AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene47664


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47664.t1 MTR_5g089170 99.606 254 1 0 1 254 1 254 0.0 527
MS.gene47664.t1 MTR_3g101870 48.529 340 81 12 1 250 1 336 1.11e-92 278
MS.gene47664.t1 MTR_4g011850 75.882 170 2 2 85 254 9 139 1.54e-85 251
MS.gene47664.t1 MTR_5g010680 44.493 227 99 3 15 215 14 239 1.19e-57 187
MS.gene47664.t1 MTR_1g100777 41.129 248 121 5 17 246 10 250 4.55e-55 179
MS.gene47664.t1 MTR_7g091370 45.771 201 99 2 18 218 15 205 3.46e-54 174
MS.gene47664.t1 MTR_0020s0020 39.623 265 127 6 16 249 24 286 8.97e-52 172
MS.gene47664.t1 MTR_5g017470 38.776 245 120 6 18 242 2 236 3.17e-48 161
MS.gene47664.t1 MTR_5g029680 46.597 191 90 2 22 212 29 207 5.98e-45 157
MS.gene47664.t1 MTR_6g043060 69.892 93 28 0 24 116 21 113 4.59e-43 149
MS.gene47664.t1 MTR_1g102860 50.943 159 58 2 23 181 38 176 3.48e-41 144
MS.gene47664.t1 MTR_1g071360 45.029 171 63 3 23 192 30 170 3.47e-40 142
MS.gene47664.t1 MTR_7g095680 65.957 94 32 0 23 116 47 140 3.49e-40 142
MS.gene47664.t1 MTR_1g071360 45.029 171 63 3 23 192 27 167 6.86e-40 142
MS.gene47664.t1 MTR_8g087540 66.667 99 32 1 18 116 6 103 3.09e-39 140
MS.gene47664.t1 MTR_8g083100 68.132 91 29 0 26 116 23 113 1.93e-38 140
MS.gene47664.t1 MTR_1g061170 44.512 164 68 3 19 181 43 184 5.49e-38 138
MS.gene47664.t1 MTR_2g100680 63.830 94 34 0 23 116 29 122 3.52e-37 136
MS.gene47664.t1 MTR_4g088900 40.361 166 87 3 22 183 30 187 2.14e-36 128
MS.gene47664.t1 MTR_2g100670 58.824 102 42 0 15 116 23 124 3.52e-35 128
MS.gene47664.t1 MTR_3g104550 42.138 159 73 1 23 181 44 183 4.37e-35 129
MS.gene47664.t1 MTR_6g086805 59.184 98 40 0 19 116 5 102 5.28e-35 128
MS.gene47664.t1 MTR_4g077970 43.949 157 75 2 25 181 12 155 8.03e-35 130
MS.gene47664.t1 MTR_2g100670 58.824 102 42 0 15 116 131 232 2.78e-34 127
MS.gene47664.t1 MTR_2g017890 57.000 100 42 1 18 117 9 107 1.26e-33 125
MS.gene47664.t1 MTR_8g105780 60.417 96 37 1 24 118 21 116 3.73e-33 124
MS.gene47664.t1 MTR_4g045757 62.069 58 22 0 25 82 14 71 2.18e-19 80.1
MS.gene47664.t1 MTR_5g047190 41.304 92 47 2 33 117 1 92 3.03e-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.gene47664.t1 AT1G46264 61.364 220 53 5 20 211 29 244 1.86e-87 263
MS.gene47664.t1 AT4G36990 39.683 252 132 4 12 247 1 248 3.06e-54 176
MS.gene47664.t1 AT5G62020 40.400 250 130 3 18 249 16 264 2.13e-53 175
MS.gene47664.t1 AT4G11660 71.845 103 29 0 17 119 51 153 2.33e-50 169
MS.gene47664.t1 AT1G32330 46.196 184 87 3 22 204 34 206 5.26e-45 157
MS.gene47664.t1 AT1G32330 46.196 184 87 3 22 204 34 206 5.70e-45 157
MS.gene47664.t1 AT2G41690 43.094 181 93 3 23 194 38 217 5.04e-44 149
MS.gene47664.t1 AT4G17750 64.486 107 38 0 15 121 42 148 1.73e-43 154
MS.gene47664.t1 AT3G22830 66.327 98 33 0 20 117 56 153 3.77e-40 143
MS.gene47664.t1 AT3G02990 66.667 96 31 1 21 116 20 114 3.75e-39 142
MS.gene47664.t1 AT5G16820 67.000 100 31 2 21 120 24 121 3.87e-39 142
MS.gene47664.t1 AT5G16820 67.000 100 31 2 21 120 24 121 3.87e-39 142
MS.gene47664.t1 AT5G43840 60.952 105 41 0 23 127 17 121 4.58e-39 137
MS.gene47664.t1 AT5G03720 63.265 98 36 0 25 122 55 152 2.50e-38 138
MS.gene47664.t1 AT5G03720 63.265 98 36 0 25 122 55 152 2.50e-38 138
MS.gene47664.t1 AT3G63350 36.279 215 116 5 19 218 22 230 2.82e-37 132
MS.gene47664.t1 AT2G26150 59.794 97 39 0 20 116 39 135 5.55e-37 133
MS.gene47664.t1 AT2G26150 59.794 97 39 0 20 116 39 135 5.55e-37 133
MS.gene47664.t1 AT3G51910 60.417 96 38 0 20 115 24 119 5.56e-36 129
MS.gene47664.t1 AT4G13980 64.835 91 32 0 26 116 24 114 9.80e-36 132
MS.gene47664.t1 AT5G54070 57.895 95 40 0 21 115 67 161 2.94e-35 129
MS.gene47664.t1 AT3G24520 60.000 95 38 0 22 116 14 108 6.82e-35 127
MS.gene47664.t1 AT1G67970 50.420 119 58 1 24 141 18 136 1.01e-33 125
MS.gene47664.t1 AT4G18880 65.657 99 33 1 18 116 9 106 1.39e-31 120
MS.gene47664.t1 AT5G45710 42.442 172 91 3 25 191 13 181 4.25e-31 118
MS.gene47664.t1 AT5G45710 42.442 172 91 3 25 191 13 181 4.25e-31 118
MS.gene47664.t1 AT4G18870 44.706 85 47 0 25 109 146 230 4.62e-20 87.4
MS.gene47664.t1 AT4G18870 38.596 114 62 3 26 137 14 121 2.51e-18 82.8

Find 39 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATATCAGTGTTTGATTT+AGG 0.203557 5.2:+75726241 None:intergenic
AGCTCTTCTGTGAAGCTATT+TGG 0.233498 5.2:-75725992 MS.gene47664:CDS
CTATTTGGTGTTCCTCTTTG+TGG 0.339191 5.2:-75725977 MS.gene47664:CDS
TCCTTATCATTTGGTAATTG+AGG 0.352875 5.2:+75726022 None:intergenic
ATGAAACTACATTTGTTGTT+TGG 0.362655 5.2:-75727041 MS.gene47664:CDS
CTATTACAATCCTTATCATT+TGG 0.365932 5.2:+75726013 None:intergenic
AGAAGATCTCTAGCAAATTC+AGG 0.373696 5.2:+75727012 None:intergenic
CTTTGTTCAAAGGGTGAAGC+AGG 0.399996 5.2:+75726097 None:intergenic
ATTGTTGCTTCTTTGTTCAA+AGG 0.403141 5.2:+75726087 None:intergenic
TCTTATTAATCAAGATTACT+AGG 0.404553 5.2:+75725938 None:intergenic
ACAACTTCTCAAGCTTTGTT+AGG 0.420026 5.2:-75726969 MS.gene47664:CDS
TTGTTGCTTCTTTGTTCAAA+GGG 0.445911 5.2:+75726088 None:intergenic
TCAAGAAGGTTGTTGCTGAT+AGG 0.447682 5.2:-75726429 MS.gene47664:CDS
AAACTACATTTGTTGTTTGG+AGG 0.447885 5.2:-75727038 MS.gene47664:CDS
TGGTATGTCTTTGTCAAGAA+AGG 0.453363 5.2:+75727111 None:intergenic
CTTCTTGCAGGGTTTCAAGA+AGG 0.454510 5.2:-75726443 MS.gene47664:intron
ATTGTTGTTGATAGTGTTGA+GGG 0.457477 5.2:+75726335 None:intergenic
AGATAACATGGTGTTCACTA+TGG 0.459097 5.2:-75727157 MS.gene47664:CDS
ACCTCAATTACCAAATGATA+AGG 0.460161 5.2:-75726023 MS.gene47664:CDS
TTTGATTTAGGAGATGGTAA+TGG 0.467405 5.2:+75726253 None:intergenic
ATCCAACAGATACTTTCATC+TGG 0.487646 5.2:+75726283 None:intergenic
TCAGTGTTTGATTTAGGAGA+TGG 0.490616 5.2:+75726247 None:intergenic
TCACTGACCACATTGTATCT+TGG 0.491347 5.2:-75727071 MS.gene47664:CDS
GTCTTTGTCAAGAAAGGAGC+AGG 0.498324 5.2:+75727117 None:intergenic
AACCAGATGAAAGTATCTGT+TGG 0.501425 5.2:-75726285 MS.gene47664:CDS
CTGAGGATAATCAAAGACTA+AGG 0.512230 5.2:-75726207 MS.gene47664:CDS
ATCTATTATGTGAAATCCAC+AGG 0.520532 5.2:-75726366 MS.gene47664:CDS
AGAAGGTTGTTGCTGATAGG+TGG 0.520569 5.2:-75726426 MS.gene47664:CDS
TATCTTAACAGCACTTTCTG+AGG 0.572199 5.2:-75726224 MS.gene47664:CDS
GAAGGTTGTTGCTGATAGGT+GGG 0.581284 5.2:-75726425 MS.gene47664:CDS
TATTGTTGTTGATAGTGTTG+AGG 0.584009 5.2:+75726334 None:intergenic
TGAGAGGATCATCAACAAGT+TGG 0.584975 5.2:+75727091 None:intergenic
GATACAATGTGGTCAGTGAG+AGG 0.630246 5.2:+75727075 None:intergenic
TGATGGCTTTCACATTAGAG+AGG 0.643157 5.2:-75727185 MS.gene47664:CDS
AGAGAGGTGTGAAGATAACA+TGG 0.644284 5.2:-75727169 MS.gene47664:CDS
TTGTTGTTGATAGTGTTGAG+GGG 0.651120 5.2:+75726336 None:intergenic
AGATCTCTAGCAAATTCAGG+AGG 0.698266 5.2:+75727015 None:intergenic
AGGGTGAAGCAGGACTCACA+TGG 0.700311 5.2:+75726107 None:intergenic
CATCACTCCAAGATACAATG+TGG 0.717706 5.2:+75727064 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTTAGAAATTATATGAAAA+TGG + chr5.2:75726430-75726449 None:intergenic 15.0%
!! TAACTATAATAATGAACTGA+AGG + chr5.2:75726263-75726282 None:intergenic 20.0%
!! TTATGAAAATATGCTGAAAA+CGG - chr5.2:75726476-75726495 MS.gene47664:intron 20.0%
! CTATTACAATCCTTATCATT+TGG + chr5.2:75727116-75727135 None:intergenic 25.0%
! CTGACAATAATTTGAGAAAA+TGG - chr5.2:75726563-75726582 MS.gene47664:intron 25.0%
! GCAAATGATTACTTCAAAAA+AGG - chr5.2:75726729-75726748 MS.gene47664:intron 25.0%
! GTACTAAAACAATATCAAGA+AGG + chr5.2:75726237-75726256 None:intergenic 25.0%
! TTGTTGTGCTTGAAAAAATT+GGG + chr5.2:75726141-75726160 None:intergenic 25.0%
!! AAGATATCAGTGTTTGATTT+AGG + chr5.2:75726888-75726907 None:intergenic 25.0%
!!! ATAAGCTATTTCTGTAACAA+AGG - chr5.2:75726388-75726407 MS.gene47664:CDS 25.0%
!!! ATGAAACTACATTTGTTGTT+TGG - chr5.2:75726085-75726104 MS.gene47664:CDS 25.0%
!!! TATTTTGAAGCTTGTTGAAT+TGG - chr5.2:75727070-75727089 MS.gene47664:CDS 25.0%
AATTTGAGAAAATGGAACAG+CGG - chr5.2:75726571-75726590 MS.gene47664:intron 30.0%
ACCTCAATTACCAAATGATA+AGG - chr5.2:75727103-75727122 MS.gene47664:CDS 30.0%
ATCTATTATGTGAAATCCAC+AGG - chr5.2:75726760-75726779 MS.gene47664:intron 30.0%
GAGCTTACAGAAATAACTTA+CGG + chr5.2:75726514-75726533 None:intergenic 30.0%
GTTGTTGTGCTTGAAAAAAT+TGG + chr5.2:75726142-75726161 None:intergenic 30.0%
TCATCTGGTTGAAAAATTTG+TGG + chr5.2:75726831-75726850 None:intergenic 30.0%
! ATTGTTGCTTCTTTGTTCAA+AGG + chr5.2:75727042-75727061 None:intergenic 30.0%
! TCCTTATCATTTGGTAATTG+AGG + chr5.2:75727107-75727126 None:intergenic 30.0%
! TTGTTGCTTCTTTGTTCAAA+GGG + chr5.2:75727041-75727060 None:intergenic 30.0%
! TTTGATTTAGGAGATGGTAA+TGG + chr5.2:75726876-75726895 None:intergenic 30.0%
!! AAACTACATTTGTTGTTTGG+AGG - chr5.2:75726088-75726107 MS.gene47664:CDS 30.0%
!! ATTGTTGTTGATAGTGTTGA+GGG + chr5.2:75726794-75726813 None:intergenic 30.0%
!! TATTGTTGTTGATAGTGTTG+AGG + chr5.2:75726795-75726814 None:intergenic 30.0%
AGAAGATCTCTAGCAAATTC+AGG + chr5.2:75726117-75726136 None:intergenic 35.0%
AGATAACATGGTGTTCACTA+TGG - chr5.2:75725969-75725988 MS.gene47664:CDS 35.0%
ATCCAACAGATACTTTCATC+TGG + chr5.2:75726846-75726865 None:intergenic 35.0%
CACATGTATCAATGTCATGT+TGG - chr5.2:75726602-75726621 MS.gene47664:intron 35.0%
CTGAGGATAATCAAAGACTA+AGG - chr5.2:75726919-75726938 MS.gene47664:intron 35.0%
TATCTTAACAGCACTTTCTG+AGG - chr5.2:75726902-75726921 MS.gene47664:intron 35.0%
TCCTCTTTGTGGAAAAAAGA+GGG - chr5.2:75727160-75727179 MS.gene47664:CDS 35.0%
TGGTATGTCTTTGTCAAGAA+AGG + chr5.2:75726018-75726037 None:intergenic 35.0%
TTCCTCTTTGTGGAAAAAAG+AGG - chr5.2:75727159-75727178 MS.gene47664:CDS 35.0%
! TCAGTGTTTGATTTAGGAGA+TGG + chr5.2:75726882-75726901 None:intergenic 35.0%
!! AACCAGATGAAAGTATCTGT+TGG - chr5.2:75726841-75726860 MS.gene47664:intron 35.0%
!! ACAACTTCTCAAGCTTTGTT+AGG - chr5.2:75726157-75726176 MS.gene47664:CDS 35.0%
!! TTGTTGTTGATAGTGTTGAG+GGG + chr5.2:75726793-75726812 None:intergenic 35.0%
AGATCTCTAGCAAATTCAGG+AGG + chr5.2:75726114-75726133 None:intergenic 40.0%
AGCTCTTCTGTGAAGCTATT+TGG - chr5.2:75727134-75727153 MS.gene47664:CDS 40.0%
CATCACTCCAAGATACAATG+TGG + chr5.2:75726065-75726084 None:intergenic 40.0%
TACGTACTTCTCTTCTTGCA+GGG - chr5.2:75726672-75726691 MS.gene47664:intron 40.0%
TCAAGAAGGTTGTTGCTGAT+AGG - chr5.2:75726697-75726716 MS.gene47664:intron 40.0%
TCACTGACCACATTGTATCT+TGG - chr5.2:75726055-75726074 MS.gene47664:CDS 40.0%
TGAGAGGATCATCAACAAGT+TGG + chr5.2:75726038-75726057 None:intergenic 40.0%
TTACGTACTTCTCTTCTTGC+AGG - chr5.2:75726671-75726690 MS.gene47664:intron 40.0%
! AGAGAGGTGTGAAGATAACA+TGG - chr5.2:75725957-75725976 MS.gene47664:CDS 40.0%
!! CTATTTGGTGTTCCTCTTTG+TGG - chr5.2:75727149-75727168 MS.gene47664:CDS 40.0%
!! GCTGAAAACGGCTTTTGAAA+AGG - chr5.2:75726488-75726507 MS.gene47664:intron 40.0%
!!! ACCCTCTTTTTTCCACAAAG+AGG + chr5.2:75727164-75727183 None:intergenic 40.0%
AGAAGGTTGTTGCTGATAGG+TGG - chr5.2:75726700-75726719 MS.gene47664:intron 45.0%
CTTCTTGCAGGGTTTCAAGA+AGG - chr5.2:75726683-75726702 MS.gene47664:intron 45.0%
CTTTGTTCAAAGGGTGAAGC+AGG + chr5.2:75727032-75727051 None:intergenic 45.0%
GAAGGTTGTTGCTGATAGGT+GGG - chr5.2:75726701-75726720 MS.gene47664:intron 45.0%
GATACAATGTGGTCAGTGAG+AGG + chr5.2:75726054-75726073 None:intergenic 45.0%
GTCTTTGTCAAGAAAGGAGC+AGG + chr5.2:75726012-75726031 None:intergenic 45.0%
! GTTGAGGGGTTTTTCTCCTG+TGG + chr5.2:75726779-75726798 None:intergenic 50.0%
AGGGTGAAGCAGGACTCACA+TGG + chr5.2:75727022-75727041 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 75725943 75727205 75725943 ID=MS.gene47664
chr5.2 mRNA 75725943 75727205 75725943 ID=MS.gene47664.t1;Parent=MS.gene47664
chr5.2 exon 75726954 75727205 75726954 ID=MS.gene47664.t1.exon1;Parent=MS.gene47664.t1
chr5.2 CDS 75726954 75727205 75726954 ID=cds.MS.gene47664.t1;Parent=MS.gene47664.t1
chr5.2 exon 75725943 75726455 75725943 ID=MS.gene47664.t1.exon2;Parent=MS.gene47664.t1
chr5.2 CDS 75725943 75726455 75725943 ID=cds.MS.gene47664.t1;Parent=MS.gene47664.t1
Gene Sequence

>MS.gene47664

ATGGCTTTCACATTAGAGAGGTGTGAAGATAACATGGTGTTCACTATGGAGTCTCAGAAATCAGTGCCTGCTCCTTTCTTGACAAAGACATACCAACTTGTTGATGATCCTCTCACTGACCACATTGTATCTTGGAGTGATGATGAAACTACATTTGTTGTTTGGAGGCCTCCTGAATTTGCTAGAGATCTTCTTCCCAATTTTTTCAAGCACAACAACTTCTCAAGCTTTGTTAGGCAACTAAATACATATGTGAGTATCTTCAAATTCTAACTTCTATGTTCTCTATATCCTTCTTGATATTGTTTTAGTACTATCCTTCAGTTCATTATTATAGTTACATGATTGACTATGATAGTAAAACATCGTATATTTAGTAACTGTTTGTATAAACAACTTAATTAAACGATTATAGCGAAAGTGTTTATCATATAAATACTCATGAATAAGCTATTTCTGTAACAAAGGAGAAAAGAAAATCAAACCATTTTCATATAATTTCTAAACTGTTTTTCGAAGTTATACTAGATAACTTATGAAAATATGCTGAAAACGGCTTTTGAAAAGGCCGTAAGTTATTTCTGTAAGCTCTTCAAAACAGTTTCGCAAGCTATGAAGCACTGACAATAATTTGAGAAAATGGAACAGCGGAATAAAGTCACATGTATCAATGTCATGTTGGTGTCTGATGCGTATCTTCAACGTGAAGTGTGCTCACAAACATATACTTACGTACTTCTCTTCTTGCAGGGTTTCAAGAAGGTTGTTGCTGATAGGTGGGAGTTTGCAAATGATTACTTCAAAAAAGGAGCTAAGCATCTATTATGTGAAATCCACAGGAGAAAAACCCCTCAACACTATCAACAACAATACTATGAACAATCACCACAAATTTTTCAACCAGATGAAAGTATCTGTTGGATTGATTCTCCATTACCATCTCCTAAATCAAACACTGATATCTTAACAGCACTTTCTGAGGATAATCAAAGACTAAGGAGAAAGAATTTCATGCTGTTATCAGAACTCAGTCACATGAAGAATCTTTACAATGATATTATATATTTCATTCAAAACCATGTGAGTCCTGCTTCACCCTTTGAACAAAGAAGCAACAATAGTGCTGCTATTTTGAAGCTTGTTGAATTGGATTCATCATCACCTCAATTACCAAATGATAAGGATTGTAATAGCTCTTCTGTGAAGCTATTTGGTGTTCCTCTTTGTGGAAAAAAGAGGGTTCATCCTAGTAATCTTGATTAA

Protein sequence

>MS.gene47664.t1

MAFTLERCEDNMVFTMESQKSVPAPFLTKTYQLVDDPLTDHIVSWSDDETTFVVWRPPEFARDLLPNFFKHNNFSSFVRQLNTYGFKKVVADRWEFANDYFKKGAKHLLCEIHRRKTPQHYQQQYYEQSPQIFQPDESICWIDSPLPSPKSNTDILTALSEDNQRLRRKNFMLLSELSHMKNLYNDIIYFIQNHVSPASPFEQRSNNSAAILKLVELDSSSPQLPNDKDCNSSSVKLFGVPLCGKKRVHPSNLD