76.316 76 17 1 28 102 1 76 2.63e-34 117
MS.gene62358.t1 MTR_7g446510 51.852 108 52 0 113 220 155 262 4.65e-32 119
MS.gene62358.t1 MTR_5g076070 30.120 166 111 2 38 198 50 215 5.62e-27 104
MS.gene62358.t1 MTR_3g080590 54.023 87 40 0 5 91 69 155 1.62e-25 97.8
MS.gene62358.t1 MTR_1g070355 31.183 186 119 3 41 220 74 256 1.26e-23 98.6
MS.gene62358.t1 MTR_6g022080 29.240 171 114 2 34 198 78 247 1.65e-23 94.7
MS.gene62358.t1 MTR_0402s0040 31.395 172 113 3 45 212 30 200 3.85e-20 88.6
MS.gene62358.t1 MTR_6g051425 27.513 189 128 3 40 220 16 203 1.19e-18 83.2
MS.gene62358.t1 MTR_1g008290 29.197 137 86 3 81 217 1 126 4.61e-15 70.1
MS.gene62358.t1 MTR_4g035820 30.811 185 117 5 44 219 78 260 4.76e-15 73.9
MS.gene62358.t1 MTR_7g061980 33.945 109 66 2 44 148 13 119 1.08e-14 68.2
MS.gene62358.t1 MTR_5g015480 33.077 130 80 3 45 167 60 189 4.22e-14 69.7
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 59 158 1.20e-13 68.2
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 59 158 1.26e-13 68.2
MS.gene62358.t1 MTR_2g098920 35.514 107 67 2 39 143 78 184 1.39e-13 68.2
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 77 176 1.56e-13 67.8
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 79 178 1.58e-13 68.2
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 79 178 1.67e-13 67.8
MS.gene62358.t1 MTR_4g067290 35.000 100 63 2 44 141 119 218 1.76e-13 68.2
MS.gene62358.t1 MTR_7g074790 27.950 161 92 3 44 200 13 153 4.38e-11 60.8
MS.gene62358.t1 MTR_7g113010 28.455 123 72 2 44 163 460 569 5.61e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62358.t1 AT4G38180 34.419 215 132 5 4 210 35 248 4.73e-26 105
MS.gene62358.t1 AT3G07500 36.184 152 83 6 16 157 3 150 6.18e-17 76.6
MS.gene62358.t1 AT3G59470 35.514 107 67 2 39 143 80 186 1.00e-13 68.6
MS.gene62358.t1 AT3G59470 35.514 107 67 2 39 143 68 174 1.03e-13 68.6
MS.gene62358.t1 AT3G59470 35.514 107 67 2 39 143 68 174 1.03e-13 68.6
MS.gene62358.t1 AT1G10240 29.143 175 115 5 44 209 51 225 5.27e-13 67.8
MS.gene62358.t1 AT1G10240 29.143 175 115 5 44 209 51 225 5.27e-13 67.8
MS.gene62358.t1 AT5G28530 26.966 178 122 4 44 214 58 234 6.32e-13 67.8
MS.gene62358.t1 AT5G28530 26.966 178 122 4 44 214 58 234 6.80e-13 67.4
MS.gene62358.t1 AT5G28530 26.966 178 122 4 44 214 58 234 6.80e-13 67.4
MS.gene62358.t1 AT5G28530 26.966 178 122 4 44 214 58 234 9.38e-13 67.0
MS.gene62358.t1 AT5G28530 26.966 178 122 4 44 214 58 234 9.58e-13 67.0
MS.gene62358.t1 AT4G12850 36.522 115 68 3 39 152 9 119 1.47e-12 63.2
MS.gene62358.t1 AT4G12850 38.235 102 61 2 39 139 9 109 2.20e-12 62.8
MS.gene62358.t1 AT4G12850 35.246 122 74 3 39 156 9 129 6.92e-12 62.4
MS.gene62358.t1 AT5G18960 39.175 97 47 3 44 139 46 131 1.37e-11 63.9
MS.gene62358.t1 AT5G18960 39.175 97 47 3 44 139 46 131 1.37e-11 63.9
MS.gene62358.t1 AT4G15090 28.962 183 121 6 44 220 54 233 4.88e-11 62.0
MS.gene62358.t1 AT4G15090 28.962 183 121 6 44 220 54 233 4.88e-11 62.0
MS.gene62358.t1 AT4G15090 28.962 183 121 6 44 220 54 233 4.88e-11 62.0
MS.gene62358.t1 AT4G15090 28.962 183 121 6 44 220 54 233 4.88e-11 62.0
MS.gene62358.t1 AT4G15090 28.962 183 121 6 44 220 54 233 4.88e-11 62.0

Find 49 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTAATAAGTGGAGAGTTTC+TGG 0.119642 6.4:+1696228 MS.gene62358:CDS
TGTTAGAACCTGTCATATTT+TGG 0.145212 6.4:+1696368 MS.gene62358:CDS
TCACTCAATTGACGGTTCTT+AGG 0.285255 6.4:-1696306 None:intergenic
TGCTGCGTTGAGTTATTTGT+AGG 0.320569 6.4:+1696503 MS.gene62358:CDS
TGAAGAAGGAAAAGAGGATA+TGG 0.353695 6.4:+1695924 MS.gene62358:CDS
TGGATACTTACAAGAAGATT+AGG 0.354642 6.4:+1695944 MS.gene62358:CDS
TCCAACCCGTTATGCTCATT+TGG 0.356553 6.4:+1696281 MS.gene62358:CDS
GAAAGGAGGTCATGAGAGTC+TGG 0.365097 6.4:+1696407 MS.gene62358:CDS
GAAGGAAAGGTAAGAATAGA+AGG 0.386587 6.4:+1696468 MS.gene62358:CDS
GCAAACGATGGAGACATAAA+TGG 0.387588 6.4:+1695868 MS.gene62358:CDS
TCTGATAAAGCCCTTGTTGA+TGG 0.437123 6.4:+1696330 MS.gene62358:CDS
TATCAGATTCACTCAATTGA+CGG 0.439464 6.4:-1696314 None:intergenic
GGATACTTACAAGAAGATTA+GGG 0.465987 6.4:+1695945 MS.gene62358:CDS
CAAGAAGATTAGGGAATTGA+CGG 0.467663 6.4:+1695954 MS.gene62358:CDS
AGGAACCAAATGAGCATAAC+GGG 0.471013 6.4:-1696286 None:intergenic
ATTTATGTCTCCATCGTTTG+CGG 0.473976 6.4:-1695866 None:intergenic
AATGGTGTGTTTAATGAAGA+AGG 0.477078 6.4:+1695910 MS.gene62358:CDS
GAAGATTTAGCCAGCGGTAA+TGG 0.477870 6.4:+1695892 MS.gene62358:CDS
TAAATGTTGATACTAATAAG+TGG 0.482914 6.4:+1696217 MS.gene62358:CDS
GGATGATGATATAAGAGGAT+TGG 0.496802 6.4:+1695975 MS.gene62358:CDS
TTGACGGATGATGATATAAG+AGG 0.497315 6.4:+1695970 MS.gene62358:CDS
GAAATCTATGCAGATTGTCA+TGG 0.498853 6.4:+1696033 MS.gene62358:CDS
TATAACTACTTATACAATGA+AGG 0.501991 6.4:+1696450 MS.gene62358:CDS
GATGTAAACAAAGATGATGA+TGG 0.508994 6.4:+1696075 MS.gene62358:CDS
AGAAACAAAGTACATATTCG+AGG 0.529955 6.4:+1696151 MS.gene62358:CDS
TGCAGATTGTCATGGGTTTG+TGG 0.531824 6.4:+1696041 MS.gene62358:CDS
AAATCTATGCAGATTGTCAT+GGG 0.533515 6.4:+1696034 MS.gene62358:CDS
ATTTAAATGGCCGCAAACGA+TGG 0.539363 6.4:+1695856 None:intergenic
TGCAGAACACTTAGTTCGAA+TGG 0.539821 6.4:-1696178 None:intergenic
GGAAAGGTAAGAATAGAAGG+TGG 0.544372 6.4:+1696471 MS.gene62358:CDS
TAGGAACCAAATGAGCATAA+CGG 0.549503 6.4:-1696287 None:intergenic
CATAAAACCCAAAATATGAC+AGG 0.552239 6.4:-1696376 None:intergenic
ATTAAACACACCATTACCGC+TGG 0.561779 6.4:-1695902 None:intergenic
GTTTAATGAAGAAGGAAAAG+AGG 0.567512 6.4:+1695918 MS.gene62358:CDS
AACGGGTTGGAGTTAACTCA+TGG 0.579913 6.4:-1696269 None:intergenic
CTACTTATACAATGAAGGAA+AGG 0.580957 6.4:+1696455 MS.gene62358:CDS
ATGTAAACAAAGATGATGAT+GGG 0.584402 6.4:+1696076 MS.gene62358:CDS
AGTTAACTCATGGTTGTGTG+AGG 0.591294 6.4:-1696259 None:intergenic
ACCAAATGAGCATAACGGGT+TGG 0.596668 6.4:-1696282 None:intergenic
TCGATTAGTATGTAATAGAG+AGG 0.600970 6.4:+1696113 MS.gene62358:CDS
TTTATGATGGCTCAGAAAGG+AGG 0.609928 6.4:+1696393 MS.gene62358:CDS
AAAGGAGGTCATGAGAGTCT+GGG 0.612373 6.4:+1696408 MS.gene62358:CDS
GTGCATGAAGACCATCAACA+AGG 0.624046 6.4:-1696341 None:intergenic
GTTAACTCATGGTTGTGTGA+GGG 0.630795 6.4:-1696258 None:intergenic
CGATTAGTATGTAATAGAGA+GGG 0.642038 6.4:+1696114 MS.gene62358:CDS
TTCGAACTAAGTGTTCTGCA+AGG 0.661356 6.4:+1696181 MS.gene62358:CDS
TGCATGAAGACCATCAACAA+GGG 0.667132 6.4:-1696340 None:intergenic
AATGGTGAAGATTTAGCCAG+CGG 0.677055 6.4:+1695886 MS.gene62358:CDS
GTTGATGGTCTTCATGCACA+CGG 0.677402 6.4:+1696345 MS.gene62358:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAATGTTGATACTAATAAG+TGG + chr6.4:1696217-1696236 MS.gene62358:CDS 20.0%
!! TATAACTACTTATACAATGA+AGG + chr6.4:1696450-1696469 MS.gene62358:CDS 20.0%
! ATGTAAACAAAGATGATGAT+GGG + chr6.4:1696076-1696095 MS.gene62358:CDS 25.0%
!!! TCATATTTTGGGTTTTATGA+TGG + chr6.4:1696380-1696399 MS.gene62358:CDS 25.0%
AAATCTATGCAGATTGTCAT+GGG + chr6.4:1696034-1696053 MS.gene62358:CDS 30.0%
AATGGTGTGTTTAATGAAGA+AGG + chr6.4:1695910-1695929 MS.gene62358:CDS 30.0%
AGAAACAAAGTACATATTCG+AGG + chr6.4:1696151-1696170 MS.gene62358:CDS 30.0%
CATAAAACCCAAAATATGAC+AGG - chr6.4:1696379-1696398 None:intergenic 30.0%
CGATTAGTATGTAATAGAGA+GGG + chr6.4:1696114-1696133 MS.gene62358:CDS 30.0%
CTACTTATACAATGAAGGAA+AGG + chr6.4:1696455-1696474 MS.gene62358:CDS 30.0%
GATGTAAACAAAGATGATGA+TGG + chr6.4:1696075-1696094 MS.gene62358:CDS 30.0%
GGATACTTACAAGAAGATTA+GGG + chr6.4:1695945-1695964 MS.gene62358:CDS 30.0%
GTTTAATGAAGAAGGAAAAG+AGG + chr6.4:1695918-1695937 MS.gene62358:CDS 30.0%
TATCAGATTCACTCAATTGA+CGG - chr6.4:1696317-1696336 None:intergenic 30.0%
TCGATTAGTATGTAATAGAG+AGG + chr6.4:1696113-1696132 MS.gene62358:CDS 30.0%
TGGATACTTACAAGAAGATT+AGG + chr6.4:1695944-1695963 MS.gene62358:CDS 30.0%
! GTTAGAACCTGTCATATTTT+GGG + chr6.4:1696369-1696388 MS.gene62358:CDS 30.0%
! TGTTAGAACCTGTCATATTT+TGG + chr6.4:1696368-1696387 MS.gene62358:CDS 30.0%
ACTAATAAGTGGAGAGTTTC+TGG + chr6.4:1696228-1696247 MS.gene62358:CDS 35.0%
ATTTATGTCTCCATCGTTTG+CGG - chr6.4:1695869-1695888 None:intergenic 35.0%
CAAGAAGATTAGGGAATTGA+CGG + chr6.4:1695954-1695973 MS.gene62358:CDS 35.0%
GAAATCTATGCAGATTGTCA+TGG + chr6.4:1696033-1696052 MS.gene62358:CDS 35.0%
GAAGGAAAGGTAAGAATAGA+AGG + chr6.4:1696468-1696487 MS.gene62358:CDS 35.0%
GGATGATGATATAAGAGGAT+TGG + chr6.4:1695975-1695994 MS.gene62358:CDS 35.0%
TAGGAACCAAATGAGCATAA+CGG - chr6.4:1696290-1696309 None:intergenic 35.0%
TGAAGAAGGAAAAGAGGATA+TGG + chr6.4:1695924-1695943 MS.gene62358:CDS 35.0%
! TTGACGGATGATGATATAAG+AGG + chr6.4:1695970-1695989 MS.gene62358:CDS 35.0%
AATGGTGAAGATTTAGCCAG+CGG + chr6.4:1695886-1695905 MS.gene62358:CDS 40.0%
AGGAACCAAATGAGCATAAC+GGG - chr6.4:1696289-1696308 None:intergenic 40.0%
AGTTAACTCATGGTTGTGTG+AGG - chr6.4:1696262-1696281 None:intergenic 40.0%
ATTAAACACACCATTACCGC+TGG - chr6.4:1695905-1695924 None:intergenic 40.0%
GCAAACGATGGAGACATAAA+TGG + chr6.4:1695868-1695887 MS.gene62358:CDS 40.0%
GGAAAGGTAAGAATAGAAGG+TGG + chr6.4:1696471-1696490 MS.gene62358:CDS 40.0%
GTTAACTCATGGTTGTGTGA+GGG - chr6.4:1696261-1696280 None:intergenic 40.0%
TCACTCAATTGACGGTTCTT+AGG - chr6.4:1696309-1696328 None:intergenic 40.0%
TCTGATAAAGCCCTTGTTGA+TGG + chr6.4:1696330-1696349 MS.gene62358:CDS 40.0%
TGCAGAACACTTAGTTCGAA+TGG - chr6.4:1696181-1696200 None:intergenic 40.0%
TGCATGAAGACCATCAACAA+GGG - chr6.4:1696343-1696362 None:intergenic 40.0%
TTCGAACTAAGTGTTCTGCA+AGG + chr6.4:1696181-1696200 MS.gene62358:CDS 40.0%
TTTATGATGGCTCAGAAAGG+AGG + chr6.4:1696393-1696412 MS.gene62358:CDS 40.0%
!! GGTTTTATGATGGCTCAGAA+AGG + chr6.4:1696390-1696409 MS.gene62358:CDS 40.0%
AAAGGAGGTCATGAGAGTCT+GGG + chr6.4:1696408-1696427 MS.gene62358:CDS 45.0%
GAAGATTTAGCCAGCGGTAA+TGG + chr6.4:1695892-1695911 MS.gene62358:CDS 45.0%
GTGCATGAAGACCATCAACA+AGG - chr6.4:1696344-1696363 None:intergenic 45.0%
TCCAACCCGTTATGCTCATT+TGG + chr6.4:1696281-1696300 MS.gene62358:CDS 45.0%
TGCAGATTGTCATGGGTTTG+TGG + chr6.4:1696041-1696060 MS.gene62358:CDS 45.0%
!! AACGGGTTGGAGTTAACTCA+TGG - chr6.4:1696272-1696291 None:intergenic 45.0%
!! ACCAAATGAGCATAACGGGT+TGG - chr6.4:1696285-1696304 None:intergenic 45.0%
!! ATGAGAGTCTGGGATTTTGC+AGG + chr6.4:1696418-1696437 MS.gene62358:CDS 45.0%
!! GTTGATGGTCTTCATGCACA+CGG + chr6.4:1696345-1696364 MS.gene62358:CDS 45.0%
GAAAGGAGGTCATGAGAGTC+TGG + chr6.4:1696407-1696426 MS.gene62358:CDS 50.0%
!! GAGTCTGGGATTTTGCAGGA+AGG + chr6.4:1696422-1696441 MS.gene62358:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 1695862 1696524 1695862 ID=MS.gene62358
chr6.4 mRNA 1695862 1696524 1695862 ID=MS.gene62358.t1;Parent=MS.gene62358
chr6.4 exon 1695862 1696524 1695862 ID=MS.gene62358.t1.exon1;Parent=MS.gene62358.t1
chr6.4 CDS 1695862 1696524 1695862 ID=cds.MS.gene62358.t1;Parent=MS.gene62358.t1
Gene Sequence

>MS.gene62358

ATGGCCGCAAACGATGGAGACATAAATGGTGAAGATTTAGCCAGCGGTAATGGTGTGTTTAATGAAGAAGGAAAAGAGGATATGGATACTTACAAGAAGATTAGGGAATTGACGGATGATGATATAAGAGGATTGGAATTTGATTCAGAGCAAAAAGCGACACAATTTTATGAAATCTATGCAGATTGTCATGGGTTTGTGGTAAGAAAAGATGATGTAAACAAAGATGATGATGGGAATATAATTGCACGTCGATTAGTATGTAATAGAGAGGGTGAGAATAAAAATAAGAAACAAAGTACATATTCGAGGCAGACCATTCGAACTAAGTGTTCTGCAAGGCTTCGAGTAGTTTTAAATGTTGATACTAATAAGTGGAGAGTTTCTGGATTCGAGCCCTCACACAACCATGAGTTAACTCCAACCCGTTATGCTCATTTGGTTCCTAAGAACCGTCAATTGAGTGAATCTGATAAAGCCCTTGTTGATGGTCTTCATGCACACGGTGTTAGAACCTGTCATATTTTGGGTTTTATGATGGCTCAGAAAGGAGGTCATGAGAGTCTGGGATTTTGCAGGAAGGACTTATATAACTACTTATACAATGAAGGAAAGGTAAGAATAGAAGGTGGAGATTCTTTTGCTGCGTTGAGTTATTTGTAG
Protein sequence

>MS.gene62358.t1

MAANDGDINGEDLASGNGVFNEEGKEDMDTYKKIRELTDDDIRGLEFDSEQKATQFYEIYADCHGFVVRKDDVNKDDDGNIIARRLVCNREGENKNKKQSTYSRQTIRTKCSARLRVVLNVDTNKWRVSGFEPSHNHELTPTRYAHLVPKNRQLSESDKALVDGLHAHGVRTCHILGFMMAQKGGHESLGFCRKDLYNYLYNEGKVRIEGGDSFAALSYL