AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20712

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20712.t1 MTR_1g088845 94.393 214 12 0 1 214 1 214 2.53e-151 419
MS.gene20712.t1 MTR_1g088840 89.252 214 23 0 1 214 1 214 9.11e-144 399
MS.gene20712.t1 MTR_1g088825 89.252 214 23 0 1 214 1 214 9.11e-144 399
MS.gene20712.t1 MTR_1g088840 88.554 166 19 0 49 214 2 167 5.87e-108 307
MS.gene20712.t1 MTR_1g088840 88.136 118 14 0 97 214 1 118 1.45e-72 216
MS.gene20712.t1 MTR_3g064700 43.961 207 115 1 3 208 2 208 4.68e-58 182
MS.gene20712.t1 MTR_3g450930 42.857 210 118 2 3 211 2 210 2.46e-57 181
MS.gene20712.t1 MTR_1g088850 39.904 208 124 1 4 210 3 210 4.85e-56 177
MS.gene20712.t1 MTR_3g450790 41.429 210 121 2 3 211 2 210 1.07e-55 176
MS.gene20712.t1 MTR_1g026140 40.909 220 123 4 1 213 1 220 4.73e-54 172
MS.gene20712.t1 MTR_5g090920 41.429 210 118 4 3 209 2 209 2.32e-51 165
MS.gene20712.t1 MTR_5g090910 38.863 211 126 3 3 211 2 211 2.23e-49 160
MS.gene20712.t1 MTR_1g492670 88.235 68 8 0 147 214 2 69 2.30e-39 130
MS.gene20712.t1 MTR_5g090910 37.415 147 90 2 67 211 8 154 2.50e-28 104
MS.gene20712.t1 MTR_8g098420 27.397 146 106 0 4 149 3 148 1.43e-11 61.2
MS.gene20712.t1 MTR_8g098420 27.397 146 106 0 4 149 3 148 3.27e-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.gene20712.t1 AT1G02930 59.809 209 83 1 1 209 1 208 3.21e-87 256
MS.gene20712.t1 AT1G02930 59.809 209 83 1 1 209 1 208 3.21e-87 256
MS.gene20712.t1 AT2G02930 59.434 212 83 1 1 209 1 212 1.22e-86 255
MS.gene20712.t1 AT1G02920 60.287 209 83 0 1 209 1 209 1.52e-86 254
MS.gene20712.t1 AT4G02520 58.294 211 85 1 1 208 1 211 3.57e-86 254
MS.gene20712.t1 AT2G47730 55.610 205 90 1 6 209 54 258 2.79e-83 248
MS.gene20712.t1 AT2G47730 55.610 205 90 1 6 209 54 258 2.79e-83 248
MS.gene20712.t1 AT1G02950 51.942 206 98 1 1 205 24 229 4.70e-77 232
MS.gene20712.t1 AT1G02950 52.475 202 95 1 5 205 26 227 1.07e-76 231
MS.gene20712.t1 AT1G02950 52.475 202 95 1 5 205 26 227 1.07e-76 231
MS.gene20712.t1 AT1G02950 52.475 202 95 1 5 205 38 239 1.36e-76 231
MS.gene20712.t1 AT1G02940 46.602 206 109 1 5 209 40 245 3.42e-67 207
MS.gene20712.t1 AT1G02940 46.602 206 109 1 5 209 40 245 3.42e-67 207
MS.gene20712.t1 AT1G02940 46.602 206 109 1 5 209 53 258 4.93e-67 207
MS.gene20712.t1 AT1G02940 46.602 206 109 1 5 209 65 270 7.01e-67 207
MS.gene20712.t1 AT3G62760 46.117 206 110 1 4 208 3 208 8.29e-62 192
MS.gene20712.t1 AT1G49860 48.205 195 97 2 21 211 22 216 4.59e-58 184
MS.gene20712.t1 AT3G03190 42.857 210 119 1 3 211 2 211 1.05e-54 174
MS.gene20712.t1 AT5G17220 38.571 210 128 1 3 211 2 211 1.71e-51 166
MS.gene20712.t1 AT2G30860 37.799 209 128 2 3 210 2 209 1.47e-47 155
MS.gene20712.t1 AT2G30870 37.438 203 126 1 9 210 7 209 4.57e-46 152
MS.gene20712.t1 AT1G02950 47.887 142 73 1 65 205 60 201 4.65e-44 147
MS.gene20712.t1 AT2G30860 35.948 153 97 1 3 155 2 153 7.98e-30 108

Find 51 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGGGATTAAGACTTTATT+TGG 0.143067 1.2:-66479285 MS.gene20712:CDS
GGAGTCACTGCTTGTTAAAT+TGG 0.233814 1.2:+66479389 None:intergenic
ACTCATTATTGCCATCTTCT+TGG 0.252577 1.2:+66479368 None:intergenic
GATGGAGATTTAAAGCTCTT+TGG 0.296201 1.2:-66479646 MS.gene20712:intron
GACTTTATTTGGAATTCCTT+TGG 0.310575 1.2:-66479274 MS.gene20712:CDS
CGCATGGTGGCCGTTGAGAT+AGG 0.336998 1.2:+66479907 None:intergenic
TCAATACTTGTTTGGGAACT+AGG 0.337085 1.2:-66479303 MS.gene20712:CDS
AAGTAGCATCAATACTTGTT+TGG 0.355376 1.2:-66479311 MS.gene20712:CDS
GAGGAATGGTGAACACAAAA+AGG 0.363061 1.2:-66479827 MS.gene20712:CDS
AGTAGCATCAATACTTGTTT+GGG 0.373002 1.2:-66479310 MS.gene20712:CDS
ATCTTTATGTTGCAGCCATT+TGG 0.379956 1.2:-66479688 MS.gene20712:intron
GATCATGAGTATGCTGATAA+GGG 0.387666 1.2:-66479414 MS.gene20712:CDS
TGATCATGAGTATGCTGATA+AGG 0.403067 1.2:-66479415 MS.gene20712:CDS
CAAGACCTTATGTTAATGCT+TGG 0.407435 1.2:-66479077 MS.gene20712:CDS
AAGACCTTATGTTAATGCTT+GGG 0.420971 1.2:-66479076 MS.gene20712:CDS
AAATCTCCATCTTCAAAAGC+TGG 0.446504 1.2:+66479658 None:intergenic
ATGATCTTAATTAGGTATCA+TGG 0.448138 1.2:+66479011 None:intergenic
GCTTACATTGATTGATATGA+AGG 0.465911 1.2:+66479801 None:intergenic
ATGCTACTTTATCGTAGTGT+AGG 0.467657 1.2:+66479325 None:intergenic
CAATACTTGTTTGGGAACTA+GGG 0.472992 1.2:-66479302 MS.gene20712:CDS
AAAGCTGGAACTTGACCAAA+TGG 0.480424 1.2:+66479673 None:intergenic
TCCTTTGGATTCAAAAGTTG+TGG 0.481662 1.2:-66479259 MS.gene20712:CDS
AATGAGTGTGTGGTCGGAAG+TGG 0.508607 1.2:-66479352 MS.gene20712:CDS
AGGTGAGTGTTTCACCTTGG+TGG 0.510447 1.2:-66479163 MS.gene20712:CDS
GCATGGTGGCCGTTGAGATA+GGG 0.515923 1.2:+66479908 None:intergenic
TCAACCCAAGCATTAACATA+AGG 0.524477 1.2:+66479072 None:intergenic
ATTGTCTGAATCTAAATACA+TGG 0.527540 1.2:-66479187 MS.gene20712:CDS
ATCAAGAATGCTATCCAACT+TGG 0.528639 1.2:+66479224 None:intergenic
TATCTCAACGGCCACCATGC+GGG 0.531171 1.2:-66479905 MS.gene20712:CDS
GGAAGAGAATGAAGCCAAGT+TGG 0.538389 1.2:-66479238 MS.gene20712:CDS
AAAATTGAAATGCAGAGTCA+AGG 0.547213 1.2:-66479455 MS.gene20712:intron
AAATTGAAATGCAGAGTCAA+GGG 0.557402 1.2:-66479454 MS.gene20712:intron
TTCATCAAGTAGTGAAGAGA+AGG 0.557567 1.2:+66479126 None:intergenic
GTAAGCATTAACATGAGGAA+TGG 0.557734 1.2:-66479841 MS.gene20712:CDS
AAGCAGTGACTCCAAGAAGA+TGG 0.558112 1.2:-66479379 MS.gene20712:CDS
GCAAGTACTTTAGACCAAGC+TGG 0.578209 1.2:+66479033 None:intergenic
CTTACATTGATTGATATGAA+GGG 0.578372 1.2:+66479802 None:intergenic
GGCAATAATGAGTGTGTGGT+CGG 0.583453 1.2:-66479358 MS.gene20712:CDS
ATATCACTGCAAGACCAGCT+TGG 0.601324 1.2:-66479047 MS.gene20712:CDS
ATCATGAGTATGCTGATAAG+GGG 0.613962 1.2:-66479413 MS.gene20712:CDS
GCACGGAAGCCCTATCTCAA+CGG 0.620985 1.2:-66479917 MS.gene20712:CDS
CTATCTCAACGGCCACCATG+CGG 0.624610 1.2:-66479906 MS.gene20712:CDS
AGTTTGTAAGCATTAACATG+AGG 0.629431 1.2:-66479846 MS.gene20712:CDS
GGGAGGTGAGTGTTTCACCT+TGG 0.632509 1.2:-66479166 MS.gene20712:CDS
ATGGCAACAATAAAAGTGCA+CGG 0.649349 1.2:-66479934 MS.gene20712:CDS
TTGTCTGAATCTAAATACAT+GGG 0.650116 1.2:-66479186 MS.gene20712:CDS
CAAAGTTGCAGTAACCCGCA+TGG 0.653094 1.2:+66479891 None:intergenic
TCTGAATCTAAATACATGGG+AGG 0.678031 1.2:-66479183 MS.gene20712:CDS
TAAATGATGCAAATCCACCA+AGG 0.710594 1.2:+66479149 None:intergenic
AGATGGCAATAATGAGTGTG+TGG 0.714038 1.2:-66479362 MS.gene20712:CDS
AGTTGCAGTAACCCGCATGG+TGG 0.723686 1.2:+66479894 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATAAAGATTGAATTAGT+TGG + chr1.2:66479254-66479273 None:intergenic 20.0%
! ATTGTCTGAATCTAAATACA+TGG - chr1.2:66479764-66479783 MS.gene20712:intron 25.0%
! TTGTCTGAATCTAAATACAT+GGG - chr1.2:66479765-66479784 MS.gene20712:intron 25.0%
!! CTTACATTGATTGATATGAA+GGG + chr1.2:66479152-66479171 None:intergenic 25.0%
AAAATTGAAATGCAGAGTCA+AGG - chr1.2:66479496-66479515 MS.gene20712:intron 30.0%
AAATTGAAATGCAGAGTCAA+GGG - chr1.2:66479497-66479516 MS.gene20712:intron 30.0%
AAGACCTTATGTTAATGCTT+GGG - chr1.2:66479875-66479894 MS.gene20712:CDS 30.0%
AAGTAGCATCAATACTTGTT+TGG - chr1.2:66479640-66479659 MS.gene20712:intron 30.0%
AGTAGCATCAATACTTGTTT+GGG - chr1.2:66479641-66479660 MS.gene20712:intron 30.0%
AGTTTGTAAGCATTAACATG+AGG - chr1.2:66479105-66479124 MS.gene20712:CDS 30.0%
ATTAGTTGGATCAATGTAGT+TGG + chr1.2:66479240-66479259 None:intergenic 30.0%
CTAGGGATTAAGACTTTATT+TGG - chr1.2:66479666-66479685 MS.gene20712:CDS 30.0%
! GACTTTATTTGGAATTCCTT+TGG - chr1.2:66479677-66479696 MS.gene20712:intron 30.0%
! GCTTACATTGATTGATATGA+AGG + chr1.2:66479153-66479172 None:intergenic 30.0%
AAATCTCCATCTTCAAAAGC+TGG + chr1.2:66479296-66479315 None:intergenic 35.0%
ACTCATTATTGCCATCTTCT+TGG + chr1.2:66479586-66479605 None:intergenic 35.0%
ATCAAGAATGCTATCCAACT+TGG + chr1.2:66479730-66479749 None:intergenic 35.0%
ATCATGAGTATGCTGATAAG+GGG - chr1.2:66479538-66479557 MS.gene20712:intron 35.0%
ATCTTTATGTTGCAGCCATT+TGG - chr1.2:66479263-66479282 MS.gene20712:CDS 35.0%
CAAGACCTTATGTTAATGCT+TGG - chr1.2:66479874-66479893 MS.gene20712:CDS 35.0%
CAATACTTGTTTGGGAACTA+GGG - chr1.2:66479649-66479668 MS.gene20712:CDS 35.0%
GATCATGAGTATGCTGATAA+GGG - chr1.2:66479537-66479556 MS.gene20712:intron 35.0%
GTAAGCATTAACATGAGGAA+TGG - chr1.2:66479110-66479129 MS.gene20712:CDS 35.0%
TAAATGATGCAAATCCACCA+AGG + chr1.2:66479805-66479824 None:intergenic 35.0%
TCAACCCAAGCATTAACATA+AGG + chr1.2:66479882-66479901 None:intergenic 35.0%
TCAATACTTGTTTGGGAACT+AGG - chr1.2:66479648-66479667 MS.gene20712:CDS 35.0%
TCAATGTAGTTGGAACAAGA+AGG + chr1.2:66479230-66479249 None:intergenic 35.0%
TCCTTTGGATTCAAAAGTTG+TGG - chr1.2:66479692-66479711 MS.gene20712:intron 35.0%
TCTGAATCTAAATACATGGG+AGG - chr1.2:66479768-66479787 MS.gene20712:intron 35.0%
TGATCATGAGTATGCTGATA+AGG - chr1.2:66479536-66479555 MS.gene20712:intron 35.0%
TTCATCAAGTAGTGAAGAGA+AGG + chr1.2:66479828-66479847 None:intergenic 35.0%
! ATGGCAACAATAAAAGTGCA+CGG - chr1.2:66479017-66479036 MS.gene20712:CDS 35.0%
! GATGGAGATTTAAAGCTCTT+TGG - chr1.2:66479305-66479324 MS.gene20712:CDS 35.0%
! TCCACAACTTTTGAATCCAA+AGG + chr1.2:66479696-66479715 None:intergenic 35.0%
!! ATGCTACTTTATCGTAGTGT+AGG + chr1.2:66479629-66479648 None:intergenic 35.0%
AAAGCTGGAACTTGACCAAA+TGG + chr1.2:66479281-66479300 None:intergenic 40.0%
AGATGGCAATAATGAGTGTG+TGG - chr1.2:66479589-66479608 MS.gene20712:intron 40.0%
GAGGAATGGTGAACACAAAA+AGG - chr1.2:66479124-66479143 MS.gene20712:CDS 40.0%
! GGAGTCACTGCTTGTTAAAT+TGG + chr1.2:66479565-66479584 None:intergenic 40.0%
!! CAAGTTCCAGCTTTTGAAGA+TGG - chr1.2:66479287-66479306 MS.gene20712:CDS 40.0%
AAGCAGTGACTCCAAGAAGA+TGG - chr1.2:66479572-66479591 MS.gene20712:intron 45.0%
ATATCACTGCAAGACCAGCT+TGG - chr1.2:66479904-66479923 MS.gene20712:CDS 45.0%
GACACGATATCAAACACACG+TGG - chr1.2:66479394-66479413 MS.gene20712:CDS 45.0%
GCAAGTACTTTAGACCAAGC+TGG + chr1.2:66479921-66479940 None:intergenic 45.0%
GGAAGAGAATGAAGCCAAGT+TGG - chr1.2:66479713-66479732 MS.gene20712:intron 45.0%
GGCAATAATGAGTGTGTGGT+CGG - chr1.2:66479593-66479612 MS.gene20712:intron 45.0%
AATGAGTGTGTGGTCGGAAG+TGG - chr1.2:66479599-66479618 MS.gene20712:intron 50.0%
AGGTGAGTGTTTCACCTTGG+TGG - chr1.2:66479788-66479807 MS.gene20712:intron 50.0%
CAAAGTTGCAGTAACCCGCA+TGG + chr1.2:66479063-66479082 None:intergenic 50.0%
AGTTGCAGTAACCCGCATGG+TGG + chr1.2:66479060-66479079 None:intergenic 55.0%
CTATCTCAACGGCCACCATG+CGG - chr1.2:66479045-66479064 MS.gene20712:CDS 55.0%
GCACGGAAGCCCTATCTCAA+CGG - chr1.2:66479034-66479053 MS.gene20712:CDS 55.0%
GCATGGTGGCCGTTGAGATA+GGG + chr1.2:66479046-66479065 None:intergenic 55.0%
GGGAGGTGAGTGTTTCACCT+TGG - chr1.2:66479785-66479804 MS.gene20712:intron 55.0%
TATCTCAACGGCCACCATGC+GGG - chr1.2:66479046-66479065 MS.gene20712:CDS 55.0%
CGCATGGTGGCCGTTGAGAT+AGG + chr1.2:66479047-66479066 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 66479017 66479956 66479017 ID=MS.gene20712
chr1.2 mRNA 66479017 66479956 66479017 ID=MS.gene20712.t1;Parent=MS.gene20712
chr1.2 exon 66479807 66479956 66479807 ID=MS.gene20712.t1.exon1;Parent=MS.gene20712.t1
chr1.2 CDS 66479807 66479956 66479807 ID=cds.MS.gene20712.t1;Parent=MS.gene20712.t1
chr1.2 exon 66479647 66479695 66479647 ID=MS.gene20712.t1.exon2;Parent=MS.gene20712.t1
chr1.2 CDS 66479647 66479695 66479647 ID=cds.MS.gene20712.t1;Parent=MS.gene20712.t1
chr1.2 exon 66479017 66479462 66479017 ID=MS.gene20712.t1.exon3;Parent=MS.gene20712.t1
chr1.2 CDS 66479017 66479462 66479017 ID=cds.MS.gene20712.t1;Parent=MS.gene20712.t1
Gene Sequence

>MS.gene20712

ATGGCAACAATAAAAGTGCACGGAAGCCCTATCTCAACGGCCACCATGCGGGTTACTGCAACTTTGTATGAGAAAGAGCTTGAATTTGAGTTTGTAAGCATTAACATGAGGAATGGTGAACACAAAAAGGAACCCTTCATATCAATCAATGTAAGCAACATAACAAAAATATCATTCTGCTAGTTTACTTTAATTATGAATTGAAATTTTCCTTCTTGTTCCAACTACATTGATCCAACTAATTCAATCTTTATGTTGCAGCCATTTGGTCAAGTTCCAGCTTTTGAAGATGGAGATTTAAAGCTCTTTGGTAAAATTTATTTGAATATGATATATGTAGCACATGACACTTTAGATTAAAAACGTATTTGATGTCTGACACGATATCAAACACACGTGGTTATATTCAATTATTTTTATTTGATGTCTAGTATTTGTGCGAGTGCTTCATAGAATTTGTTGTATATATAAACTAATTAAAAATTGAAATGCAGAGTCAAGGGCGATAACACAATATATTGATCATGAGTATGCTGATAAGGGGACCAATTTAACAAGCAGTGACTCCAAGAAGATGGCAATAATGAGTGTGTGGTCGGAAGTGGAAAGCCTACACTACGATAAAGTAGCATCAATACTTGTTTGGGAACTAGGGATTAAGACTTTATTTGGAATTCCTTTGGATTCAAAAGTTGTGGAAGAGAATGAAGCCAAGTTGGATAGCATTCTTGATGTGTATGAGAAAAGATTGTCTGAATCTAAATACATGGGAGGTGAGTGTTTCACCTTGGTGGATTTGCATCATTTACCTTCTCTTCACTACTTGATGAAGTCACAGAGCAAGAAATTGTTTGAATCAAGACCTTATGTTAATGCTTGGGTTGATGATATCACTGCAAGACCAGCTTGGTCTAAAGTACTTGCCATGATACCTAATTAA
Protein sequence

>MS.gene20712.t1

MATIKVHGSPISTATMRVTATLYEKELEFEFVSINMRNGEHKKEPFISINPFGQVPAFEDGDLKLFESRAITQYIDHEYADKGTNLTSSDSKKMAIMSVWSEVESLHYDKVASILVWELGIKTLFGIPLDSKVVEENEAKLDSILDVYEKRLSESKYMGGECFTLVDLHHLPSLHYLMKSQSKKLFESRPYVNAWVDDITARPAWSKVLAMIPN