AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057208


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057208.t1 MTR_3g092150 98.367 245 4 0 1 245 1 245 0.0 496
MS.gene057208.t1 MTR_8g026960 43.750 208 109 4 42 245 38 241 5.02e-48 159
MS.gene057208.t1 MTR_6g007647 45.185 135 63 2 7 130 25 159 3.92e-30 114
MS.gene057208.t1 MTR_6g007647 57.447 94 40 0 37 130 32 125 4.30e-30 113
MS.gene057208.t1 MTR_4g107650 56.122 98 43 0 37 134 94 191 4.73e-29 112
MS.gene057208.t1 MTR_6g011610 56.383 94 41 0 37 130 95 188 8.36e-29 110
MS.gene057208.t1 MTR_6g011610 56.383 94 41 0 37 130 76 169 9.40e-29 109
MS.gene057208.t1 MTR_8g468210 54.255 94 43 0 37 130 76 169 4.50e-28 108
MS.gene057208.t1 MTR_1g061660 49.533 107 46 2 37 142 58 157 1.35e-26 103
MS.gene057208.t1 MTR_5g038280 55.435 92 41 0 39 130 88 179 2.04e-26 104
MS.gene057208.t1 MTR_8g089895 55.435 92 41 0 39 130 55 146 2.49e-26 104
MS.gene057208.t1 MTR_5g039000 54.255 94 43 0 37 130 76 169 3.08e-26 103
MS.gene057208.t1 MTR_3g086790 51.064 94 46 0 37 130 59 152 6.69e-26 103
MS.gene057208.t1 MTR_7g103340 40.690 145 58 4 37 160 62 199 3.37e-25 99.8
MS.gene057208.t1 MTR_8g469430 54.348 92 42 0 39 130 90 181 5.26e-25 100
MS.gene057208.t1 MTR_3g080100 49.474 95 48 0 36 130 18 112 5.97e-25 98.6
MS.gene057208.t1 MTR_3g080100 49.474 95 48 0 36 130 57 151 9.64e-25 99.0
MS.gene057208.t1 MTR_7g010020 47.826 92 48 0 39 130 81 172 3.25e-21 89.7
MS.gene057208.t1 MTR_5g019680 47.368 114 46 2 31 130 39 152 5.76e-21 87.8
MS.gene057208.t1 MTR_5g019650 52.577 97 38 2 31 120 39 134 1.79e-19 84.3
MS.gene057208.t1 MTR_4g100550 44.211 95 46 1 39 133 121 208 9.74e-14 69.3
MS.gene057208.t1 MTR_7g093430 41.584 101 52 1 33 133 155 248 9.45e-13 66.6
MS.gene057208.t1 MTR_4g126900 42.857 84 48 0 41 124 91 174 1.79e-12 65.1
MS.gene057208.t1 MTR_4g097600 43.158 95 47 1 39 133 128 215 2.91e-12 65.1
MS.gene057208.t1 MTR_5g014890 43.750 96 53 1 39 133 124 219 5.18e-12 64.3
MS.gene057208.t1 MTR_1g017090 43.158 95 47 1 39 133 131 218 8.64e-12 63.9
MS.gene057208.t1 MTR_1g054285 39.423 104 56 1 33 136 149 245 1.42e-11 63.5
MS.gene057208.t1 MTR_3g103590 45.333 75 41 0 36 110 143 217 1.60e-11 63.2
MS.gene057208.t1 MTR_8g006705 42.105 95 48 1 39 133 147 234 2.04e-11 63.2
MS.gene057208.t1 MTR_7g027265 31.250 144 73 4 35 177 17 135 2.37e-11 60.5
MS.gene057208.t1 MTR_2g061030 40.000 95 50 1 39 133 201 288 7.45e-11 61.6
MS.gene057208.t1 MTR_5g013010 41.053 95 49 1 39 133 137 224 8.84e-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.gene057208.t1 AT2G46680 42.324 241 118 5 25 245 19 258 1.98e-45 152
MS.gene057208.t1 AT2G46680 43.162 234 114 5 30 245 24 256 2.14e-44 150
MS.gene057208.t1 AT3G61890 68.132 91 29 0 41 131 33 123 2.00e-38 134
MS.gene057208.t1 AT3G01470 43.382 136 77 0 37 172 67 202 1.14e-29 112
MS.gene057208.t1 AT2G22430 56.383 94 41 0 37 130 61 154 4.87e-29 111
MS.gene057208.t1 AT4G40060 52.041 98 47 0 37 134 58 155 2.13e-28 109
MS.gene057208.t1 AT1G69780 54.255 94 43 0 37 130 84 177 8.92e-28 107
MS.gene057208.t1 AT5G15150 53.191 94 44 0 37 130 114 207 3.48e-26 103
MS.gene057208.t1 AT2G18550 50.943 106 45 1 39 137 62 167 8.26e-26 100
MS.gene057208.t1 AT5G65310 51.064 94 46 0 37 130 53 146 2.88e-25 101
MS.gene057208.t1 AT5G65310 51.064 94 46 0 37 130 71 164 3.70e-25 101
MS.gene057208.t1 AT4G36740 42.647 136 61 2 17 135 25 160 9.24e-25 98.2
MS.gene057208.t1 AT5G66700 51.000 100 42 1 39 131 72 171 1.32e-24 98.2
MS.gene057208.t1 AT4G36740 50.962 104 44 1 39 135 56 159 1.33e-24 97.8
MS.gene057208.t1 AT3G01220 48.936 94 48 0 37 130 86 179 8.91e-24 97.1
MS.gene057208.t1 AT5G03790 43.478 115 54 2 20 134 63 166 1.85e-23 95.1
MS.gene057208.t1 AT1G26960 42.969 128 65 2 11 130 36 163 1.70e-22 93.2
MS.gene057208.t1 AT5G03790 46.000 100 50 1 20 119 63 158 7.68e-22 89.7
MS.gene057208.t1 AT1G27045 40.299 134 74 2 9 138 35 166 4.53e-21 89.4
MS.gene057208.t1 AT1G27045 39.683 126 72 1 9 130 35 160 5.48e-20 85.9
MS.gene057208.t1 AT1G27045 45.361 97 53 0 34 130 21 117 5.99e-20 84.7
MS.gene057208.t1 AT1G27045 45.361 97 53 0 34 130 21 117 5.99e-20 84.7
MS.gene057208.t1 AT1G27045 45.361 97 53 0 34 130 13 109 8.17e-20 84.0
MS.gene057208.t1 AT2G36610 42.308 104 45 2 39 134 72 168 2.58e-19 82.8
MS.gene057208.t1 AT5G53980 39.604 101 57 1 29 129 6 102 1.42e-15 72.0
MS.gene057208.t1 AT2G44910 42.000 100 51 1 39 138 164 256 1.46e-12 66.6
MS.gene057208.t1 AT3G60390 42.000 100 51 1 39 138 163 255 3.50e-12 65.5
MS.gene057208.t1 AT2G22800 42.105 95 48 1 39 133 114 201 1.10e-11 63.5
MS.gene057208.t1 AT5G06710 41.837 98 50 1 33 130 185 275 1.37e-11 63.9
MS.gene057208.t1 AT4G16780 42.105 95 48 1 39 133 130 217 5.85e-11 61.6
MS.gene057208.t1 AT4G37790 41.053 95 49 1 39 133 127 214 8.32e-11 61.2
MS.gene057208.t1 AT2G01430 42.105 95 48 1 39 133 140 227 8.71e-11 60.8

Find 37 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATATTCATGAAGGGTTTAA+AGG 0.209558 3.2:-77604887 MS.gene057208:CDS
AGCCTAGACAAGTTGCTATA+TGG 0.329458 3.2:-77604682 MS.gene057208:CDS
GCAAGTTGCATCTTCTTCCT+TGG 0.339735 3.2:+77604722 None:intergenic
TGAGGGTTTGGAGGATAAAA+TGG 0.360194 3.2:-77604135 MS.gene057208:CDS
AGCACAGAAGATGGTGGTTC+AGG 0.365057 3.2:-77604209 MS.gene057208:CDS
GGTTCAGAAGCTAAGTTATA+TGG 0.367405 3.2:-77604273 MS.gene057208:CDS
GAAGATGGTGGTTCAGGAAA+TGG 0.372815 3.2:-77604203 MS.gene057208:CDS
GAAATGGATACAACAATTGC+AGG 0.379643 3.2:-77604187 MS.gene057208:CDS
ATGCAACTTGCAAGAGATCT+TGG 0.385707 3.2:-77604710 MS.gene057208:CDS
TTCTAAGTTTCAGTGCCTTA+AGG 0.396105 3.2:-77604576 MS.gene057208:CDS
AAGACTCTTTCTCTTCCTTA+AGG 0.407960 3.2:+77604561 None:intergenic
TGATGAACAGATAAGATCAT+TGG 0.455417 3.2:-77604777 MS.gene057208:CDS
ATGCAATAGTTCTCAATGGT+TGG 0.475551 3.2:-77603949 MS.gene057208:CDS
GAAGAAGAGAATATTCATGA+AGG 0.503417 3.2:-77604896 MS.gene057208:CDS
CAGAATCAAAGTTGGAGCCA+AGG 0.518559 3.2:-77604739 MS.gene057208:CDS
ATTTGAGTCAGAATCAAAGT+TGG 0.518777 3.2:-77604747 MS.gene057208:CDS
AAGAAGAGAATATTCATGAA+GGG 0.519573 3.2:-77604895 MS.gene057208:CDS
AAGGAAAATAGCACAGAAGA+TGG 0.540540 3.2:-77604218 MS.gene057208:CDS
GAAAGAGTCTTTGCAATCAG+AGG 0.541327 3.2:-77604549 MS.gene057208:intron
AATCATGCAATAGTTCTCAA+TGG 0.553811 3.2:-77603953 MS.gene057208:CDS
AGAAGATAGAAAACAAGAGA+AGG 0.569555 3.2:-77604805 MS.gene057208:CDS
AAACATCGCATGATGGAGGA+AGG 0.574577 3.2:-77604247 MS.gene057208:CDS
AACCATATAGCAACTTGTCT+AGG 0.580258 3.2:+77604680 None:intergenic
TTCAGAACAGAAGAGCAAGA+TGG 0.602218 3.2:-77604658 MS.gene057208:CDS
TGATGGAGGAAGGGAAGCTA+AGG 0.606332 3.2:-77604237 MS.gene057208:CDS
TCAGAAGCTAAGTTATATGG+TGG 0.615960 3.2:-77604270 MS.gene057208:CDS
ATGGTGGAAACATCGCATGA+TGG 0.617224 3.2:-77604254 MS.gene057208:CDS
AACATCGCATGATGGAGGAA+GGG 0.628539 3.2:-77604246 MS.gene057208:CDS
GTGGAAACATCGCATGATGG+AGG 0.645127 3.2:-77604251 MS.gene057208:CDS
GGCCATATATAATATGATGG+AGG 0.645919 3.2:-77604918 None:intergenic
GAGCAAGATGGAAATCAAAG+AGG 0.650346 3.2:-77604646 MS.gene057208:CDS
GATTGATCTAACATACCACA+TGG 0.663576 3.2:+77603972 None:intergenic
GAAAATAGCACAGAAGATGG+TGG 0.663671 3.2:-77604215 MS.gene057208:CDS
AAAATGAAAGAAGCACAACA+TGG 0.668449 3.2:-77604094 MS.gene057208:CDS
ACAGAGAAAATTGAGGACAG+AGG 0.671559 3.2:-77604071 MS.gene057208:CDS
AACATGGACAGAGAAAATTG+AGG 0.710156 3.2:-77604078 MS.gene057208:CDS
TGGTACAATGTTGATCCATG+TGG 0.723453 3.2:-77603987 MS.gene057208:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAGGAAAAAAAAATTCACA+GGG + chr3.2:77604545-77604564 None:intergenic 20.0%
! AAGAAGAGAATATTCATGAA+GGG - chr3.2:77603945-77603964 MS.gene057208:CDS 25.0%
! AATATTCATGAAGGGTTTAA+AGG - chr3.2:77603953-77603972 MS.gene057208:CDS 25.0%
! GTTAGGAAAAAAAAATTCAC+AGG + chr3.2:77604546-77604565 None:intergenic 25.0%
!! AAAGCAAAGATTTTCAAATG+AGG - chr3.2:77604687-77604706 MS.gene057208:CDS 25.0%
!! AAGCAAAGATTTTCAAATGA+GGG - chr3.2:77604688-77604707 MS.gene057208:CDS 25.0%
!! TTTTTCTTCTTTGAATTCTG+AGG + chr3.2:77604013-77604032 None:intergenic 25.0%
!!! GTGAATTTTTTTTTCCTAAC+AGG - chr3.2:77604546-77604565 MS.gene057208:intron 25.0%
AAGTTAATGTCGAGTCTATA+AGG + chr3.2:77604520-77604539 None:intergenic 30.0%
AATCATGCAATAGTTCTCAA+TGG - chr3.2:77604887-77604906 MS.gene057208:CDS 30.0%
AGAAGATAGAAAACAAGAGA+AGG - chr3.2:77604035-77604054 MS.gene057208:CDS 30.0%
ATTTGAGTCAGAATCAAAGT+TGG - chr3.2:77604093-77604112 MS.gene057208:CDS 30.0%
GAAGAAGAGAATATTCATGA+AGG - chr3.2:77603944-77603963 MS.gene057208:CDS 30.0%
TGACAACAACACTTGAAAAA+TGG - chr3.2:77604833-77604852 MS.gene057208:CDS 30.0%
TGATGAACAGATAAGATCAT+TGG - chr3.2:77604063-77604082 MS.gene057208:CDS 30.0%
! AAAATGAAAGAAGCACAACA+TGG - chr3.2:77604746-77604765 MS.gene057208:CDS 30.0%
! AAGATTTTCAAATGAGGGTT+TGG - chr3.2:77604693-77604712 MS.gene057208:CDS 30.0%
!!! TTTTCAAGTGTTGTTGTCAA+GGG + chr3.2:77604832-77604851 None:intergenic 30.0%
!!! TTTTTCAAGTGTTGTTGTCA+AGG + chr3.2:77604833-77604852 None:intergenic 30.0%
AACATGGACAGAGAAAATTG+AGG - chr3.2:77604762-77604781 MS.gene057208:CDS 35.0%
AACCATATAGCAACTTGTCT+AGG + chr3.2:77604163-77604182 None:intergenic 35.0%
AAGACTCTTTCTCTTCCTTA+AGG + chr3.2:77604282-77604301 None:intergenic 35.0%
AAGGAAAATAGCACAGAAGA+TGG - chr3.2:77604622-77604641 MS.gene057208:CDS 35.0%
ACATGCTCAAGCTTAGTATT+AGG - chr3.2:77604465-77604484 MS.gene057208:intron 35.0%
ATGCAATAGTTCTCAATGGT+TGG - chr3.2:77604891-77604910 MS.gene057208:CDS 35.0%
GAAATGGATACAACAATTGC+AGG - chr3.2:77604653-77604672 MS.gene057208:CDS 35.0%
GATTGATCTAACATACCACA+TGG + chr3.2:77604871-77604890 None:intergenic 35.0%
GGTTCAGAAGCTAAGTTATA+TGG - chr3.2:77604567-77604586 MS.gene057208:CDS 35.0%
TCAGAAGCTAAGTTATATGG+TGG - chr3.2:77604570-77604589 MS.gene057208:CDS 35.0%
TCAGAGGTAAGTTAGTAGTT+TGG - chr3.2:77604307-77604326 MS.gene057208:intron 35.0%
TTCTAAGTTTCAGTGCCTTA+AGG - chr3.2:77604264-77604283 MS.gene057208:CDS 35.0%
! ATTTTCAAATGAGGGTTTGG+AGG - chr3.2:77604696-77604715 MS.gene057208:CDS 35.0%
! GTTCTCAATGGTTGGATTTT+TGG - chr3.2:77604899-77604918 MS.gene057208:CDS 35.0%
ACAGAGAAAATTGAGGACAG+AGG - chr3.2:77604769-77604788 MS.gene057208:CDS 40.0%
ACTTAGCTTCTGAACCTGTT+AGG + chr3.2:77604563-77604582 None:intergenic 40.0%
AGCCTAGACAAGTTGCTATA+TGG - chr3.2:77604158-77604177 MS.gene057208:CDS 40.0%
ATGCAACTTGCAAGAGATCT+TGG - chr3.2:77604130-77604149 MS.gene057208:CDS 40.0%
GAAAATAGCACAGAAGATGG+TGG - chr3.2:77604625-77604644 MS.gene057208:CDS 40.0%
GAAAGAGTCTTTGCAATCAG+AGG - chr3.2:77604291-77604310 MS.gene057208:intron 40.0%
GACTCAGCTCGTTAAATACT+CGG - chr3.2:77604417-77604436 MS.gene057208:intron 40.0%
GAGCAAGATGGAAATCAAAG+AGG - chr3.2:77604194-77604213 MS.gene057208:CDS 40.0%
TGAGGGTTTGGAGGATAAAA+TGG - chr3.2:77604705-77604724 MS.gene057208:CDS 40.0%
TGGTACAATGTTGATCCATG+TGG - chr3.2:77604853-77604872 MS.gene057208:CDS 40.0%
TTCAGAACAGAAGAGCAAGA+TGG - chr3.2:77604182-77604201 MS.gene057208:CDS 40.0%
CAGAATCAAAGTTGGAGCCA+AGG - chr3.2:77604101-77604120 MS.gene057208:CDS 45.0%
GCAAGTTGCATCTTCTTCCT+TGG + chr3.2:77604121-77604140 None:intergenic 45.0%
! AAACATCGCATGATGGAGGA+AGG - chr3.2:77604593-77604612 MS.gene057208:CDS 45.0%
! AACATCGCATGATGGAGGAA+GGG - chr3.2:77604594-77604613 MS.gene057208:CDS 45.0%
! ATGGTGGAAACATCGCATGA+TGG - chr3.2:77604586-77604605 MS.gene057208:CDS 45.0%
! GAAGATGGTGGTTCAGGAAA+TGG - chr3.2:77604637-77604656 MS.gene057208:CDS 45.0%
GTGGAAACATCGCATGATGG+AGG - chr3.2:77604589-77604608 MS.gene057208:CDS 50.0%
TGATGGAGGAAGGGAAGCTA+AGG - chr3.2:77604603-77604622 MS.gene057208:CDS 50.0%
! AGCACAGAAGATGGTGGTTC+AGG - chr3.2:77604631-77604650 MS.gene057208:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 77603935 77604927 77603935 ID=MS.gene057208
chr3.2 mRNA 77603935 77604927 77603935 ID=MS.gene057208.t1;Parent=MS.gene057208
chr3.2 exon 77604550 77604927 77604550 ID=MS.gene057208.t1.exon1;Parent=MS.gene057208.t1
chr3.2 CDS 77604550 77604927 77604550 ID=cds.MS.gene057208.t1;Parent=MS.gene057208.t1
chr3.2 exon 77603935 77604294 77603935 ID=MS.gene057208.t1.exon2;Parent=MS.gene057208.t1
chr3.2 CDS 77603935 77604294 77603935 ID=cds.MS.gene057208.t1;Parent=MS.gene057208.t1
Gene Sequence

>MS.gene057208

ATGATGGAGGAAGAAGAGAATATTCATGAAGGGTTTAAAGGAAAAAATGTTGAAAGCATGAGTTGCTTAGAGACACCTCAGAATTCAAAGAAGAAAAACAAGAAGATAGAAAACAAGAGAAGGTTTAGTGATGAACAGATAAGATCATTGGAATGCATATTTGAGTCAGAATCAAAGTTGGAGCCAAGGAAGAAGATGCAACTTGCAAGAGATCTTGGTTTGCAGCCTAGACAAGTTGCTATATGGTTTCAGAACAGAAGAGCAAGATGGAAATCAAAGAGGATAGAACAAGAATACAGAAAACTCAAAGATGAATATGATAATTTAGCTTCTAAGTTTCAGTGCCTTAAGGAAGAGAAAGAGTCTTTGCAATCAGAGGTAAGTTAGTAGTTTGGTTCTTGTAATTGTAACATAACTAGAGTTGTGTCTCGATAAACAGCTTAATTTAATTTAAACGAGTTGAGCTATTCGTGAACTATTCAGACTCAGCTCGTTAAATACTCGGTTATGTTCGTTTGTTTCGTTAAATAACATGCTCAAGCTTAGTATTAGGCTCGATTAATTAAATGAGTTGAACTTAAACCTTATAGACTCGACATTAACTTAACCCTGTGAATTTTTTTTTCCTAACAGGTTCAGAAGCTAAGTTATATGGTGGAAACATCGCATGATGGAGGAAGGGAAGCTAAGGAAAATAGCACAGAAGATGGTGGTTCAGGAAATGGATACAACAATTGCAGGTTTGAAGAAACAAAGCAAAGATTTTCAAATGAGGGTTTGGAGGATAAAATGGTCATTTATTCAGATGATCAAAATGAAAGAAGCACAACATGGACAGAGAAAATTGAGGACAGAGGAAATCAACTTTTAAGAAATGATGATCATGCAGAAATTCCCTTGACAACAACACTTGAAAAATGGTACAATGTTGATCCATGTGGTATGTTAGATCAATCATGCAATAGTTCTCAATGGTTGGATTTTTGGACTTGA

Protein sequence

>MS.gene057208.t1

MMEEEENIHEGFKGKNVESMSCLETPQNSKKKNKKIENKRRFSDEQIRSLECIFESESKLEPRKKMQLARDLGLQPRQVAIWFQNRRARWKSKRIEQEYRKLKDEYDNLASKFQCLKEEKESLQSEVQKLSYMVETSHDGGREAKENSTEDGGSGNGYNNCRFEETKQRFSNEGLEDKMVIYSDDQNERSTTWTEKIEDRGNQLLRNDDHAEIPLTTTLEKWYNVDPCGMLDQSCNSSQWLDFWT