AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22872


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22872.t1 MTR_7g116340 98.837 172 2 0 1 172 1 172 2.32e-126 352
MS.gene22872.t1 MTR_4g075290 76.744 172 40 0 1 172 1 172 5.84e-100 285
MS.gene22872.t1 MTR_3g117750 75.595 168 41 0 5 172 13 180 4.26e-95 274
MS.gene22872.t1 MTR_3g463900 69.461 167 51 0 5 171 35 201 3.80e-84 246
MS.gene22872.t1 MTR_3g070500 67.857 168 54 0 5 172 65 232 6.34e-82 242
MS.gene22872.t1 MTR_7g095750 64.912 171 59 1 3 172 6 176 1.64e-76 240
MS.gene22872.t1 MTR_8g079690 64.000 175 59 3 1 172 1 174 6.08e-72 221
MS.gene22872.t1 MTR_1g085560 68.493 146 39 1 5 150 86 224 1.89e-69 211
MS.gene22872.t1 MTR_1g117010 59.649 171 58 3 5 171 78 241 2.88e-67 205
MS.gene22872.t1 MTR_1g117010 59.649 171 58 3 5 171 78 241 2.88e-67 205
MS.gene22872.t1 MTR_8g040180 59.064 171 66 3 3 171 17 185 6.62e-66 199
MS.gene22872.t1 MTR_7g110980 65.753 146 43 1 5 150 97 235 8.45e-66 202
MS.gene22872.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 6.29e-65 201
MS.gene22872.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 6.93e-65 202
MS.gene22872.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 7.76e-65 202
MS.gene22872.t1 MTR_3g070500 74.194 124 32 0 5 128 65 188 1.17e-64 196
MS.gene22872.t1 MTR_4g073650 54.762 168 75 1 5 171 47 214 9.66e-63 193
MS.gene22872.t1 MTR_3g107660 53.254 169 78 1 3 170 9 177 1.91e-51 176
MS.gene22872.t1 MTR_3g070500 73.737 99 26 0 5 103 65 163 4.41e-49 156
MS.gene22872.t1 MTR_3g070500 73.469 98 26 0 5 102 65 162 6.43e-49 156
MS.gene22872.t1 MTR_1g011980 51.479 169 80 2 3 170 6 173 1.17e-47 165
MS.gene22872.t1 MTR_2g085075 51.034 145 59 3 11 154 464 597 6.73e-37 134
MS.gene22872.t1 MTR_7g105220 49.286 140 59 4 18 156 19 147 7.99e-37 125
MS.gene22872.t1 MTR_8g036015 52.206 136 53 3 18 152 10 134 1.85e-36 124
MS.gene22872.t1 MTR_5g015500 49.333 150 63 5 18 165 314 452 2.41e-32 121
MS.gene22872.t1 MTR_5g015500 49.333 150 63 5 18 165 354 492 3.64e-32 120
MS.gene22872.t1 MTR_3g085705 60.638 94 32 3 57 150 27 115 1.93e-31 110
MS.gene22872.t1 MTR_2g023120 46.825 126 50 5 18 139 22 134 2.46e-21 90.1
MS.gene22872.t1 MTR_6g084140 34.591 159 83 5 18 166 27 174 9.15e-21 88.6
MS.gene22872.t1 MTR_6g084140 34.591 159 83 5 18 166 10 157 1.04e-20 88.6
MS.gene22872.t1 MTR_8g442420 33.962 159 84 5 18 166 10 157 1.99e-19 84.7
MS.gene22872.t1 MTR_4g111720 25.907 193 98 4 5 160 100 284 2.07e-12 64.3
MS.gene22872.t1 MTR_1g035360 30.556 144 83 6 12 154 82 209 3.07e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22872.t1 AT3G56070 83.626 171 28 0 1 171 1 171 1.46e-107 305
MS.gene22872.t1 AT3G56070 83.626 171 28 0 1 171 1 171 1.46e-107 305
MS.gene22872.t1 AT2G16600 78.947 171 36 0 2 172 3 173 1.96e-100 286
MS.gene22872.t1 AT2G21130 77.193 171 39 0 2 172 3 173 5.94e-99 283
MS.gene22872.t1 AT4G38740 74.419 172 44 0 1 172 1 172 9.18e-96 275
MS.gene22872.t1 AT4G34870 75.000 172 43 0 1 172 1 172 8.59e-95 272
MS.gene22872.t1 AT2G29960 70.060 167 50 0 5 171 33 199 1.01e-84 248
MS.gene22872.t1 AT2G29960 70.060 167 50 0 5 171 33 199 1.01e-84 248
MS.gene22872.t1 AT5G58710 69.461 167 51 0 5 171 36 202 1.87e-81 239
MS.gene22872.t1 AT2G16600 67.836 171 33 1 2 172 3 151 3.69e-78 229
MS.gene22872.t1 AT3G55920 64.881 168 59 0 5 172 60 227 8.99e-78 231
MS.gene22872.t1 AT3G63400 65.497 171 58 1 3 172 6 176 7.27e-76 232
MS.gene22872.t1 AT2G29960 65.269 167 48 1 5 171 33 189 2.97e-75 223
MS.gene22872.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.57e-74 232
MS.gene22872.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.57e-74 232
MS.gene22872.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.57e-74 232
MS.gene22872.t1 AT5G13120 61.988 171 54 3 5 171 87 250 6.13e-72 218
MS.gene22872.t1 AT5G13120 61.988 171 54 3 5 171 91 254 6.43e-72 218
MS.gene22872.t1 AT3G62030 69.863 146 37 1 5 150 95 233 8.71e-70 212
MS.gene22872.t1 AT3G62030 69.863 146 37 1 5 150 96 234 9.08e-70 212
MS.gene22872.t1 AT3G62030 69.863 146 37 1 5 150 149 287 4.99e-69 212
MS.gene22872.t1 AT2G15790 61.272 173 65 2 1 171 1 173 1.85e-67 209
MS.gene22872.t1 AT2G38730 59.649 171 65 3 3 171 31 199 2.66e-65 199
MS.gene22872.t1 AT4G34960 53.571 168 77 1 5 171 48 215 1.58e-61 190
MS.gene22872.t1 AT3G22920 55.114 176 67 6 1 172 1 168 3.91e-54 171
MS.gene22872.t1 AT4G34960 55.645 124 55 0 5 128 48 171 4.81e-48 154
MS.gene22872.t1 AT4G32420 49.704 169 84 1 3 170 6 174 5.75e-48 166
MS.gene22872.t1 AT4G32420 49.704 169 84 1 3 170 6 174 5.75e-48 166
MS.gene22872.t1 AT4G32420 49.704 169 84 1 3 170 6 174 5.75e-48 166
MS.gene22872.t1 AT4G32420 49.704 169 84 1 3 170 6 174 5.75e-48 166
MS.gene22872.t1 AT4G32420 50.318 157 77 1 3 158 6 162 9.87e-45 157
MS.gene22872.t1 AT2G36130 50.000 140 58 4 18 156 19 147 1.12e-37 127
MS.gene22872.t1 AT3G44600 49.045 157 67 4 11 165 478 623 2.37e-37 135
MS.gene22872.t1 AT1G01940 52.206 136 53 3 18 152 10 134 3.60e-37 126
MS.gene22872.t1 AT5G67530 48.667 150 64 5 18 165 353 491 3.17e-32 121
MS.gene22872.t1 AT4G33060 47.200 125 53 4 18 140 22 135 1.48e-27 107
MS.gene22872.t1 AT1G53720 39.130 138 64 5 18 146 10 136 1.66e-20 87.0
MS.gene22872.t1 AT1G53720 39.130 138 64 5 18 146 10 136 2.30e-20 87.4

Find 46 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGGAAAGCATGTTGTATT+TGG 0.221121 7.4:+1914754 MS.gene22872:CDS
ATTCTTTCCATGGCAAATTC+TGG 0.225996 7.4:+1914676 MS.gene22872:CDS
ACTGGAGGAGAGTCTATATA+TGG 0.292463 7.4:+1914604 MS.gene22872:CDS
GAGAAGGTTGGTTCACAAAA+TGG 0.318577 7.4:+1914814 MS.gene22872:CDS
GGTAAACCTTTACACTATAA+AGG 0.338627 7.4:+1914514 MS.gene22872:CDS
CCTTTACACTATAAAGGTTC+TGG 0.340990 7.4:+1914520 MS.gene22872:CDS
AGAATATCAAAGAAAACCTT+TGG 0.366302 7.4:-1914376 None:intergenic
TCAAAGACTCAATGGCTTGA+TGG 0.389006 7.4:+1914736 MS.gene22872:CDS
ATCAAGCCATTGAGTCTTTG+AGG 0.392504 7.4:-1914734 None:intergenic
TGCACAGGAGAAAGGGGTAT+TGG 0.393886 7.4:+1914484 MS.gene22872:CDS
GCACAGGAGAAAGGGGTATT+GGG 0.401126 7.4:+1914485 MS.gene22872:CDS
AACTGAGAACCATTAGTATT+GGG 0.402674 7.4:-1914700 None:intergenic
AATTTCAAGCTGAAGCATAC+TGG 0.411931 7.4:+1914646 MS.gene22872:CDS
CGAAGGATACGATGTAGTTC+AGG 0.437134 7.4:+1914786 MS.gene22872:CDS
CCAGAACCTTTATAGTGTAA+AGG 0.437419 7.4:-1914520 None:intergenic
AAACTGAGAACCATTAGTAT+TGG 0.443961 7.4:-1914701 None:intergenic
TTTACCAAAGGGAATGGTAC+TGG 0.450711 7.4:+1914586 MS.gene22872:CDS
TTTGTACCTCAAAGACTCAA+TGG 0.453659 7.4:+1914728 MS.gene22872:CDS
AATTCTGGACCCAATACTAA+TGG 0.454102 7.4:+1914691 MS.gene22872:CDS
GGCACTCTGCACAGGAGAAA+GGG 0.455813 7.4:+1914477 MS.gene22872:CDS
TCCTCCAGTACCATTCCCTT+TGG 0.468424 7.4:-1914590 None:intergenic
GGGCACTCTGCACAGGAGAA+AGG 0.484529 7.4:+1914476 MS.gene22872:CDS
GCATGTTGTATTTGGAAAAG+TGG 0.496708 7.4:+1914762 MS.gene22872:CDS
AAATGGTAGGACATCAGAAC+AGG 0.503914 7.4:+1914831 MS.gene22872:CDS
ATTCCAGAGTTTATGTGTCA+AGG 0.523820 7.4:+1914556 MS.gene22872:CDS
TTGTGAACCAACCTTCTCCA+TGG 0.533815 7.4:-1914809 None:intergenic
TGTAACCATGTCAAATCCAA+AGG 0.535644 7.4:+1914360 None:intergenic
CTAATTGGAAGAATGAAAGC+TGG 0.537372 7.4:+1914397 MS.gene22872:CDS
TGGACCTGGTATTCTTTCCA+TGG 0.538902 7.4:+1914666 MS.gene22872:CDS
CCTCCTTGACACATAAACTC+TGG 0.550153 7.4:-1914559 None:intergenic
CTGGAGGAGAGTCTATATAT+GGG 0.556827 7.4:+1914605 MS.gene22872:CDS
AAGCTGAAGCATACTGGACC+TGG 0.564886 7.4:+1914652 MS.gene22872:CDS
ATACGATGTAGTTCAGGCCA+TGG 0.568695 7.4:+1914792 MS.gene22872:CDS
TGTAGTTCAGGCCATGGAGA+AGG 0.577243 7.4:+1914798 MS.gene22872:CDS
GAAAGCTGGAAAGATAGTAA+TGG 0.582740 7.4:+1914411 MS.gene22872:CDS
TTTGCCATGGAAAGAATACC+AGG 0.593087 7.4:-1914670 None:intergenic
GTTCAGGCCATGGAGAAGGT+TGG 0.594001 7.4:+1914802 MS.gene22872:CDS
GAAAACCTTTGGATTTGACA+TGG 0.607760 7.4:-1914365 None:intergenic
GTATTTGGAAAAGTGGTCGA+AGG 0.607981 7.4:+1914769 MS.gene22872:CDS
ATTGGGTCCAGAATTTGCCA+TGG 0.609063 7.4:-1914683 None:intergenic
CAGGTTGTCATCGAAGATTG+TGG 0.618674 7.4:+1914850 MS.gene22872:CDS
AGGTTGGTTCACAAAATGGT+AGG 0.628168 7.4:+1914818 MS.gene22872:CDS
GCACTCTGCACAGGAGAAAG+GGG 0.634116 7.4:+1914478 MS.gene22872:CDS
ACCAAAGGGAATGGTACTGG+AGG 0.652379 7.4:+1914589 MS.gene22872:CDS
GAAAGGGGTATTGGGCAATG+CGG 0.661531 7.4:+1914493 MS.gene22872:CDS
CCAGAGTTTATGTGTCAAGG+AGG 0.669137 7.4:+1914559 MS.gene22872:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAACAGCTGAAAATTTTA+GGG + chr7.4:1914456-1914475 MS.gene22872:CDS 20.0%
!!! GTTTTCTTTGATATTCTAAT+TGG + chr7.4:1914382-1914401 MS.gene22872:CDS 20.0%
!!! TAAAATTTTCAGCTGTTTTT+GGG - chr7.4:1914456-1914475 None:intergenic 20.0%
! AGAATATCAAAGAAAACCTT+TGG - chr7.4:1914379-1914398 None:intergenic 25.0%
!! CAAAAACAGCTGAAAATTTT+AGG + chr7.4:1914455-1914474 MS.gene22872:CDS 25.0%
!!! AAAATTTTCAGCTGTTTTTG+GGG - chr7.4:1914455-1914474 None:intergenic 25.0%
!!! CTAAAATTTTCAGCTGTTTT+TGG - chr7.4:1914457-1914476 None:intergenic 25.0%
AAACTGAGAACCATTAGTAT+TGG - chr7.4:1914704-1914723 None:intergenic 30.0%
AACTGAGAACCATTAGTATT+GGG - chr7.4:1914703-1914722 None:intergenic 30.0%
GGTAAACCTTTACACTATAA+AGG + chr7.4:1914514-1914533 MS.gene22872:CDS 30.0%
AATTCTGGACCCAATACTAA+TGG + chr7.4:1914691-1914710 MS.gene22872:CDS 35.0%
AATTTCAAGCTGAAGCATAC+TGG + chr7.4:1914646-1914665 MS.gene22872:CDS 35.0%
ATTCCAGAGTTTATGTGTCA+AGG + chr7.4:1914556-1914575 MS.gene22872:CDS 35.0%
ATTCTTTCCATGGCAAATTC+TGG + chr7.4:1914676-1914695 MS.gene22872:CDS 35.0%
CCAGAACCTTTATAGTGTAA+AGG - chr7.4:1914523-1914542 None:intergenic 35.0%
CCTTTACACTATAAAGGTTC+TGG + chr7.4:1914520-1914539 MS.gene22872:CDS 35.0%
CTAATTGGAAGAATGAAAGC+TGG + chr7.4:1914397-1914416 MS.gene22872:CDS 35.0%
GAAAGCTGGAAAGATAGTAA+TGG + chr7.4:1914411-1914430 MS.gene22872:CDS 35.0%
GCATGTTGTATTTGGAAAAG+TGG + chr7.4:1914762-1914781 MS.gene22872:CDS 35.0%
TTTGTACCTCAAAGACTCAA+TGG + chr7.4:1914728-1914747 MS.gene22872:CDS 35.0%
! AAGGAGGAGATTTTACCAAA+GGG + chr7.4:1914575-1914594 MS.gene22872:CDS 35.0%
! GATGGAAAGCATGTTGTATT+TGG + chr7.4:1914754-1914773 MS.gene22872:CDS 35.0%
AAATGGTAGGACATCAGAAC+AGG + chr7.4:1914831-1914850 MS.gene22872:CDS 40.0%
ACTGGAGGAGAGTCTATATA+TGG + chr7.4:1914604-1914623 MS.gene22872:CDS 40.0%
ATCAAGCCATTGAGTCTTTG+AGG - chr7.4:1914737-1914756 None:intergenic 40.0%
CTGGAGGAGAGTCTATATAT+GGG + chr7.4:1914605-1914624 MS.gene22872:CDS 40.0%
GTATTTGGAAAAGTGGTCGA+AGG + chr7.4:1914769-1914788 MS.gene22872:CDS 40.0%
TCAAAGACTCAATGGCTTGA+TGG + chr7.4:1914736-1914755 MS.gene22872:CDS 40.0%
TTTACCAAAGGGAATGGTAC+TGG + chr7.4:1914586-1914605 MS.gene22872:CDS 40.0%
TTTGCCATGGAAAGAATACC+AGG - chr7.4:1914673-1914692 None:intergenic 40.0%
! AGGTTGGTTCACAAAATGGT+AGG + chr7.4:1914818-1914837 MS.gene22872:CDS 40.0%
! CAAGGAGGAGATTTTACCAA+AGG + chr7.4:1914574-1914593 MS.gene22872:CDS 40.0%
! GAGAAGGTTGGTTCACAAAA+TGG + chr7.4:1914814-1914833 MS.gene22872:CDS 40.0%
! GGAGATTTTACCAAAGGGAA+TGG + chr7.4:1914580-1914599 MS.gene22872:CDS 40.0%
ATACGATGTAGTTCAGGCCA+TGG + chr7.4:1914792-1914811 MS.gene22872:CDS 45.0%
ATTGGGTCCAGAATTTGCCA+TGG - chr7.4:1914686-1914705 None:intergenic 45.0%
CAGGTTGTCATCGAAGATTG+TGG + chr7.4:1914850-1914869 MS.gene22872:CDS 45.0%
CCAGAGTTTATGTGTCAAGG+AGG + chr7.4:1914559-1914578 MS.gene22872:CDS 45.0%
CCTCCTTGACACATAAACTC+TGG - chr7.4:1914562-1914581 None:intergenic 45.0%
CGAAGGATACGATGTAGTTC+AGG + chr7.4:1914786-1914805 MS.gene22872:CDS 45.0%
TGGACCTGGTATTCTTTCCA+TGG + chr7.4:1914666-1914685 MS.gene22872:CDS 45.0%
TTGTGAACCAACCTTCTCCA+TGG - chr7.4:1914812-1914831 None:intergenic 45.0%
!!! AATTTTAGGGCACTCTGCAC+AGG + chr7.4:1914469-1914488 MS.gene22872:CDS 45.0%
AAGCTGAAGCATACTGGACC+TGG + chr7.4:1914652-1914671 MS.gene22872:CDS 50.0%
TCCTCCAGTACCATTCCCTT+TGG - chr7.4:1914593-1914612 None:intergenic 50.0%
TGTAGTTCAGGCCATGGAGA+AGG + chr7.4:1914798-1914817 MS.gene22872:CDS 50.0%
! ACCAAAGGGAATGGTACTGG+AGG + chr7.4:1914589-1914608 MS.gene22872:CDS 50.0%
! TGCACAGGAGAAAGGGGTAT+TGG + chr7.4:1914484-1914503 MS.gene22872:CDS 50.0%
!! GAAAGGGGTATTGGGCAATG+CGG + chr7.4:1914493-1914512 MS.gene22872:CDS 50.0%
!! GCACAGGAGAAAGGGGTATT+GGG + chr7.4:1914485-1914504 MS.gene22872:CDS 50.0%
GCACTCTGCACAGGAGAAAG+GGG + chr7.4:1914478-1914497 MS.gene22872:CDS 55.0%
GGCACTCTGCACAGGAGAAA+GGG + chr7.4:1914477-1914496 MS.gene22872:CDS 55.0%
GTTCAGGCCATGGAGAAGGT+TGG + chr7.4:1914802-1914821 MS.gene22872:CDS 55.0%
GGGCACTCTGCACAGGAGAA+AGG + chr7.4:1914476-1914495 MS.gene22872:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 1914367 1914885 1914367 ID=MS.gene22872
chr7.4 mRNA 1914367 1914885 1914367 ID=MS.gene22872.t1;Parent=MS.gene22872
chr7.4 exon 1914367 1914885 1914367 ID=MS.gene22872.t1.exon1;Parent=MS.gene22872.t1
chr7.4 CDS 1914367 1914885 1914367 ID=cds.MS.gene22872.t1;Parent=MS.gene22872.t1
Gene Sequence

>MS.gene22872

ATGTCAAATCCAAAGGTTTTCTTTGATATTCTAATTGGAAGAATGAAAGCTGGAAAGATAGTAATGGAGCTGTTTGCTGATGCTACCCCAAAAACAGCTGAAAATTTTAGGGCACTCTGCACAGGAGAAAGGGGTATTGGGCAATGCGGTAAACCTTTACACTATAAAGGTTCTGGTTTTCATCGTATTATTCCAGAGTTTATGTGTCAAGGAGGAGATTTTACCAAAGGGAATGGTACTGGAGGAGAGTCTATATATGGGTCTAAATTCGCTGACGAGAATTTCAAGCTGAAGCATACTGGACCTGGTATTCTTTCCATGGCAAATTCTGGACCCAATACTAATGGTTCTCAGTTTTTCATTTGTACCTCAAAGACTCAATGGCTTGATGGAAAGCATGTTGTATTTGGAAAAGTGGTCGAAGGATACGATGTAGTTCAGGCCATGGAGAAGGTTGGTTCACAAAATGGTAGGACATCAGAACAGGTTGTCATCGAAGATTGTGGACAAATTAGTTGA

Protein sequence

>MS.gene22872.t1

MSNPKVFFDILIGRMKAGKIVMELFADATPKTAENFRALCTGERGIGQCGKPLHYKGSGFHRIIPEFMCQGGDFTKGNGTGGESIYGSKFADENFKLKHTGPGILSMANSGPNTNGSQFFICTSKTQWLDGKHVVFGKVVEGYDVVQAMEKVGSQNGRTSEQVVIEDCGQIS