AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07404


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07404.t1 MTR_1g076270 98.315 178 3 0 1 178 1 178 7.20e-129 359
MS.gene07404.t1 MTR_1g093350 98.315 178 3 0 1 178 1 178 7.20e-129 359
MS.gene07404.t1 MTR_1g040675 73.626 182 34 3 11 178 1 182 4.96e-92 266
MS.gene07404.t1 MTR_1g070830 59.701 201 58 5 1 178 1 201 6.02e-80 236
MS.gene07404.t1 MTR_1g040675 70.370 162 34 3 11 158 1 162 1.48e-75 223
MS.gene07404.t1 MTR_6g488150 42.609 230 72 5 9 178 13 242 5.19e-53 169
MS.gene07404.t1 MTR_1g093240 45.161 217 70 6 11 178 8 224 7.77e-51 163
MS.gene07404.t1 MTR_1g093240 45.161 217 70 6 11 178 8 224 1.16e-50 163
MS.gene07404.t1 MTR_1g080860 42.291 227 72 6 11 178 15 241 1.78e-49 160
MS.gene07404.t1 MTR_1g080860 42.291 227 72 6 11 178 15 241 2.21e-49 160
MS.gene07404.t1 MTR_7g096090 53.642 151 44 4 53 178 89 238 4.96e-48 156
MS.gene07404.t1 MTR_5g030710 45.304 181 68 4 29 178 143 323 1.25e-47 158
MS.gene07404.t1 MTR_1g070520 41.441 222 65 6 16 178 18 233 1.87e-46 152
MS.gene07404.t1 MTR_5g067350 47.126 174 62 5 30 178 167 335 1.61e-45 153
MS.gene07404.t1 MTR_8g067530 47.159 176 64 5 29 178 172 344 1.81e-45 153
MS.gene07404.t1 MTR_2g101500 53.020 149 43 4 57 178 166 314 2.38e-45 152
MS.gene07404.t1 MTR_8g103030 47.802 182 66 6 26 178 100 281 7.37e-44 147
MS.gene07404.t1 MTR_4g011880 47.337 169 80 4 11 178 6 166 9.15e-42 138
MS.gene07404.t1 MTR_1g093240 41.624 197 66 6 11 158 8 204 3.91e-38 130
MS.gene07404.t1 MTR_2g102490 44.186 172 75 6 13 170 16 180 3.70e-31 112
MS.gene07404.t1 MTR_6g488150 38.182 165 56 4 9 127 13 177 3.01e-28 104
MS.gene07404.t1 MTR_1g069495 33.333 177 57 4 62 178 81 256 3.03e-26 101
MS.gene07404.t1 MTR_8g014520 36.420 162 57 5 55 174 103 260 4.60e-25 97.8
MS.gene07404.t1 MTR_4g124300 37.984 129 77 2 48 175 58 184 4.83e-25 95.9
MS.gene07404.t1 MTR_8g014520 36.420 162 57 5 55 174 103 260 4.86e-25 97.8
MS.gene07404.t1 MTR_2g100780 32.558 172 67 3 50 174 85 254 1.78e-24 96.7
MS.gene07404.t1 MTR_2g100780 33.721 172 65 4 50 174 85 254 2.11e-24 96.3
MS.gene07404.t1 MTR_5g067350 44.037 109 44 3 30 125 167 271 2.05e-21 88.6
MS.gene07404.t1 MTR_1g085750 43.820 89 49 1 84 171 82 170 1.68e-19 81.3
MS.gene07404.t1 MTR_7g110790 40.426 94 55 1 79 171 62 155 1.24e-18 78.6
MS.gene07404.t1 MTR_3g106850 31.538 130 69 3 64 178 89 213 1.61e-18 79.7
MS.gene07404.t1 MTR_4g115075 30.579 121 63 3 64 171 93 205 3.49e-16 73.2
MS.gene07404.t1 MTR_1g085750 42.105 76 43 1 84 158 82 157 1.96e-13 65.1
MS.gene07404.t1 MTR_1g109510 37.607 117 62 4 64 171 54 168 2.91e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07404.t1 AT1G04240 61.326 181 57 4 11 178 5 185 2.26e-77 229
MS.gene07404.t1 AT1G04240 61.326 181 57 4 11 178 105 285 1.21e-76 231
MS.gene07404.t1 AT5G43700 62.295 183 62 3 1 178 1 181 1.59e-76 227
MS.gene07404.t1 AT3G23030 60.112 178 53 4 5 175 1 167 7.33e-69 207
MS.gene07404.t1 AT3G23030 59.777 179 54 4 4 175 87 254 2.19e-68 209
MS.gene07404.t1 AT4G14560 61.677 167 57 3 9 175 5 164 2.32e-65 198
MS.gene07404.t1 AT3G04730 45.089 224 66 6 11 178 2 224 1.74e-53 170
MS.gene07404.t1 AT4G14550 45.833 216 69 7 11 178 1 216 1.04e-52 168
MS.gene07404.t1 AT4G14550 46.759 216 67 8 11 178 1 216 1.49e-52 167
MS.gene07404.t1 AT3G23050 44.889 225 67 8 11 178 6 230 2.22e-51 165
MS.gene07404.t1 AT1G04250 43.256 215 73 5 10 178 6 217 8.53e-51 163
MS.gene07404.t1 AT4G29080 42.248 258 61 8 9 178 36 293 1.31e-50 165
MS.gene07404.t1 AT3G15540 45.989 187 76 5 11 177 6 187 4.47e-45 147
MS.gene07404.t1 AT1G15580 49.419 172 70 6 9 177 6 163 7.03e-44 143
MS.gene07404.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.27e-42 144
MS.gene07404.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.27e-42 144
MS.gene07404.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.62e-42 144
MS.gene07404.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.62e-42 144
MS.gene07404.t1 AT2G22670 47.468 158 56 4 48 178 167 324 2.78e-42 144
MS.gene07404.t1 AT1G52830 45.556 180 83 5 11 177 6 183 3.21e-42 140
MS.gene07404.t1 AT5G65670 50.345 145 46 4 60 178 180 324 2.40e-41 142
MS.gene07404.t1 AT5G65670 50.345 145 46 4 60 178 180 324 2.91e-41 142
MS.gene07404.t1 AT4G14550 43.590 195 62 8 11 157 1 195 4.85e-40 134
MS.gene07404.t1 AT3G23050 41.463 205 63 8 11 158 6 210 2.26e-38 130
MS.gene07404.t1 AT4G28640 39.881 168 63 5 48 177 73 240 1.73e-30 111
MS.gene07404.t1 AT4G28640 39.881 168 63 5 48 177 73 240 2.08e-30 111
MS.gene07404.t1 AT2G33310 38.587 184 64 6 44 178 47 230 2.33e-30 111
MS.gene07404.t1 AT2G33310 38.587 184 64 6 44 178 47 230 2.33e-30 111
MS.gene07404.t1 AT4G28640 39.881 168 63 5 48 177 73 240 1.18e-29 110
MS.gene07404.t1 AT2G33310 38.378 185 64 6 44 178 47 231 1.91e-29 108
MS.gene07404.t1 AT1G04550 35.754 179 74 4 40 178 46 223 4.69e-29 107
MS.gene07404.t1 AT3G16500 31.140 228 97 7 7 174 25 252 6.63e-27 102
MS.gene07404.t1 AT3G16500 31.336 217 93 6 14 174 36 252 6.81e-27 102
MS.gene07404.t1 AT5G25890 35.057 174 87 6 14 175 5 164 3.83e-26 98.6
MS.gene07404.t1 AT4G14550 42.384 151 51 7 11 125 1 151 7.82e-26 97.8
MS.gene07404.t1 AT1G51950 33.333 213 88 7 14 174 40 250 2.62e-25 98.6
MS.gene07404.t1 AT3G17600 36.232 138 74 3 42 171 23 154 2.72e-25 95.9
MS.gene07404.t1 AT3G23050 40.123 162 52 7 11 127 6 167 1.01e-24 94.7
MS.gene07404.t1 AT1G04100 38.788 165 50 4 65 178 95 259 2.78e-24 95.9
MS.gene07404.t1 AT2G46990 44.186 86 48 0 86 171 85 170 2.51e-20 83.6
MS.gene07404.t1 AT3G62100 45.349 86 47 0 86 171 83 168 2.53e-20 83.6
MS.gene07404.t1 AT1G80390 40.171 117 60 3 12 124 15 125 1.55e-18 77.4
MS.gene07404.t1 AT2G46990 45.205 73 40 0 86 158 85 157 3.02e-15 69.7
MS.gene07404.t1 AT3G62100 45.205 73 40 0 86 158 83 155 1.00e-14 68.2
MS.gene07404.t1 AT4G32280 34.884 86 51 2 86 171 118 198 2.91e-13 65.5
MS.gene07404.t1 AT4G32280 34.884 86 51 2 86 171 160 240 8.68e-13 64.7
MS.gene07404.t1 AT2G01200 38.614 101 59 2 76 175 89 187 1.66e-11 60.5
MS.gene07404.t1 AT2G01200 38.614 101 59 2 76 175 89 187 1.66e-11 60.5
MS.gene07404.t1 AT1G15050 37.778 90 53 2 87 175 62 149 6.07e-11 58.2

Find 35 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAAGAGGCTGAGGCTTC+TGG 0.222165 1.2:-64197632 MS.gene07404:CDS
TTCTTCCTGTAAGATCTTAT+TGG 0.258525 1.2:+64197659 None:intergenic
AAGATTGATTTGAGGGTCTA+TGG 0.290855 1.2:-64197566 MS.gene07404:CDS
TGCACAACTTCTTAAAGCTT+TGG 0.324497 1.2:-64197537 MS.gene07404:CDS
TCCTTTGAAGTTTCAGTCAA+TGG 0.340316 1.2:+64197854 None:intergenic
TATGTGAAAGTGAGTTTAGA+TGG 0.375233 1.2:-64197605 MS.gene07404:CDS
CCTTAGGAAGATTGATTTGA+GGG 0.380707 1.2:-64197573 MS.gene07404:CDS
GAGCTAAGATTAGGACTTCC+AGG 0.382329 1.2:-64197923 MS.gene07404:CDS
ACTTGCAGGGCTAAGATAGT+AGG 0.383062 1.2:-64197689 MS.gene07404:intron
TACAAGAGGCTGAGGCTTCT+GGG 0.384427 1.2:-64197631 MS.gene07404:CDS
CCATCTTTATCTTCATATGT+AGG 0.415484 1.2:+64197446 None:intergenic
GGCCACCAATAAGATCTTAC+AGG 0.438714 1.2:-64197664 MS.gene07404:CDS
GATGGTGATTGGATGTTAGT+TGG 0.443053 1.2:-64197428 MS.gene07404:CDS
TAGATGGAGCTCCTTACCTT+AGG 0.462831 1.2:-64197589 MS.gene07404:CDS
TTCCTGTAAGATCTTATTGG+TGG 0.463988 1.2:+64197662 None:intergenic
ATGAAGATAAAGATGGTGAT+TGG 0.480229 1.2:-64197439 MS.gene07404:CDS
ACCTTAGGAAGATTGATTTG+AGG 0.502641 1.2:-64197574 MS.gene07404:CDS
AAGGCTACTGAGCTAAGATT+AGG 0.511132 1.2:-64197932 MS.gene07404:CDS
AAATCAATCTTCCTAAGGTA+AGG 0.513222 1.2:+64197578 None:intergenic
CCCTCAAATCAATCTTCCTA+AGG 0.515293 1.2:+64197573 None:intergenic
CTTGCAGGGCTAAGATAGTA+GGG 0.554533 1.2:-64197688 MS.gene07404:intron
GAACAGTTTACAAGAGGCTG+AGG 0.558668 1.2:-64197639 MS.gene07404:CDS
TGTTAGTTGGAGATGTTCCA+TGG 0.566837 1.2:-64197415 MS.gene07404:CDS
CCTACATATGAAGATAAAGA+TGG 0.572828 1.2:-64197446 MS.gene07404:CDS
ACCATTGACTGAAACTTCAA+AGG 0.585923 1.2:-64197855 MS.gene07404:CDS
TGAGAATGATCTCAACATGA+AGG 0.586923 1.2:-64197951 MS.gene07404:CDS
ATTGATTTGAGGGTCTATGG+TGG 0.593128 1.2:-64197563 MS.gene07404:CDS
CAGGAAGAACAGTTTACAAG+AGG 0.599653 1.2:-64197645 MS.gene07404:CDS
GTTAGTTGGAGATGTTCCAT+GGG 0.617620 1.2:-64197414 MS.gene07404:CDS
AGCATGTTCAAGTTAACCAT+AGG 0.640019 1.2:-64197512 MS.gene07404:CDS
AAAAGACTAAGAATCATGAA+AGG 0.648151 1.2:-64197260 MS.gene07404:CDS
AGCTAAGATTAGGACTTCCA+GGG 0.649383 1.2:-64197922 MS.gene07404:CDS
ATGAAAGGAACAGAAGCTAG+AGG 0.651214 1.2:-64197245 MS.gene07404:CDS
ACTGAAACTTCAAAGGACAG+TGG 0.678691 1.2:-64197848 MS.gene07404:CDS
GCAGGGCTAAGATAGTAGGG+TGG 0.770265 1.2:-64197685 MS.gene07404:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCTTTCTACCTTATAAA+GGG - chr1.2:64197458-64197477 MS.gene07404:CDS 20.0%
!!! TTTTTCTTTCTACCTTATAA+AGG - chr1.2:64197457-64197476 MS.gene07404:CDS 20.0%
! AAAAGACTAAGAATCATGAA+AGG - chr1.2:64197949-64197968 MS.gene07404:CDS 25.0%
! GCATATATAGAGAGAAAAAA+AGG + chr1.2:64197828-64197847 None:intergenic 25.0%
! TCTGAAAAAGAAGGTTATAA+AGG - chr1.2:64197727-64197746 MS.gene07404:intron 25.0%
!! ATCTTTTGAACTTACTTTGA+AGG + chr1.2:64197415-64197434 None:intergenic 25.0%
!!! AGAATATTTTTTTGACTTGC+AGG - chr1.2:64197506-64197525 MS.gene07404:CDS 25.0%
!!! GAATATTTTTTTGACTTGCA+GGG - chr1.2:64197507-64197526 MS.gene07404:CDS 25.0%
!!! TTTTTCAGAATAATCACCTA+TGG + chr1.2:64197716-64197735 None:intergenic 25.0%
AAATCAATCTTCCTAAGGTA+AGG + chr1.2:64197634-64197653 None:intergenic 30.0%
ATGAAGATAAAGATGGTGAT+TGG - chr1.2:64197770-64197789 MS.gene07404:intron 30.0%
CCATCTTTATCTTCATATGT+AGG + chr1.2:64197766-64197785 None:intergenic 30.0%
CCTACATATGAAGATAAAGA+TGG - chr1.2:64197763-64197782 MS.gene07404:intron 30.0%
TATGTGAAAGTGAGTTTAGA+TGG - chr1.2:64197604-64197623 MS.gene07404:CDS 30.0%
TTCTTCCTGTAAGATCTTAT+TGG + chr1.2:64197553-64197572 None:intergenic 30.0%
! GGTGATTATTCTGAAAAAGA+AGG - chr1.2:64197718-64197737 MS.gene07404:intron 30.0%
!! TTTTGAACTTACTTTGAAGG+AGG + chr1.2:64197412-64197431 None:intergenic 30.0%
AAAAAAAGGACTTACTCCCA+TGG + chr1.2:64197814-64197833 None:intergenic 35.0%
ACATCATGCAACCCTTTATA+AGG + chr1.2:64197472-64197491 None:intergenic 35.0%
TGAGAATGATCTCAACATGA+AGG - chr1.2:64197258-64197277 MS.gene07404:CDS 35.0%
TGCACAACTTCTTAAAGCTT+TGG - chr1.2:64197672-64197691 MS.gene07404:CDS 35.0%
TTCCTGTAAGATCTTATTGG+TGG + chr1.2:64197550-64197569 None:intergenic 35.0%
! ACCATTGACTGAAACTTCAA+AGG - chr1.2:64197354-64197373 MS.gene07404:intron 35.0%
! AGCATGTTCAAGTTAACCAT+AGG - chr1.2:64197697-64197716 MS.gene07404:intron 35.0%
! TTCAGTCAATGGTCTTTTGT+TGG + chr1.2:64197347-64197366 None:intergenic 35.0%
!! AAGATTGATTTGAGGGTCTA+TGG - chr1.2:64197643-64197662 MS.gene07404:CDS 35.0%
!! ACCTTAGGAAGATTGATTTG+AGG - chr1.2:64197635-64197654 MS.gene07404:CDS 35.0%
!! CCTTAGGAAGATTGATTTGA+GGG - chr1.2:64197636-64197655 MS.gene07404:CDS 35.0%
!! TCCTTTGAAGTTTCAGTCAA+TGG + chr1.2:64197358-64197377 None:intergenic 35.0%
AAGGCTACTGAGCTAAGATT+AGG - chr1.2:64197277-64197296 MS.gene07404:CDS 40.0%
ACTGAAACTTCAAAGGACAG+TGG - chr1.2:64197361-64197380 MS.gene07404:intron 40.0%
AGCTAAGATTAGGACTTCCA+GGG - chr1.2:64197287-64197306 MS.gene07404:intron 40.0%
ATGAAAGGAACAGAAGCTAG+AGG - chr1.2:64197964-64197983 MS.gene07404:CDS 40.0%
CAGGAAGAACAGTTTACAAG+AGG - chr1.2:64197564-64197583 MS.gene07404:CDS 40.0%
CCCTCAAATCAATCTTCCTA+AGG + chr1.2:64197639-64197658 None:intergenic 40.0%
GATGGTGATTGGATGTTAGT+TGG - chr1.2:64197781-64197800 MS.gene07404:intron 40.0%
GTTAGTTGGAGATGTTCCAT+GGG - chr1.2:64197795-64197814 MS.gene07404:intron 40.0%
TGTTAGTTGGAGATGTTCCA+TGG - chr1.2:64197794-64197813 MS.gene07404:intron 40.0%
! TCTTCATTTTGTTCTGTCCC+TGG + chr1.2:64197307-64197326 None:intergenic 40.0%
!! ATTGATTTGAGGGTCTATGG+TGG - chr1.2:64197646-64197665 MS.gene07404:CDS 40.0%
ACTTGCAGGGCTAAGATAGT+AGG - chr1.2:64197520-64197539 MS.gene07404:CDS 45.0%
CTTGCAGGGCTAAGATAGTA+GGG - chr1.2:64197521-64197540 MS.gene07404:CDS 45.0%
GAACAGTTTACAAGAGGCTG+AGG - chr1.2:64197570-64197589 MS.gene07404:CDS 45.0%
GAGCTAAGATTAGGACTTCC+AGG - chr1.2:64197286-64197305 MS.gene07404:intron 45.0%
GGCCACCAATAAGATCTTAC+AGG - chr1.2:64197545-64197564 MS.gene07404:CDS 45.0%
TAGATGGAGCTCCTTACCTT+AGG - chr1.2:64197620-64197639 MS.gene07404:CDS 45.0%
TACAAGAGGCTGAGGCTTCT+GGG - chr1.2:64197578-64197597 MS.gene07404:CDS 50.0%
TTACAAGAGGCTGAGGCTTC+TGG - chr1.2:64197577-64197596 MS.gene07404:CDS 50.0%
GCAGGGCTAAGATAGTAGGG+TGG - chr1.2:64197524-64197543 MS.gene07404:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 64197238 64197993 64197238 ID=MS.gene07404
chr1.2 mRNA 64197238 64197993 64197238 ID=MS.gene07404.t1;Parent=MS.gene07404
chr1.2 exon 64197812 64197993 64197812 ID=MS.gene07404.t1.exon1;Parent=MS.gene07404.t1
chr1.2 CDS 64197812 64197993 64197812 ID=cds.MS.gene07404.t1;Parent=MS.gene07404.t1
chr1.2 exon 64197413 64197703 64197413 ID=MS.gene07404.t1.exon2;Parent=MS.gene07404.t1
chr1.2 CDS 64197413 64197703 64197413 ID=cds.MS.gene07404.t1;Parent=MS.gene07404.t1
chr1.2 exon 64197238 64197301 64197238 ID=MS.gene07404.t1.exon3;Parent=MS.gene07404.t1
chr1.2 CDS 64197238 64197301 64197238 ID=cds.MS.gene07404.t1;Parent=MS.gene07404.t1
Gene Sequence

>MS.gene07404

ATGGAAAACAGTGTTGCATATGAGAATGATCTCAACATGAAGGCTACTGAGCTAAGATTAGGACTTCCAGGGACAGAACAAAATGAAGAACAAAAAGCAAAAATTTCCAACAAAAGACCATTGACTGAAACTTCAAAGGACAGTGGTTCAAAAACTTCTGATGATGCAGCACCTCCTTCAAAGTAAGTTCAAAAGATTATCAAAACTTTAAAGACTTCTTTTTTCTTTCTACCTTATAAAGGGTTGCATGATGTTGTTTGATTAATAAAGAATATTTTTTTGACTTGCAGGGCTAAGATAGTAGGGTGGCCACCAATAAGATCTTACAGGAAGAACAGTTTACAAGAGGCTGAGGCTTCTGGGATTTATGTGAAAGTGAGTTTAGATGGAGCTCCTTACCTTAGGAAGATTGATTTGAGGGTCTATGGTGGATATGCACAACTTCTTAAAGCTTTGGAAAGCATGTTCAAGTTAACCATAGGTGATTATTCTGAAAAAGAAGGTTATAAAGGATCTGAATATGAACCTACATATGAAGATAAAGATGGTGATTGGATGTTAGTTGGAGATGTTCCATGGGAGTAAGTCCTTTTTTTCTCTCTATATATGCTTTTGAACTAATTTGATAGTTAATTAGCTATAATTAAATTAAATGAAATTAAACTGACATAACTATACTTTATTTTCTGCAGCATGTTTGTAACTTCTTGTAAAAGACTAAGAATCATGAAAGGAACAGAAGCTAGAGGTGTTTGA

Protein sequence

>MS.gene07404.t1

MENSVAYENDLNMKATELRLGLPGTEQNEEQKAKISNKRPLTETSKDSGSKTSDDAAPPSKAKIVGWPPIRSYRKNSLQEAEASGIYVKVSLDGAPYLRKIDLRVYGGYAQLLKALESMFKLTIGDYSEKEGYKGSEYEPTYEDKDGDWMLVGDVPWDMFVTSCKRLRIMKGTEARGV