AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene038168

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038168.t1 MTR_5g089170 99.177 243 2 0 1 243 12 254 0.0 502
MS.gene038168.t1 MTR_3g101870 48.632 329 76 11 1 239 11 336 1.93e-89 269
MS.gene038168.t1 MTR_4g011850 75.294 170 3 2 74 243 9 139 2.75e-85 250
MS.gene038168.t1 MTR_5g010680 44.493 227 99 3 4 204 14 239 5.56e-58 188
MS.gene038168.t1 MTR_1g100777 41.129 248 121 5 6 235 10 250 3.51e-55 179
MS.gene038168.t1 MTR_7g091370 45.771 201 99 2 7 207 15 205 3.55e-54 174
MS.gene038168.t1 MTR_0020s0020 39.338 272 118 6 5 238 24 286 6.37e-52 172
MS.gene038168.t1 MTR_5g017470 37.705 244 124 5 7 231 2 236 2.67e-48 161
MS.gene038168.t1 MTR_5g029680 46.597 191 90 2 11 201 29 207 4.67e-45 157
MS.gene038168.t1 MTR_6g043060 69.892 93 28 0 13 105 21 113 4.58e-43 148
MS.gene038168.t1 MTR_1g102860 50.943 159 58 2 12 170 38 176 3.13e-41 144
MS.gene038168.t1 MTR_1g071360 45.029 171 63 3 12 181 30 170 3.41e-40 141
MS.gene038168.t1 MTR_7g095680 65.957 94 32 0 12 105 47 140 4.06e-40 142
MS.gene038168.t1 MTR_1g071360 45.029 171 63 3 12 181 27 167 6.46e-40 141
MS.gene038168.t1 MTR_8g087540 66.667 99 32 1 7 105 6 103 3.40e-39 140
MS.gene038168.t1 MTR_8g083100 68.132 91 29 0 15 105 23 113 1.67e-38 140
MS.gene038168.t1 MTR_1g061170 44.937 158 64 3 14 170 49 184 9.49e-38 137
MS.gene038168.t1 MTR_2g100680 63.830 94 34 0 12 105 29 122 3.15e-37 135
MS.gene038168.t1 MTR_4g088900 40.361 166 87 3 11 172 30 187 1.13e-36 129
MS.gene038168.t1 MTR_2g100670 58.824 102 42 0 4 105 23 124 2.46e-35 128
MS.gene038168.t1 MTR_6g086805 59.184 98 40 0 8 105 5 102 5.43e-35 128
MS.gene038168.t1 MTR_3g104550 42.138 159 73 1 12 170 44 183 5.93e-35 128
MS.gene038168.t1 MTR_4g077970 43.949 157 75 2 14 170 12 155 1.04e-34 129
MS.gene038168.t1 MTR_2g100670 58.824 102 42 0 4 105 131 232 1.94e-34 127
MS.gene038168.t1 MTR_2g017890 57.000 100 42 1 7 106 9 107 9.97e-34 125
MS.gene038168.t1 MTR_8g105780 60.417 96 37 1 13 107 21 116 2.94e-33 124
MS.gene038168.t1 MTR_4g045757 62.069 58 22 0 14 71 14 71 2.00e-19 80.1
MS.gene038168.t1 MTR_5g047190 41.304 92 47 2 22 106 1 92 2.51e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038168.t1 AT1G46264 61.364 220 53 5 9 200 29 244 1.04e-87 264
MS.gene038168.t1 AT4G36990 39.683 252 132 4 1 236 1 248 1.74e-54 177
MS.gene038168.t1 AT5G62020 40.400 250 130 3 7 238 16 264 5.95e-53 173
MS.gene038168.t1 AT4G11660 71.845 103 29 0 6 108 51 153 1.84e-50 169
MS.gene038168.t1 AT1G32330 46.196 184 87 3 11 193 34 206 4.56e-45 157
MS.gene038168.t1 AT1G32330 46.196 184 87 3 11 193 34 206 5.04e-45 157
MS.gene038168.t1 AT2G41690 43.094 181 93 3 12 183 38 217 5.50e-44 149
MS.gene038168.t1 AT4G17750 65.714 105 36 0 4 108 42 146 3.02e-43 152
MS.gene038168.t1 AT3G22830 66.327 98 33 0 9 106 56 153 4.41e-40 142
MS.gene038168.t1 AT5G16820 67.000 100 31 2 10 109 24 121 4.05e-39 141
MS.gene038168.t1 AT5G16820 67.000 100 31 2 10 109 24 121 4.05e-39 141
MS.gene038168.t1 AT5G43840 60.952 105 41 0 12 116 17 121 4.12e-39 137
MS.gene038168.t1 AT3G02990 66.667 96 31 1 10 105 20 114 4.31e-39 141
MS.gene038168.t1 AT5G03720 63.265 98 36 0 14 111 55 152 3.32e-38 137
MS.gene038168.t1 AT5G03720 63.265 98 36 0 14 111 55 152 3.32e-38 137
MS.gene038168.t1 AT3G63350 36.279 215 116 5 8 207 22 230 2.92e-37 132
MS.gene038168.t1 AT2G26150 59.794 97 39 0 9 105 39 135 5.27e-37 133
MS.gene038168.t1 AT2G26150 59.794 97 39 0 9 105 39 135 5.27e-37 133
MS.gene038168.t1 AT3G51910 60.417 96 38 0 9 104 24 119 5.05e-36 129
MS.gene038168.t1 AT4G13980 64.835 91 32 0 15 105 24 114 8.96e-36 132
MS.gene038168.t1 AT5G54070 57.895 95 40 0 10 104 67 161 2.90e-35 128
MS.gene038168.t1 AT3G24520 60.000 95 38 0 11 105 14 108 6.06e-35 127
MS.gene038168.t1 AT1G67970 50.420 119 58 1 13 130 18 136 9.37e-34 125
MS.gene038168.t1 AT4G18880 65.657 99 33 1 7 105 9 106 1.37e-31 120
MS.gene038168.t1 AT5G45710 42.442 172 91 3 14 180 13 181 4.07e-31 117
MS.gene038168.t1 AT5G45710 42.442 172 91 3 14 180 13 181 4.07e-31 117
MS.gene038168.t1 AT4G18870 44.706 85 47 0 14 98 146 230 4.74e-20 87.0
MS.gene038168.t1 AT4G18870 38.596 114 62 3 15 126 14 121 2.26e-18 82.4

Find 37 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATATCAGTGTTTGATTT+AGG 0.203557 5.4:+70233058 None:intergenic
AGCTCTTCTGTGAAGCTATT+TGG 0.233498 5.4:-70232809 MS.gene038168:CDS
CTATTTGGTGTTCCTCTTTG+TGG 0.339191 5.4:-70232794 MS.gene038168:CDS
TCCTTATCATTTGGTAATTG+AGG 0.352875 5.4:+70232839 None:intergenic
ATGAAACTACATTTGTTGTT+TGG 0.362655 5.4:-70234010 MS.gene038168:CDS
CTATTACAATCCTTATCATT+TGG 0.365932 5.4:+70232830 None:intergenic
CTTTGTTCAAAGGGTGAAGC+AGG 0.399996 5.4:+70232914 None:intergenic
ATTGTTGCTTCTTTGTTCAA+AGG 0.403141 5.4:+70232904 None:intergenic
TCTTATTAATCAAGATTACT+AGG 0.404553 5.4:+70232755 None:intergenic
ATAATTTCTCAAGCTTTGTT+AGG 0.408211 5.4:-70233938 MS.gene038168:CDS
TTGTTGCTTCTTTGTTCAAA+GGG 0.445911 5.4:+70232905 None:intergenic
TCAAGAAGGTTGTTGCTGAT+AGG 0.447682 5.4:-70233246 MS.gene038168:CDS
AAACTACATTTGTTGTTTGG+AGG 0.447885 5.4:-70234007 MS.gene038168:CDS
TGGTATGTCTTTGTCAAGAA+AGG 0.453363 5.4:+70234080 None:intergenic
AGATAACATGGTGTTCACTA+TGG 0.459097 5.4:-70234126 None:intergenic
ACCTCAATTACCAAATGATA+AGG 0.460161 5.4:-70232840 MS.gene038168:CDS
CTTCTTGCAGGGTTTCAAGA+AGG 0.465882 5.4:-70233260 MS.gene038168:intron
TTTGATTTAGGAGATGGTAA+TGG 0.467405 5.4:+70233070 None:intergenic
ATCCAACAGATACTTTCATC+TGG 0.487646 5.4:+70233100 None:intergenic
TCAGTGTTTGATTTAGGAGA+TGG 0.490616 5.4:+70233064 None:intergenic
TCACTGACCACATTGTATCT+TGG 0.491347 5.4:-70234040 MS.gene038168:CDS
GTCTTTGTCAAGAAAGGAGC+AGG 0.498324 5.4:+70234086 None:intergenic
AACCAGATGAAAGTATCTGT+TGG 0.501425 5.4:-70233102 MS.gene038168:CDS
ATTGTTGTTGAAAGTGTTGA+GGG 0.507424 5.4:+70233152 None:intergenic
CTGAGGATAATCAAAGACTA+AGG 0.512230 5.4:-70233024 MS.gene038168:CDS
ATCTATTATGTGAAATCCAC+AGG 0.520532 5.4:-70233183 MS.gene038168:CDS
AGAAGGTTGTTGCTGATAGG+TGG 0.520569 5.4:-70233243 MS.gene038168:CDS
TATCTTAACAGCACTTTCTG+AGG 0.572199 5.4:-70233041 MS.gene038168:CDS
GAAGGTTGTTGCTGATAGGT+GGG 0.581284 5.4:-70233242 MS.gene038168:CDS
TGAGAGGATCATCAACAAGT+TGG 0.584975 5.4:+70234060 None:intergenic
AGAAGATCTCTAGCAAACTC+AGG 0.587900 5.4:+70233981 None:intergenic
TATTGTTGTTGAAAGTGTTG+AGG 0.604906 5.4:+70233151 None:intergenic
GATACAATGTGGTCAGTGAG+AGG 0.630246 5.4:+70234044 None:intergenic
AGATCTCTAGCAAACTCAGG+AGG 0.689022 5.4:+70233984 None:intergenic
TTGTTGTTGAAAGTGTTGAG+GGG 0.692779 5.4:+70233153 None:intergenic
AGGGTGAAGCAGGACTCACA+TGG 0.700311 5.4:+70232924 None:intergenic
CATCACTCCAAGATACAATG+TGG 0.717706 5.4:+70234033 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATTATGCTTGAAAAAAT+TGG + chr5.4:70232926-70232945 None:intergenic 15.0%
!! TTATTATGCTTGAAAAAATT+GGG + chr5.4:70232925-70232944 None:intergenic 15.0%
!!! AGTTATTTAAGTTATTCTTA+TGG + chr5.4:70233100-70233119 None:intergenic 15.0%
!!! CATATTTTCATAAATTCTTT+AGG + chr5.4:70233449-70233468 None:intergenic 15.0%
!! AATTTGAGAAAATGTAACAT+CGG - chr5.4:70233551-70233570 MS.gene038168:intron 20.0%
!! ACTTACTAAAACAATGAATA+AGG + chr5.4:70233021-70233040 None:intergenic 20.0%
!! TCATTATTATAGTTACATGA+TGG - chr5.4:70233152-70233171 MS.gene038168:CDS 20.0%
!! TGTTTATTATAGTTACATGA+TGG - chr5.4:70233248-70233267 MS.gene038168:CDS 20.0%
!! TTATGAAAATATGCTGAAAA+CGG - chr5.4:70233456-70233475 MS.gene038168:intron 20.0%
!!! ATAAGCTATTTTTGTAACAA+AGG - chr5.4:70233368-70233387 MS.gene038168:intron 20.0%
!!! TAAATTCTTTAGGATAACTT+CGG + chr5.4:70233439-70233458 None:intergenic 20.0%
! CTATTACAATCCTTATCATT+TGG + chr5.4:70234052-70234071 None:intergenic 25.0%
! GCAAATGATTACTTCAAAAA+AGG - chr5.4:70233665-70233684 MS.gene038168:intron 25.0%
!! AAGATATCAGTGTTTGATTT+AGG + chr5.4:70233824-70233843 None:intergenic 25.0%
!! ATAACTTATGACCTTTTCAT+AGG + chr5.4:70233482-70233501 None:intergenic 25.0%
!!! ATAATTTCTCAAGCTTTGTT+AGG - chr5.4:70232941-70232960 MS.gene038168:CDS 25.0%
!!! ATGAAACTACATTTGTTGTT+TGG - chr5.4:70232869-70232888 MS.gene038168:CDS 25.0%
!!! TATTTTGAAGCTTGTTGAAT+TGG - chr5.4:70234006-70234025 MS.gene038168:CDS 25.0%
ACCTCAATTACCAAATGATA+AGG - chr5.4:70234039-70234058 MS.gene038168:CDS 30.0%
ATCTATTATGTGAAATCCAC+AGG - chr5.4:70233696-70233715 MS.gene038168:intron 30.0%
CTTCTTCAGTTAGTGTAAAA+AGG - chr5.4:70233043-70233062 MS.gene038168:CDS 30.0%
GAATAAGGATATAGAGAACA+TGG + chr5.4:70233006-70233025 None:intergenic 30.0%
TCATCTGGTTGAAAAATTTG+TGG + chr5.4:70233767-70233786 None:intergenic 30.0%
! ATTGTTGCTTCTTTGTTCAA+AGG + chr5.4:70233978-70233997 None:intergenic 30.0%
! TCCTTATCATTTGGTAATTG+AGG + chr5.4:70234043-70234062 None:intergenic 30.0%
! TTGTTGCTTCTTTGTTCAAA+GGG + chr5.4:70233977-70233996 None:intergenic 30.0%
! TTTGATTTAGGAGATGGTAA+TGG + chr5.4:70233812-70233831 None:intergenic 30.0%
!! AAACTACATTTGTTGTTTGG+AGG - chr5.4:70232872-70232891 MS.gene038168:CDS 30.0%
!! ATTGTTGTTGAAAGTGTTGA+GGG + chr5.4:70233730-70233749 None:intergenic 30.0%
!! TATTGTTGTTGAAAGTGTTG+AGG + chr5.4:70233731-70233750 None:intergenic 30.0%
ATCCAACAGATACTTTCATC+TGG + chr5.4:70233782-70233801 None:intergenic 35.0%
CTATATCTGATTGCATTCAG+AGG - chr5.4:70233123-70233142 MS.gene038168:CDS 35.0%
CTCTGAATGCAATCAGATAT+AGG + chr5.4:70233125-70233144 None:intergenic 35.0%
CTGAGGATAATCAAAGACTA+AGG - chr5.4:70233855-70233874 MS.gene038168:intron 35.0%
TATCTTAACAGCACTTTCTG+AGG - chr5.4:70233838-70233857 MS.gene038168:intron 35.0%
TCCTCTTTGTGGAAAAAAGA+GGG - chr5.4:70234096-70234115 MS.gene038168:CDS 35.0%
TGGTATGTCTTTGTCAAGAA+AGG + chr5.4:70232802-70232821 None:intergenic 35.0%
TTCCTCTTTGTGGAAAAAAG+AGG - chr5.4:70234095-70234114 MS.gene038168:CDS 35.0%
! TCAGTGTTTGATTTAGGAGA+TGG + chr5.4:70233818-70233837 None:intergenic 35.0%
!! AACCAGATGAAAGTATCTGT+TGG - chr5.4:70233777-70233796 MS.gene038168:intron 35.0%
!! TTGTTGTTGAAAGTGTTGAG+GGG + chr5.4:70233729-70233748 None:intergenic 35.0%
AGAAGATCTCTAGCAAACTC+AGG + chr5.4:70232901-70232920 None:intergenic 40.0%
AGCTCTTCTGTGAAGCTATT+TGG - chr5.4:70234070-70234089 MS.gene038168:CDS 40.0%
CACATGTATCAATGTCGTGT+TGG - chr5.4:70233582-70233601 MS.gene038168:intron 40.0%
CATCACTCCAAGATACAATG+TGG + chr5.4:70232849-70232868 None:intergenic 40.0%
TCAAGAAGGTTGTTGCTGAT+AGG - chr5.4:70233633-70233652 MS.gene038168:intron 40.0%
TCACTGACCACATTGTATCT+TGG - chr5.4:70232839-70232858 MS.gene038168:CDS 40.0%
TGAGAGGATCATCAACAAGT+TGG + chr5.4:70232822-70232841 None:intergenic 40.0%
!! CTATTTGGTGTTCCTCTTTG+TGG - chr5.4:70234085-70234104 MS.gene038168:CDS 40.0%
!!! ACCCTCTTTTTTCCACAAAG+AGG + chr5.4:70234100-70234119 None:intergenic 40.0%
AGAAGGTTGTTGCTGATAGG+TGG - chr5.4:70233636-70233655 MS.gene038168:intron 45.0%
AGATCTCTAGCAAACTCAGG+AGG + chr5.4:70232898-70232917 None:intergenic 45.0%
CTTCTTGCAGGGTTTCAAGA+AGG - chr5.4:70233619-70233638 MS.gene038168:intron 45.0%
CTTTGTTCAAAGGGTGAAGC+AGG + chr5.4:70233968-70233987 None:intergenic 45.0%
GAAGGTTGTTGCTGATAGGT+GGG - chr5.4:70233637-70233656 MS.gene038168:intron 45.0%
GATACAATGTGGTCAGTGAG+AGG + chr5.4:70232838-70232857 None:intergenic 45.0%
GCTGAAAACGGCCTATGAAA+AGG - chr5.4:70233468-70233487 MS.gene038168:intron 45.0%
GTCTTTGTCAAGAAAGGAGC+AGG + chr5.4:70232796-70232815 None:intergenic 45.0%
CTGATGCGTGTCTTCTTGCA+GGG - chr5.4:70233608-70233627 MS.gene038168:intron 50.0%
TCTGATGCGTGTCTTCTTGC+AGG - chr5.4:70233607-70233626 MS.gene038168:intron 50.0%
! GTTGAGGGGTTTTTCTCCTG+TGG + chr5.4:70233715-70233734 None:intergenic 50.0%
AGGGTGAAGCAGGACTCACA+TGG + chr5.4:70233958-70233977 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 70232760 70234141 70232760 ID=MS.gene038168
chr5.4 mRNA 70232760 70234141 70232760 ID=MS.gene038168.t1;Parent=MS.gene038168
chr5.4 exon 70233923 70234141 70233923 ID=MS.gene038168.t1.exon1;Parent=MS.gene038168.t1
chr5.4 CDS 70233923 70234141 70233923 ID=cds.MS.gene038168.t1;Parent=MS.gene038168.t1
chr5.4 exon 70232760 70233272 70232760 ID=MS.gene038168.t1.exon2;Parent=MS.gene038168.t1
chr5.4 CDS 70232760 70233272 70232760 ID=cds.MS.gene038168.t1;Parent=MS.gene038168.t1
Gene Sequence

>MS.gene038168

ATGGTGTTCACTATGGAGTCTCAGAAATCAGTGCCTGCTCCTTTCTTGACAAAGACATACCAACTTGTTGATGATCCTCTCACTGACCACATTGTATCTTGGAGTGATGATGAAACTACATTTGTTGTTTGGAGGCCTCCTGAGTTTGCTAGAGATCTTCTTCCCAATTTTTTCAAGCATAATAATTTCTCAAGCTTTGTTAGGCAACTAAATACATATGTGAGAATCTTCAAATTCTAACTTCCATGTTCTCTATATCCTTATTCATTGTTTTAGTAAGTATCTTCTTCAGTTAGTGTAAAAAGGTCTCAAAGTTTCTTTTTTGATACTTCTTGAACCATAAGAATAACTTAAATAACTTACCTATATCTGATTGCATTCAGAGGTTCAGTTCATTATTATAGTTACATGATGGACTATGATAGTAAAACATCATATATTTAGTAACTGTTTGTATGAACAACTTAATTAAACGATTATAGCACAAGTGTTTATTATAGTTACATGATGGACTATGATAGTAAAACATCATATATTTAGTAACTGTTTGTATGAACAACTTAATTAAACGATTATAGCATAAGTGTTTATCATATAAATACTCATGAATAAGCTATTTTTGTAACAAAGGACAAAAGAAAATCAAACTATTTTCATATAAGTTATAAACTGTTTTCCGAAGTTATCCTAAAGAATTTATGAAAATATGCTGAAAACGGCCTATGAAAAGGTCATAAGTTATTTCTGTAAGCTCTTCAAAACAGTTTCGCAAGCTATGAAGCAGTGACAATAATTTGAGAAAATGTAACATCGGAATAAAGTCACATGTATCAATGTCGTGTTGGTGTCTGATGCGTGTCTTCTTGCAGGGTTTCAAGAAGGTTGTTGCTGATAGGTGGGAGTTTGCAAATGATTACTTCAAAAAAGGAGCTAAGCATCTATTATGTGAAATCCACAGGAGAAAAACCCCTCAACACTTTCAACAACAATACTATGAACAATCACCACAAATTTTTCAACCAGATGAAAGTATCTGTTGGATTGATTCTCCATTACCATCTCCTAAATCAAACACTGATATCTTAACAGCACTTTCTGAGGATAATCAAAGACTAAGGAGAAAGAATTTCATGCTGTTATCAGAACTCAGTCACATGAAGAATCTTTACAATGATATTATATATTTCATTCAAAACCATGTGAGTCCTGCTTCACCCTTTGAACAAAGAAGCAACAATAGTGCTGCTATTTTGAAGCTTGTTGAATTGGATTCATCATCACCTCAATTACCAAATGATAAGGATTGTAATAGCTCTTCTGTGAAGCTATTTGGTGTTCCTCTTTGTGGAAAAAAGAGGGTTCATCCTAGTAATCTTGATTAA
Protein sequence

>MS.gene038168.t1

MVFTMESQKSVPAPFLTKTYQLVDDPLTDHIVSWSDDETTFVVWRPPEFARDLLPNFFKHNNFSSFVRQLNTYGFKKVVADRWEFANDYFKKGAKHLLCEIHRRKTPQHFQQQYYEQSPQIFQPDESICWIDSPLPSPKSNTDILTALSEDNQRLRRKNFMLLSELSHMKNLYNDIIYFIQNHVSPASPFEQRSNNSAAILKLVELDSSSPQLPNDKDCNSSSVKLFGVPLCGKKRVHPSNLD