AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01274

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01274.t1 MTR_2g010600 85.802 162 20 2 1 159 1 162 1.15e-98 281
MS.gene01274.t1 MTR_2g010590 78.616 159 34 0 1 159 1 159 2.19e-96 275
MS.gene01274.t1 MTR_4g050762 84.568 162 22 2 1 159 1 162 3.73e-90 260
MS.gene01274.t1 MTR_2g012370 84.568 162 22 2 1 159 1 162 3.73e-90 260
MS.gene01274.t1 MTR_2g010610 81.250 160 7 3 1 159 1 138 1.42e-78 229
MS.gene01274.t1 MTR_2g010650 68.263 167 43 6 1 159 1 165 1.11e-76 226
MS.gene01274.t1 MTR_2g010630 70.588 153 38 3 13 159 14 165 2.09e-75 222
MS.gene01274.t1 MTR_2g010700 60.355 169 56 5 1 159 1 168 4.59e-65 196
MS.gene01274.t1 MTR_2g010640 61.212 165 56 5 1 159 1 163 1.45e-63 192
MS.gene01274.t1 MTR_2g435490 54.487 156 69 2 6 159 9 164 1.37e-60 186
MS.gene01274.t1 MTR_2g010670 59.036 166 59 5 1 159 1 164 1.24e-58 180
MS.gene01274.t1 MTR_2g010690 56.627 166 63 5 1 159 1 164 4.11e-57 176
MS.gene01274.t1 MTR_2g010580 47.170 159 83 1 1 159 7 164 4.25e-54 168
MS.gene01274.t1 MTR_4g092540 49.375 160 70 3 1 159 10 159 2.24e-52 164
MS.gene01274.t1 MTR_4g128750 51.128 133 63 2 29 159 41 173 1.48e-42 139
MS.gene01274.t1 MTR_4g128770 44.526 137 71 2 28 159 70 206 3.24e-40 134
MS.gene01274.t1 MTR_1g067290 42.963 135 73 3 28 158 73 207 3.76e-34 119
MS.gene01274.t1 MTR_8g078770 35.329 167 94 5 7 159 6 172 7.59e-27 99.8
MS.gene01274.t1 MTR_4g092515 51.961 102 46 2 1 101 7 106 1.78e-26 97.4
MS.gene01274.t1 MTR_5g018770 34.270 178 95 6 3 159 9 185 2.18e-25 96.3
MS.gene01274.t1 MTR_5g018755 35.789 95 55 4 71 159 9 103 4.37e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01274.t1 AT2G14580 64.968 157 50 2 3 159 10 161 2.26e-70 209
MS.gene01274.t1 AT4G33720 61.146 157 58 2 3 159 10 163 3.00e-67 202
MS.gene01274.t1 AT2G14610 60.390 154 59 1 6 159 10 161 7.86e-64 193
MS.gene01274.t1 AT3G19690 55.828 163 66 3 1 159 1 161 2.19e-62 189
MS.gene01274.t1 AT5G26130 56.024 166 66 2 1 159 1 166 3.18e-61 186
MS.gene01274.t1 AT4G33710 60.000 140 54 1 22 159 27 166 4.84e-58 178
MS.gene01274.t1 AT1G50060 50.318 157 74 2 4 159 8 161 1.55e-50 159
MS.gene01274.t1 AT4G33730 54.135 133 59 2 28 159 41 172 2.55e-47 151
MS.gene01274.t1 AT2G19990 53.906 128 58 1 33 159 49 176 3.08e-47 151
MS.gene01274.t1 AT4G25790 51.471 136 64 2 26 159 75 210 1.50e-46 151
MS.gene01274.t1 AT5G57625 51.880 133 62 2 29 159 75 207 1.22e-45 148
MS.gene01274.t1 AT1G50050 50.000 158 74 3 4 159 8 162 6.66e-45 145
MS.gene01274.t1 AT3G09590 47.407 135 68 2 28 159 52 186 1.92e-43 142
MS.gene01274.t1 AT4G30320 44.966 149 79 3 13 159 14 161 2.28e-43 141
MS.gene01274.t1 AT4G25780 48.905 137 65 3 28 159 54 190 1.14e-42 140
MS.gene01274.t1 AT1G50050 48.718 156 75 3 4 157 8 160 7.38e-42 139
MS.gene01274.t1 AT4G07820 46.763 139 72 2 21 159 24 160 5.43e-41 135
MS.gene01274.t1 AT1G01310 47.015 134 68 2 28 159 87 219 2.07e-40 136
MS.gene01274.t1 AT5G02730 44.853 136 72 2 27 159 58 193 9.05e-40 133
MS.gene01274.t1 AT4G31470 43.704 135 75 1 26 159 51 185 7.37e-38 128
MS.gene01274.t1 AT5G66590 42.336 137 73 4 29 159 49 185 3.23e-31 111
MS.gene01274.t1 AT2G19970 43.262 141 67 7 30 159 39 177 1.06e-27 102
MS.gene01274.t1 AT2G19980 36.905 168 84 9 4 159 8 165 4.94e-23 89.7

Find 39 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACTCCGGTGGCCGTTAC+GGG 0.273758 2.2:-70882035 MS.gene01274:CDS
TTGGGCTTATTACTCATTAT+TGG 0.280398 2.2:-70882213 MS.gene01274:CDS
ATCCACTCCGGTGGCCGTTA+CGG 0.326170 2.2:-70882036 MS.gene01274:CDS
GCCATTATACTCAGGTTGTT+TGG 0.328715 2.2:-70881894 MS.gene01274:CDS
CATAGTCTGCTTGTGAGTCT+TGG 0.335837 2.2:+70882175 None:intergenic
TTGGTGTTCAAAATATTGTT+TGG 0.341386 2.2:-70882122 MS.gene01274:CDS
AATAGTAACACATGTGCTTC+TGG 0.347660 2.2:-70881928 MS.gene01274:CDS
TATTAAGCAAGCACTTAGTA+TGG 0.369831 2.2:+70881769 None:intergenic
ATCTGAGCCACTCAAGTCTC+CGG 0.382702 2.2:+70881993 None:intergenic
TCCAAACAACCTGAGTATAA+TGG 0.390459 2.2:+70881893 None:intergenic
TGGTGTTCAAAATATTGTTT+GGG 0.400203 2.2:-70882121 MS.gene01274:CDS
ATAGTCTGCTTGTGAGTCTT+GGG 0.401577 2.2:+70882176 None:intergenic
TCTGAGCCACTCAAGTCTCC+GGG 0.459067 2.2:+70881994 None:intergenic
CGTTATTATAGTTGCCTGGT+GGG 0.465282 2.2:+70881797 None:intergenic
GCCAAAGTGAGATGTGATAA+TGG 0.484296 2.2:-70881847 MS.gene01274:CDS
TCCATTATCACATCTCACTT+TGG 0.498337 2.2:+70881846 None:intergenic
CCCCGTAACGGCCACCGGAG+TGG 0.509997 2.2:+70882034 None:intergenic
GAGAATCTCGCGGGTAGCCC+CGG 0.516219 2.2:-70882012 MS.gene01274:CDS
TGGAGAAACTCACAACGTCT+TGG 0.520363 2.2:-70881874 MS.gene01274:CDS
ATTCTCCCCGTAACGGCCAC+CGG 0.528380 2.2:+70882029 None:intergenic
GCTCAGATGCAGTGAAGTTG+TGG 0.543630 2.2:-70881978 MS.gene01274:CDS
CTCAGATGCAGTGAAGTTGT+GGG 0.551141 2.2:-70881977 MS.gene01274:CDS
TCGTTATTATAGTTGCCTGG+TGG 0.573306 2.2:+70881796 None:intergenic
ACTTGCAATTACGACCCACC+AGG 0.586857 2.2:-70881811 MS.gene01274:CDS
CCACTCCGGTGGCCGTTACG+GGG 0.597515 2.2:-70882034 MS.gene01274:CDS
CCGCGAGATTCTCCCCGTAA+CGG 0.609234 2.2:+70882022 None:intergenic
CCGTTACGGGGAGAATCTCG+CGG 0.614640 2.2:-70882022 MS.gene01274:CDS
CGTTACGGGGAGAATCTCGC+GGG 0.631764 2.2:-70882021 MS.gene01274:CDS
AACGAAGCAAGATCTGAGGT+TGG 0.637008 2.2:-70882141 MS.gene01274:CDS
AGACTATGCTAATCAACACA+AGG 0.643418 2.2:-70882073 MS.gene01274:CDS
AGTGTGTGGCCATTATACTC+AGG 0.651003 2.2:-70881902 MS.gene01274:CDS
GGTAGCCCCGGAGACTTGAG+TGG 0.652738 2.2:-70882000 MS.gene01274:CDS
TGTCAACTGATCCACTCCGG+TGG 0.664496 2.2:-70882045 MS.gene01274:CDS
GATTGTCAACTGATCCACTC+CGG 0.665515 2.2:-70882048 MS.gene01274:CDS
GACTATGCTAATCAACACAA+GGG 0.683970 2.2:-70882072 MS.gene01274:CDS
TGTGCTTCTGGTAAAGTGTG+TGG 0.690422 2.2:-70881916 MS.gene01274:CDS
TCACAACGAAGCAAGATCTG+AGG 0.699112 2.2:-70882145 MS.gene01274:CDS
CTGAGCCACTCAAGTCTCCG+GGG 0.708120 2.2:+70881995 None:intergenic
AAAGTGAGATGTGATAATGG+AGG 0.800107 2.2:-70881844 MS.gene01274:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGGTGTTCAAAATATTGTTT+GGG - chr2.2:70881902-70881921 MS.gene01274:CDS 25.0%
!! ATTTTCTCTATTGTGTTTCT+TGG - chr2.2:70881791-70881810 MS.gene01274:CDS 25.0%
!! TTGGTGTTCAAAATATTGTT+TGG - chr2.2:70881901-70881920 MS.gene01274:CDS 25.0%
!! TTTTCTCTATTGTGTTTCTT+GGG - chr2.2:70881792-70881811 MS.gene01274:CDS 25.0%
TTGGGCTTATTACTCATTAT+TGG - chr2.2:70881810-70881829 MS.gene01274:CDS 30.0%
! TTTTCGTTATTATAGTTGCC+TGG + chr2.2:70882233-70882252 None:intergenic 30.0%
AATAGTAACACATGTGCTTC+TGG - chr2.2:70882095-70882114 MS.gene01274:CDS 35.0%
AGACTATGCTAATCAACACA+AGG - chr2.2:70881950-70881969 MS.gene01274:CDS 35.0%
GACTATGCTAATCAACACAA+GGG - chr2.2:70881951-70881970 MS.gene01274:CDS 35.0%
TCCAAACAACCTGAGTATAA+TGG + chr2.2:70882133-70882152 None:intergenic 35.0%
TCCATTATCACATCTCACTT+TGG + chr2.2:70882180-70882199 None:intergenic 35.0%
!! AAAGTGAGATGTGATAATGG+AGG - chr2.2:70882179-70882198 MS.gene01274:CDS 35.0%
ATAGTCTGCTTGTGAGTCTT+GGG + chr2.2:70881850-70881869 None:intergenic 40.0%
CGTTATTATAGTTGCCTGGT+GGG + chr2.2:70882229-70882248 None:intergenic 40.0%
GCCAAAGTGAGATGTGATAA+TGG - chr2.2:70882176-70882195 MS.gene01274:CDS 40.0%
TCGTTATTATAGTTGCCTGG+TGG + chr2.2:70882230-70882249 None:intergenic 40.0%
! GCCATTATACTCAGGTTGTT+TGG - chr2.2:70882129-70882148 MS.gene01274:CDS 40.0%
AGTGTGTGGCCATTATACTC+AGG - chr2.2:70882121-70882140 MS.gene01274:CDS 45.0%
CATAGTCTGCTTGTGAGTCT+TGG + chr2.2:70881851-70881870 None:intergenic 45.0%
CTCAGATGCAGTGAAGTTGT+GGG - chr2.2:70882046-70882065 MS.gene01274:CDS 45.0%
GATTGTCAACTGATCCACTC+CGG - chr2.2:70881975-70881994 MS.gene01274:CDS 45.0%
TCACAACGAAGCAAGATCTG+AGG - chr2.2:70881878-70881897 MS.gene01274:CDS 45.0%
TGGAGAAACTCACAACGTCT+TGG - chr2.2:70882149-70882168 MS.gene01274:CDS 45.0%
TGTGCTTCTGGTAAAGTGTG+TGG - chr2.2:70882107-70882126 MS.gene01274:CDS 45.0%
! AACGAAGCAAGATCTGAGGT+TGG - chr2.2:70881882-70881901 MS.gene01274:CDS 45.0%
ACTTGCAATTACGACCCACC+AGG - chr2.2:70882212-70882231 MS.gene01274:CDS 50.0%
ATCTGAGCCACTCAAGTCTC+CGG + chr2.2:70882033-70882052 None:intergenic 50.0%
GCTCAGATGCAGTGAAGTTG+TGG - chr2.2:70882045-70882064 MS.gene01274:CDS 50.0%
TCTGAGCCACTCAAGTCTCC+GGG + chr2.2:70882032-70882051 None:intergenic 55.0%
TGTCAACTGATCCACTCCGG+TGG - chr2.2:70881978-70881997 MS.gene01274:CDS 55.0%
ATCCACTCCGGTGGCCGTTA+CGG - chr2.2:70881987-70882006 MS.gene01274:CDS 60.0%
ATTCTCCCCGTAACGGCCAC+CGG + chr2.2:70881997-70882016 None:intergenic 60.0%
CCGCGAGATTCTCCCCGTAA+CGG + chr2.2:70882004-70882023 None:intergenic 60.0%
CCGTTACGGGGAGAATCTCG+CGG - chr2.2:70882001-70882020 MS.gene01274:CDS 60.0%
CGTTACGGGGAGAATCTCGC+GGG - chr2.2:70882002-70882021 MS.gene01274:CDS 60.0%
CTGAGCCACTCAAGTCTCCG+GGG + chr2.2:70882031-70882050 None:intergenic 60.0%
GAGAATCTCGCGGGTAGCCC+CGG - chr2.2:70882011-70882030 MS.gene01274:CDS 65.0%
GGTAGCCCCGGAGACTTGAG+TGG - chr2.2:70882023-70882042 MS.gene01274:CDS 65.0%
TCCACTCCGGTGGCCGTTAC+GGG - chr2.2:70881988-70882007 MS.gene01274:CDS 65.0%
CCACTCCGGTGGCCGTTACG+GGG - chr2.2:70881989-70882008 MS.gene01274:CDS 70.0%
CCCCGTAACGGCCACCGGAG+TGG + chr2.2:70881992-70882011 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 70881783 70882262 70881783 ID=MS.gene01274
chr2.2 mRNA 70881783 70882262 70881783 ID=MS.gene01274.t1;Parent=MS.gene01274
chr2.2 exon 70881783 70882262 70881783 ID=MS.gene01274.t1.exon1;Parent=MS.gene01274.t1
chr2.2 CDS 70881783 70882262 70881783 ID=cds.MS.gene01274.t1;Parent=MS.gene01274.t1
Gene Sequence

>MS.gene01274

ATGAGTTTATTTTCTCTATTGTGTTTCTTGGGCTTATTACTCATTATTGGTCATGTTGCACATGCCCAAGACTCACAAGCAGACTATGTGAACGCTCACAACGAAGCAAGATCTGAGGTTGGTGTTCAAAATATTGTTTGGGACAATACTGTTGCTAGTTTTGCACAAGACTATGCTAATCAACACAAGGGTGATTGTCAACTGATCCACTCCGGTGGCCGTTACGGGGAGAATCTCGCGGGTAGCCCCGGAGACTTGAGTGGCTCAGATGCAGTGAAGTTGTGGGTGAATGAGAAAGTTGACTATGATTATAATAGTAACACATGTGCTTCTGGTAAAGTGTGTGGCCATTATACTCAGGTTGTTTGGAGAAACTCACAACGTCTTGGATGTGCCAAAGTGAGATGTGATAATGGAGGCACATTCATTACTTGCAATTACGACCCACCAGGCAACTATAATAACGAAAAGCCATACTAA
Protein sequence

>MS.gene01274.t1

MSLFSLLCFLGLLLIIGHVAHAQDSQADYVNAHNEARSEVGVQNIVWDNTVASFAQDYANQHKGDCQLIHSGGRYGENLAGSPGDLSGSDAVKLWVNEKVDYDYNSNTCASGKVCGHYTQVVWRNSQRLGCAKVRCDNGGTFITCNYDPPGNYNNEKPY