AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023287

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023287.t1 MTR_1g109630 45.390 141 73 1 26 166 13 149 1.01e-40 136
MS.gene023287.t1 MTR_3g449880 38.365 159 98 0 9 167 31 189 1.32e-36 127
MS.gene023287.t1 MTR_8g099060 36.735 147 93 0 21 167 58 204 3.77e-32 115
MS.gene023287.t1 MTR_5g090340 42.282 149 84 1 21 167 87 235 4.96e-32 116
MS.gene023287.t1 MTR_5g090340 42.282 149 84 1 21 167 90 238 5.17e-32 116
MS.gene023287.t1 MTR_1g099500 33.735 166 108 1 4 167 32 197 3.38e-31 113
MS.gene023287.t1 MTR_8g028450 38.095 147 91 0 21 167 62 208 6.98e-31 112
MS.gene023287.t1 MTR_3g449880 38.462 130 80 0 38 167 38 167 2.30e-26 99.8
MS.gene023287.t1 MTR_3g062910 27.933 179 113 2 3 167 17 193 1.14e-25 98.6
MS.gene023287.t1 MTR_4g014700 30.000 150 105 0 17 166 3 152 3.04e-17 75.9
MS.gene023287.t1 MTR_5g018250 28.889 135 96 0 33 167 29 163 2.41e-14 68.2
MS.gene023287.t1 MTR_1g107445 29.054 148 105 0 20 167 1 148 4.02e-13 64.7
MS.gene023287.t1 MTR_5g018080 25.984 127 94 0 41 167 19 145 8.71e-13 62.8
MS.gene023287.t1 MTR_6g012460 31.298 131 90 0 37 167 13 143 2.61e-12 62.4
MS.gene023287.t1 MTR_5g018110 26.562 128 94 0 40 167 344 471 3.42e-12 63.9
MS.gene023287.t1 MTR_6g012460 31.298 131 90 0 37 167 13 143 1.73e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023287.t1 AT3G18260 50.303 165 79 2 5 167 6 169 4.10e-58 181
MS.gene023287.t1 AT2G46170 42.236 161 93 0 7 167 38 198 6.31e-39 133
MS.gene023287.t1 AT3G61560 40.136 147 88 0 21 167 52 198 1.64e-32 115
MS.gene023287.t1 AT3G10260 32.121 165 112 0 3 167 27 191 3.24e-32 115
MS.gene023287.t1 AT3G10260 32.121 165 112 0 3 167 27 191 3.24e-32 115
MS.gene023287.t1 AT3G61560 40.136 147 88 0 21 167 52 198 4.13e-32 115
MS.gene023287.t1 AT3G61560 40.136 147 88 0 21 167 52 198 4.13e-32 115
MS.gene023287.t1 AT3G10260 32.121 165 112 0 3 167 47 211 4.67e-32 115
MS.gene023287.t1 AT4G23630 36.054 147 94 0 21 167 73 219 2.22e-31 114
MS.gene023287.t1 AT4G23630 36.054 147 94 0 21 167 73 219 2.22e-31 114
MS.gene023287.t1 AT4G11220 34.694 147 96 0 21 167 69 215 8.05e-31 112
MS.gene023287.t1 AT5G41600 35.616 146 94 0 21 166 52 197 1.14e-30 112
MS.gene023287.t1 AT1G64090 38.095 147 91 0 21 167 48 194 1.49e-30 111
MS.gene023287.t1 AT2G46170 40.288 139 83 0 7 145 38 176 4.07e-30 108
MS.gene023287.t1 AT1G64090 34.356 163 91 1 21 167 48 210 9.97e-27 102
MS.gene023287.t1 AT1G68230 33.758 157 98 2 13 167 7 159 3.56e-22 87.4
MS.gene023287.t1 AT1G68230 33.758 157 98 2 13 167 7 159 6.73e-22 88.2
MS.gene023287.t1 AT4G01230 34.161 161 103 1 7 167 40 197 9.93e-21 85.9
MS.gene023287.t1 AT3G54120 32.026 153 104 0 14 166 1 153 1.91e-18 79.0
MS.gene023287.t1 AT3G10915 28.125 160 114 1 9 167 12 171 8.37e-18 77.8
MS.gene023287.t1 AT4G01230 32.919 161 103 2 7 167 40 195 1.94e-17 77.0
MS.gene023287.t1 AT3G10915 29.286 140 99 0 28 167 57 196 4.15e-17 76.3
MS.gene023287.t1 AT3G19460 31.429 140 94 2 29 167 14 152 2.37e-16 73.2
MS.gene023287.t1 AT3G19460 31.429 140 94 2 29 167 14 152 2.37e-16 73.2
MS.gene023287.t1 AT3G19460 31.429 140 94 2 29 167 14 152 2.37e-16 73.2
MS.gene023287.t1 AT3G10915 27.950 161 114 2 9 167 12 172 4.31e-16 73.2
MS.gene023287.t1 AT2G15280 25.874 143 106 0 25 167 2 144 7.99e-15 69.3
MS.gene023287.t1 AT3G19460 27.168 173 92 2 29 167 14 186 2.36e-12 63.2
MS.gene023287.t1 AT3G19460 27.168 173 92 2 29 167 14 186 2.36e-12 63.2
MS.gene023287.t1 AT3G10915 27.692 130 94 0 38 167 10 139 6.85e-12 61.2
MS.gene023287.t1 AT3G10915 27.692 130 94 0 38 167 9 138 1.01e-11 60.8
MS.gene023287.t1 AT3G10915 24.590 183 114 3 9 167 12 194 3.40e-11 60.1

Find 33 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTTGGGATAACATTAATT+TGG 0.217906 4.3:-17317741 MS.gene023287:CDS
ATTCTTGTAAAACAGTTTCT+AGG 0.234459 4.3:+17317208 None:intergenic
GAAGGAACATTCTTAGTAAT+TGG 0.237845 4.3:+17317142 None:intergenic
TTTATCAATTTGCTATATAT+TGG 0.250297 4.3:-17316939 None:intergenic
TCTGATTCTGATGATGAAAT+TGG 0.270683 4.3:-17318271 MS.gene023287:CDS
AAGCCACTTCATGAAATTCT+TGG 0.343549 4.3:-17318217 MS.gene023287:CDS
TGTACTCAACAACCTCAAAT+AGG 0.360635 4.3:+17317716 None:intergenic
CTCTATATATTGTCAGTGAT+TGG 0.375744 4.3:-17316975 MS.gene023287:CDS
GGACCTACCAATATTTCTTC+TGG 0.380270 4.3:-17317103 MS.gene023287:intron
TATGATACCAGAAGAAATAT+TGG 0.384599 4.3:+17317096 None:intergenic
ATTAATTTGGTTCCTATTTG+AGG 0.387542 4.3:-17317728 MS.gene023287:CDS
GAAATTCTTGGTGGAGGAAA+AGG 0.413815 4.3:-17318205 MS.gene023287:intron
TAGTGGCTGATGTGTTGTTA+TGG 0.416856 4.3:-17317792 MS.gene023287:CDS
CAAATTGATAAAGTTGAAGT+AGG 0.453688 4.3:+17316950 None:intergenic
CACTTGCAGATATCTTGAAA+TGG 0.455203 4.3:-17317630 MS.gene023287:intron
GGACAATGAAAGCAAGCTCT+TGG 0.461016 4.3:+17317178 None:intergenic
TATCACAAGCATTGTGGTGA+TGG 0.477503 4.3:+17317666 None:intergenic
CAATGCTTGTGATATACCTA+TGG 0.488547 4.3:-17317657 MS.gene023287:CDS
CCACCAAGAATTTCATGAAG+TGG 0.510908 4.3:+17318214 None:intergenic
CCACTTCATGAAATTCTTGG+TGG 0.515383 4.3:-17318214 MS.gene023287:CDS
GTAATTGGTTCAATCTTCTG+TGG 0.519552 4.3:+17317157 None:intergenic
CTTCATGAAATTCTTGGTGG+AGG 0.540204 4.3:-17318211 MS.gene023287:CDS
TGGCTGATGTGTTGTTATGG+AGG 0.568189 4.3:-17317789 MS.gene023287:CDS
GGCTGATGTGTTGTTATGGA+GGG 0.580296 4.3:-17317788 MS.gene023287:CDS
CAATCACTGACAATATATAG+AGG 0.583298 4.3:+17316976 None:intergenic
TATCTGCAAGTGTAGACCAT+AGG 0.602747 4.3:+17317641 None:intergenic
AATTTCATCATCAGAATCAG+AGG 0.612944 4.3:+17318273 None:intergenic
ATACCAGAAGAAATATTGGT+AGG 0.628139 4.3:+17317100 None:intergenic
ATGTTCCTTCACATATCGTG+TGG 0.630823 4.3:-17317129 MS.gene023287:CDS
CCTTCACATATCGTGTGGAA+CGG 0.638584 4.3:-17317124 MS.gene023287:CDS
CCGTTCCACACGATATGTGA+AGG 0.648767 4.3:+17317124 None:intergenic
TAGGTATATCACAAGCATTG+TGG 0.704281 4.3:+17317660 None:intergenic
AAAACAGTTTCTAGGAACTG+CGG 0.706304 4.3:+17317216 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAATTTAAAAATGTCATT+TGG + chr4.3:17317945-17317964 None:intergenic 10.0%
!! AGTTACAATTTAAGAATTTA+AGG + chr4.3:17317229-17317248 None:intergenic 15.0%
!! GAAAATAAGTTTAAAAAGAA+AGG + chr4.3:17318221-17318240 None:intergenic 15.0%
!! TTAAATTGTAACTTACTATA+TGG - chr4.3:17317236-17317255 MS.gene023287:intron 15.0%
!! TTATTAATTCACAATTATGA+GGG + chr4.3:17317645-17317664 None:intergenic 15.0%
!! TTTATTAATTCACAATTATG+AGG + chr4.3:17317646-17317665 None:intergenic 15.0%
!!! TGATTTTATTTTTGTGTATA+TGG + chr4.3:17317202-17317221 None:intergenic 15.0%
!! ATGAATTGTTCATAATGATT+TGG - chr4.3:17317405-17317424 MS.gene023287:intron 20.0%
!! GTGAATTAATAAAATGTTAG+AGG - chr4.3:17317653-17317672 MS.gene023287:CDS 20.0%
!! TAAACTAATTAGAATGATAG+TGG - chr4.3:17317894-17317913 MS.gene023287:intron 20.0%
!!! ATATGTAACAGCTTTTATTA+AGG - chr4.3:17317852-17317871 MS.gene023287:intron 20.0%
!!! CTATCATTCTAATTAGTTTA+TGG + chr4.3:17317894-17317913 None:intergenic 20.0%
!!! TAAATTTTACTTTTCAGGAA+TGG - chr4.3:17317992-17318011 MS.gene023287:intron 20.0%
! ATTCTTGTAAAACAGTTTCT+AGG + chr4.3:17318027-17318046 None:intergenic 25.0%
! CAAATTGATAAAGTTGAAGT+AGG + chr4.3:17318285-17318304 None:intergenic 25.0%
! CACAAATACTAACACTTTAT+TGG - chr4.3:17318163-17318182 MS.gene023287:intron 25.0%
! CCTGAAAAGTAAAATTTAAC+AGG + chr4.3:17317990-17318009 None:intergenic 25.0%
! GGAAAATGAAAGTTAACAAA+AGG - chr4.3:17317141-17317160 MS.gene023287:CDS 25.0%
! TATGATACCAGAAGAAATAT+TGG + chr4.3:17318139-17318158 None:intergenic 25.0%
! TATTGAGGCAAATAAGATAA+TGG + chr4.3:17317775-17317794 None:intergenic 25.0%
!! ATTAATTTGGTTCCTATTTG+AGG - chr4.3:17317504-17317523 MS.gene023287:intron 25.0%
!!! AAAATGTCATTTGGTTTGTA+AGG + chr4.3:17317936-17317955 None:intergenic 25.0%
!!! CCTGTTAAATTTTACTTTTC+AGG - chr4.3:17317987-17318006 MS.gene023287:intron 25.0%
!!! TTCATGCTATTTTTGTTTGT+GGG + chr4.3:17317121-17317140 None:intergenic 25.0%
AATTTCATCATCAGAATCAG+AGG + chr4.3:17316962-17316981 None:intergenic 30.0%
ATACCAGAAGAAATATTGGT+AGG + chr4.3:17318135-17318154 None:intergenic 30.0%
ATTTGTTCTGGCAAAATACA+AGG + chr4.3:17317285-17317304 None:intergenic 30.0%
CAATCACTGACAATATATAG+AGG + chr4.3:17318259-17318278 None:intergenic 30.0%
CACAAACAAAAATAGCATGA+AGG - chr4.3:17317120-17317139 MS.gene023287:CDS 30.0%
CTCTATATATTGTCAGTGAT+TGG - chr4.3:17318257-17318276 MS.gene023287:CDS 30.0%
GAAGGAACATTCTTAGTAAT+TGG + chr4.3:17318093-17318112 None:intergenic 30.0%
GCCAAAAAGTAATTATAGTC+CGG - chr4.3:17317707-17317726 MS.gene023287:CDS 30.0%
GTGTTCAAAATGACTTATTG+AGG + chr4.3:17317790-17317809 None:intergenic 30.0%
TGCTTGGGATAACATTAATT+TGG - chr4.3:17317491-17317510 MS.gene023287:intron 30.0%
TTTAACAGGCAAAGAAAATG+TGG + chr4.3:17317976-17317995 None:intergenic 30.0%
TTTGTTCTGGCAAAATACAA+GGG + chr4.3:17317284-17317303 None:intergenic 30.0%
! CAAATAAGATAATGGTAGGA+TGG + chr4.3:17317767-17317786 None:intergenic 30.0%
! TATTTTGCCAGAACAAATGA+AGG - chr4.3:17317287-17317306 MS.gene023287:intron 30.0%
! TCTGATTCTGATGATGAAAT+TGG - chr4.3:17316961-17316980 MS.gene023287:CDS 30.0%
!! TCCGGACTATAATTACTTTT+TGG + chr4.3:17317711-17317730 None:intergenic 30.0%
!! TTTGGTTGATAAATGTGTAG+TGG - chr4.3:17317423-17317442 MS.gene023287:intron 30.0%
!!! CTTCATGCTATTTTTGTTTG+TGG + chr4.3:17317122-17317141 None:intergenic 30.0%
!!! TCATGCTATTTTTGTTTGTG+GGG + chr4.3:17317120-17317139 None:intergenic 30.0%
AAGCCACTTCATGAAATTCT+TGG - chr4.3:17317015-17317034 MS.gene023287:intron 35.0%
ACATGAGCTGATAACTTTGA+AGG - chr4.3:17317808-17317827 MS.gene023287:intron 35.0%
CAATGCTTGTGATATACCTA+TGG - chr4.3:17317575-17317594 MS.gene023287:intron 35.0%
CACTTGCAGATATCTTGAAA+TGG - chr4.3:17317602-17317621 MS.gene023287:intron 35.0%
GTAAGAGAAAGTGACAAAGA+TGG + chr4.3:17317057-17317076 None:intergenic 35.0%
TGTACTCAACAACCTCAAAT+AGG + chr4.3:17317519-17317538 None:intergenic 35.0%
TTATAGTCCGGACTCAATTA+AGG - chr4.3:17317719-17317738 MS.gene023287:CDS 35.0%
! AAAACAGTTTCTAGGAACTG+CGG + chr4.3:17318019-17318038 None:intergenic 35.0%
! GAGGCAAATAAGATAATGGT+AGG + chr4.3:17317771-17317790 None:intergenic 35.0%
! GTAATTGGTTCAATCTTCTG+TGG + chr4.3:17318078-17318097 None:intergenic 35.0%
! TAGGTATATCACAAGCATTG+TGG + chr4.3:17317575-17317594 None:intergenic 35.0%
AGTGAGTCCTTAATTGAGTC+CGG + chr4.3:17317729-17317748 None:intergenic 40.0%
ATGTTCCTTCACATATCGTG+TGG - chr4.3:17318103-17318122 MS.gene023287:intron 40.0%
CCACCAAGAATTTCATGAAG+TGG + chr4.3:17317021-17317040 None:intergenic 40.0%
CCACTTCATGAAATTCTTGG+TGG - chr4.3:17317018-17317037 MS.gene023287:intron 40.0%
CCTAACACCTTCATTTGTTC+TGG + chr4.3:17317297-17317316 None:intergenic 40.0%
CTTCATGAAATTCTTGGTGG+AGG - chr4.3:17317021-17317040 MS.gene023287:intron 40.0%
GAAATTCTTGGTGGAGGAAA+AGG - chr4.3:17317027-17317046 MS.gene023287:intron 40.0%
GCAACATATATGCATGCTAG+TGG + chr4.3:17317689-17317708 None:intergenic 40.0%
GGACCTACCAATATTTCTTC+TGG - chr4.3:17318129-17318148 MS.gene023287:intron 40.0%
TATCTGCAAGTGTAGACCAT+AGG + chr4.3:17317594-17317613 None:intergenic 40.0%
! TAGTGGCTGATGTGTTGTTA+TGG - chr4.3:17317440-17317459 MS.gene023287:intron 40.0%
! TATCACAAGCATTGTGGTGA+TGG + chr4.3:17317569-17317588 None:intergenic 40.0%
! TATCAGCTGCGTTTTTGCTT+GGG - chr4.3:17317476-17317495 MS.gene023287:intron 40.0%
! TCATGAAGTGGCTTTTCATG+TGG + chr4.3:17317009-17317028 None:intergenic 40.0%
!! CCAGAACAAATGAAGGTGTT+AGG - chr4.3:17317294-17317313 MS.gene023287:intron 40.0%
CCTTCACATATCGTGTGGAA+CGG - chr4.3:17318108-17318127 MS.gene023287:intron 45.0%
GGACAATGAAAGCAAGCTCT+TGG + chr4.3:17318057-17318076 None:intergenic 45.0%
! GGCTGATGTGTTGTTATGGA+GGG - chr4.3:17317444-17317463 MS.gene023287:intron 45.0%
! GTATCAGCTGCGTTTTTGCT+TGG - chr4.3:17317475-17317494 MS.gene023287:intron 45.0%
! TGGCTGATGTGTTGTTATGG+AGG - chr4.3:17317443-17317462 MS.gene023287:intron 45.0%
!!! ATTTTATTTATTATTTGATT+TGG - chr4.3:17317077-17317096 MS.gene023287:intron 5.0%
CCGTTCCACACGATATGTGA+AGG + chr4.3:17318111-17318130 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 17316940 17318314 17316940 ID=MS.gene023287
chr4.3 mRNA 17316940 17318314 17316940 ID=MS.gene023287.t1;Parent=MS.gene023287
chr4.3 exon 17318206 17318314 17318206 ID=MS.gene023287.t1.exon1;Parent=MS.gene023287.t1
chr4.3 CDS 17318206 17318314 17318206 ID=cds.MS.gene023287.t1;Parent=MS.gene023287.t1
chr4.3 exon 17317631 17317811 17317631 ID=MS.gene023287.t1.exon2;Parent=MS.gene023287.t1
chr4.3 CDS 17317631 17317811 17317631 ID=cds.MS.gene023287.t1;Parent=MS.gene023287.t1
chr4.3 exon 17317104 17317245 17317104 ID=MS.gene023287.t1.exon3;Parent=MS.gene023287.t1
chr4.3 CDS 17317104 17317245 17317104 ID=cds.MS.gene023287.t1;Parent=MS.gene023287.t1
chr4.3 exon 17316940 17317009 17316940 ID=MS.gene023287.t1.exon4;Parent=MS.gene023287.t1
chr4.3 CDS 17316940 17317009 17316940 ID=cds.MS.gene023287.t1;Parent=MS.gene023287.t1
Gene Sequence

>MS.gene023287

ATGGCGCATCATAATACATCCTCTGATTCTGATGATGAAATTGGCAAATCTCGAGCAATGATATTTCCACATGAAAAGCCACTTCATGAAATTCTTGGTGGAGGAAAAGGTACACCATCTTTGTCACTTTCTCTTACATTTTATTTATTATTTGATTTGGACATGTAACAAAATAGTCCCCACAAACAAAAATAGCATGAAGGAAAATGAAAGTTAACAAAAGGAACACGATACATATTTGACAATGAAAATTACAAAGCCATATACACAAAAATAAAATCACTCTCCTTAAATTCTTAAATTGTAACTTACTATATGGTAAATACTACTCAGTTTATTTTCCCTTGTATTTTGCCAGAACAAATGAAGGTGTTAGGCTTGATCGAAAAAAAGTTACTAATCGTTTTTTCACTTCTTTTCTAGCATTAAACTAATCAAATTGCTTAGATGAAATTTTGAGACTCAATGAATTGTTCATAATGATTTGGTTGATAAATGTGTAGTGGCTGATGTGTTGTTATGGAGGGACAGAAATGTATCAGCTGCGTTTTTGCTTGGGATAACATTAATTTGGTTCCTATTTGAGGTTGTTGAGTACAATATTGTGACACTTCTTTGTCACATTTCCATCACCACAATGCTTGTGATATACCTATGGTCTACACTTGCAGATATCTTGAAATGGTACACATTTTACTTTAGCCCTCATAATTGTGAATTAATAAAATGTTAGAGGTAATTTTGCTCCACTAGCATGCATATATGTTGCCAAAAAGTAATTATAGTCCGGACTCAATTAAGGACTCACTTTTGCATCAATGTTACCATCCTACCATTATCTTATTTGCCTCAATAAGTCATTTTGAACACATGAGCTGATAACTTTGAAGGAAATTTTTGTCACTTTGTGTTATATGTAACAGCTTTTATTAAGGCACAAGTAAGCTTTTTCCATAAACTAATTAGAATGATAGTGGTATATTTCTTTACTCTCCTTACAAACCAAATGACATTTTTAAATTTATCTACTTTACCACATTTTCTTTGCCTGTTAAATTTTACTTTTCAGGAATGGTCCGCAGTTCCTAGAAACTGTTTTACAAGAATCTTTCTTCCAAGAGCTTGCTTTCATTGTCCACAGAAGATTGAACCAATTACTAAGAATGTTCCTTCACATATCGTGTGGAACGGACCTACCAATATTTCTTCTGGTATCATACTATCACAAATACTAACACTTTATTGGACTCTAATTCTCAATCAATATAGTGAACTTGACCTTTCTTTTTAAACTTATTTTCACAGATCAATGTTTGCCTCTATATATTGTCAGTGATTGGAACCTACTTCAACTTTATCAATTTGCTATATATTG
Protein sequence

>MS.gene023287.t1

MAHHNTSSDSDDEIGKSRAMIFPHEKPLHEILGGGKVADVLLWRDRNVSAAFLLGITLIWFLFEVVEYNIVTLLCHISITTMLVIYLWSTLADILKWNGPQFLETVLQESFFQELAFIVHRRLNQLLRMFLHISCGTDLPIFLLINVCLYILSVIGTYFNFINLLYI