AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene025980


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene025980.t1 MTR_7g116340 98.256 172 3 0 1 172 1 172 6.74e-126 351
MS.gene025980.t1 MTR_4g075290 77.326 172 39 0 1 172 1 172 1.87e-100 286
MS.gene025980.t1 MTR_3g117750 76.190 168 40 0 5 172 13 180 1.62e-95 275
MS.gene025980.t1 MTR_3g463900 69.461 167 51 0 5 171 35 201 4.29e-84 246
MS.gene025980.t1 MTR_3g070500 67.857 168 54 0 5 172 65 232 6.70e-82 242
MS.gene025980.t1 MTR_7g095750 64.912 171 59 1 3 172 6 176 1.78e-76 240
MS.gene025980.t1 MTR_8g079690 64.000 175 59 3 1 172 1 174 7.88e-72 221
MS.gene025980.t1 MTR_1g085560 68.493 146 39 1 5 150 86 224 1.87e-69 211
MS.gene025980.t1 MTR_1g117010 59.649 171 58 3 5 171 78 241 2.73e-67 205
MS.gene025980.t1 MTR_1g117010 59.649 171 58 3 5 171 78 241 2.73e-67 205
MS.gene025980.t1 MTR_8g040180 59.064 171 66 3 3 171 17 185 3.47e-66 200
MS.gene025980.t1 MTR_7g110980 65.753 146 43 1 5 150 97 235 9.02e-66 202
MS.gene025980.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 9.20e-65 201
MS.gene025980.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 9.49e-65 201
MS.gene025980.t1 MTR_4g086760 59.538 173 68 2 1 171 1 173 1.06e-64 202
MS.gene025980.t1 MTR_3g070500 74.194 124 32 0 5 128 65 188 1.15e-64 196
MS.gene025980.t1 MTR_4g073650 54.762 168 75 1 5 171 47 214 1.05e-62 193
MS.gene025980.t1 MTR_3g107660 53.254 169 78 1 3 170 9 177 2.32e-51 176
MS.gene025980.t1 MTR_3g070500 73.737 99 26 0 5 103 65 163 4.82e-49 156
MS.gene025980.t1 MTR_3g070500 73.469 98 26 0 5 102 65 162 7.18e-49 155
MS.gene025980.t1 MTR_1g011980 51.479 169 80 2 3 170 6 173 1.42e-47 164
MS.gene025980.t1 MTR_2g085075 51.034 145 59 3 11 154 464 597 6.73e-37 134
MS.gene025980.t1 MTR_7g105220 49.286 140 59 4 18 156 19 147 8.62e-37 125
MS.gene025980.t1 MTR_8g036015 52.206 136 53 3 18 152 10 134 1.83e-36 124
MS.gene025980.t1 MTR_5g015500 49.333 150 63 5 18 165 314 452 3.06e-32 120
MS.gene025980.t1 MTR_5g015500 49.333 150 63 5 18 165 354 492 4.62e-32 120
MS.gene025980.t1 MTR_3g085705 60.638 94 32 3 57 150 27 115 1.48e-31 110
MS.gene025980.t1 MTR_2g023120 46.825 126 50 5 18 139 22 134 1.32e-21 90.9
MS.gene025980.t1 MTR_6g084140 34.591 159 83 5 18 166 27 174 6.16e-21 89.4
MS.gene025980.t1 MTR_6g084140 34.591 159 83 5 18 166 10 157 6.86e-21 89.0
MS.gene025980.t1 MTR_8g442420 33.962 159 84 5 18 166 10 157 1.19e-19 85.5
MS.gene025980.t1 MTR_4g111720 25.907 193 98 4 5 160 100 284 2.28e-12 63.9
MS.gene025980.t1 MTR_1g035360 30.556 144 83 6 12 154 82 209 3.23e-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.gene025980.t1 AT3G56070 83.626 171 28 0 1 171 1 171 2.03e-107 304
MS.gene025980.t1 AT3G56070 83.626 171 28 0 1 171 1 171 2.03e-107 304
MS.gene025980.t1 AT2G16600 78.947 171 36 0 2 172 3 173 2.16e-100 286
MS.gene025980.t1 AT2G21130 77.193 171 39 0 2 172 3 173 3.66e-99 283
MS.gene025980.t1 AT4G38740 74.419 172 44 0 1 172 1 172 4.80e-96 275
MS.gene025980.t1 AT4G34870 75.000 172 43 0 1 172 1 172 8.68e-95 272
MS.gene025980.t1 AT2G29960 70.060 167 50 0 5 171 33 199 1.08e-84 248
MS.gene025980.t1 AT2G29960 70.060 167 50 0 5 171 33 199 1.08e-84 248
MS.gene025980.t1 AT5G58710 69.461 167 51 0 5 171 36 202 2.09e-81 239
MS.gene025980.t1 AT2G16600 67.836 171 33 1 2 172 3 151 4.40e-78 229
MS.gene025980.t1 AT3G55920 64.881 168 59 0 5 172 60 227 1.00e-77 231
MS.gene025980.t1 AT3G63400 65.497 171 58 1 3 172 6 176 7.51e-76 232
MS.gene025980.t1 AT2G29960 65.269 167 48 1 5 171 33 189 3.21e-75 223
MS.gene025980.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.42e-74 232
MS.gene025980.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.42e-74 232
MS.gene025980.t1 AT3G63400 65.497 171 58 1 3 172 6 176 4.42e-74 232
MS.gene025980.t1 AT5G13120 61.988 171 54 3 5 171 91 254 6.79e-72 218
MS.gene025980.t1 AT5G13120 61.988 171 54 3 5 171 87 250 7.06e-72 217
MS.gene025980.t1 AT3G62030 69.863 146 37 1 5 150 95 233 1.00e-69 212
MS.gene025980.t1 AT3G62030 69.863 146 37 1 5 150 96 234 1.03e-69 212
MS.gene025980.t1 AT3G62030 69.863 146 37 1 5 150 149 287 5.15e-69 212
MS.gene025980.t1 AT2G15790 61.272 173 65 2 1 171 1 173 2.40e-67 209
MS.gene025980.t1 AT2G38730 59.649 171 65 3 3 171 31 199 1.43e-65 199
MS.gene025980.t1 AT4G34960 53.571 168 77 1 5 171 48 215 1.63e-61 190
MS.gene025980.t1 AT3G22920 55.114 176 67 6 1 172 1 168 6.52e-54 171
MS.gene025980.t1 AT4G34960 55.645 124 55 0 5 128 48 171 4.97e-48 154
MS.gene025980.t1 AT4G32420 49.112 169 85 1 3 170 6 174 1.81e-47 165
MS.gene025980.t1 AT4G32420 49.112 169 85 1 3 170 6 174 1.81e-47 165
MS.gene025980.t1 AT4G32420 49.112 169 85 1 3 170 6 174 1.81e-47 165
MS.gene025980.t1 AT4G32420 49.112 169 85 1 3 170 6 174 1.81e-47 165
MS.gene025980.t1 AT4G32420 49.682 157 78 1 3 158 6 162 3.06e-44 155
MS.gene025980.t1 AT2G36130 50.000 140 58 4 18 156 19 147 1.07e-37 127
MS.gene025980.t1 AT3G44600 49.045 157 67 4 11 165 478 623 2.56e-37 135
MS.gene025980.t1 AT1G01940 52.206 136 53 3 18 152 10 134 3.37e-37 126
MS.gene025980.t1 AT5G67530 48.667 150 64 5 18 165 353 491 4.06e-32 120
MS.gene025980.t1 AT4G33060 47.200 125 53 4 18 140 22 135 8.49e-28 108
MS.gene025980.t1 AT1G53720 39.130 138 64 5 18 146 10 136 9.34e-21 87.8
MS.gene025980.t1 AT1G53720 39.130 138 64 5 18 146 10 136 1.31e-20 88.2

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 7.1:+1656680 MS.gene025980:CDS
ATTCTTTCCATGGCAAATTC+TGG 0.225996 7.1:+1656602 MS.gene025980:CDS
ACTGGAGGAGAGTCTATATA+TGG 0.292463 7.1:+1656530 MS.gene025980:CDS
GAGAAGGTTGGTTCACAAAA+TGG 0.318577 7.1:+1656740 MS.gene025980:CDS
GGTAAACCTTTACACTATAA+AGG 0.338627 7.1:+1656440 MS.gene025980:CDS
CCTTTACACTATAAAGGTTC+TGG 0.340990 7.1:+1656446 MS.gene025980:CDS
AGAATATCAAAGAAAACCTT+TGG 0.366302 7.1:-1656302 None:intergenic
ATCAAGCCATTCAGTCTTTG+AGG 0.392504 7.1:-1656660 None:intergenic
TGCACAGGAGAAAGGGGTAT+TGG 0.393886 7.1:+1656410 MS.gene025980:CDS
TCAAAGACTGAATGGCTTGA+TGG 0.394746 7.1:+1656662 MS.gene025980:CDS
GCACAGGAGAAAGGGGTATT+GGG 0.401126 7.1:+1656411 MS.gene025980:CDS
AACTGAGAACCATTAGTATT+GGG 0.402674 7.1:-1656626 None:intergenic
AATTTCAAGCTGAAGCATAC+TGG 0.411931 7.1:+1656572 MS.gene025980:CDS
CGAAGGATACGATGTAGTTC+AGG 0.437134 7.1:+1656712 MS.gene025980:CDS
CCAGAACCTTTATAGTGTAA+AGG 0.437419 7.1:-1656446 None:intergenic
AAACTGAGAACCATTAGTAT+TGG 0.443961 7.1:-1656627 None:intergenic
TTTGTACCTCAAAGACTGAA+TGG 0.448049 7.1:+1656654 MS.gene025980:CDS
TTTACCAAAGGGAATGGTAC+TGG 0.450711 7.1:+1656512 MS.gene025980:CDS
AATTCTGGACCCAATACTAA+TGG 0.454102 7.1:+1656617 MS.gene025980:CDS
GGCACTCTGCACAGGAGAAA+GGG 0.455813 7.1:+1656403 MS.gene025980:CDS
TCCTCCAGTACCATTCCCTT+TGG 0.468424 7.1:-1656516 None:intergenic
GGGCACTCTGCACAGGAGAA+AGG 0.484529 7.1:+1656402 MS.gene025980:CDS
GCATGTTGTATTTGGAAAAG+TGG 0.496708 7.1:+1656688 MS.gene025980:CDS
AAATGGTAGGACATCAGAAC+AGG 0.503914 7.1:+1656757 MS.gene025980:CDS
ATTCCAGAGTTTATGTGTCA+AGG 0.523820 7.1:+1656482 MS.gene025980:CDS
TTGTGAACCAACCTTCTCCA+TGG 0.533815 7.1:-1656735 None:intergenic
TGTAACCATGTCAAATCCAA+AGG 0.535644 7.1:+1656286 None:intergenic
CTAATTGGAAGAATGAAAGC+TGG 0.537372 7.1:+1656323 MS.gene025980:CDS
TGGACCTGGTATTCTTTCCA+TGG 0.538902 7.1:+1656592 MS.gene025980:CDS
CCTCCTTGACACATAAACTC+TGG 0.550153 7.1:-1656485 None:intergenic
CTGGAGGAGAGTCTATATAT+GGG 0.556827 7.1:+1656531 MS.gene025980:CDS
AAGCTGAAGCATACTGGACC+TGG 0.564886 7.1:+1656578 MS.gene025980:CDS
ATACGATGTAGTTCAGGCCA+TGG 0.568695 7.1:+1656718 MS.gene025980:CDS
TGTAGTTCAGGCCATGGAGA+AGG 0.577243 7.1:+1656724 MS.gene025980:CDS
GAAAGCTGGAAAGATAGTAA+TGG 0.582740 7.1:+1656337 MS.gene025980:CDS
TTTGCCATGGAAAGAATACC+AGG 0.593087 7.1:-1656596 None:intergenic
GTTCAGGCCATGGAGAAGGT+TGG 0.594001 7.1:+1656728 MS.gene025980:CDS
GAAAACCTTTGGATTTGACA+TGG 0.607760 7.1:-1656291 None:intergenic
GTATTTGGAAAAGTGGTCGA+AGG 0.607981 7.1:+1656695 MS.gene025980:CDS
ATTGGGTCCAGAATTTGCCA+TGG 0.609063 7.1:-1656609 None:intergenic
CAGGTTGTCATCGAAGATTG+TGG 0.618674 7.1:+1656776 MS.gene025980:CDS
AGGTTGGTTCACAAAATGGT+AGG 0.628168 7.1:+1656744 MS.gene025980:CDS
GCACTCTGCACAGGAGAAAG+GGG 0.634116 7.1:+1656404 MS.gene025980:CDS
ACCAAAGGGAATGGTACTGG+AGG 0.652379 7.1:+1656515 MS.gene025980:CDS
GAAAGGGGTATTGGGCAATG+CGG 0.661531 7.1:+1656419 MS.gene025980:CDS
CCAGAGTTTATGTGTCAAGG+AGG 0.669137 7.1:+1656485 MS.gene025980:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAACAGCTGAAAATTTTA+GGG + chr7.1:1656382-1656401 MS.gene025980:CDS 20.0%
!!! GTTTTCTTTGATATTCTAAT+TGG + chr7.1:1656308-1656327 MS.gene025980:CDS 20.0%
!!! TAAAATTTTCAGCTGTTTTT+GGG - chr7.1:1656382-1656401 None:intergenic 20.0%
! AGAATATCAAAGAAAACCTT+TGG - chr7.1:1656305-1656324 None:intergenic 25.0%
!! CAAAAACAGCTGAAAATTTT+AGG + chr7.1:1656381-1656400 MS.gene025980:CDS 25.0%
!!! AAAATTTTCAGCTGTTTTTG+GGG - chr7.1:1656381-1656400 None:intergenic 25.0%
!!! CTAAAATTTTCAGCTGTTTT+TGG - chr7.1:1656383-1656402 None:intergenic 25.0%
AAACTGAGAACCATTAGTAT+TGG - chr7.1:1656630-1656649 None:intergenic 30.0%
AACTGAGAACCATTAGTATT+GGG - chr7.1:1656629-1656648 None:intergenic 30.0%
GGTAAACCTTTACACTATAA+AGG + chr7.1:1656440-1656459 MS.gene025980:CDS 30.0%
AATTCTGGACCCAATACTAA+TGG + chr7.1:1656617-1656636 MS.gene025980:CDS 35.0%
AATTTCAAGCTGAAGCATAC+TGG + chr7.1:1656572-1656591 MS.gene025980:CDS 35.0%
ATTCCAGAGTTTATGTGTCA+AGG + chr7.1:1656482-1656501 MS.gene025980:CDS 35.0%
ATTCTTTCCATGGCAAATTC+TGG + chr7.1:1656602-1656621 MS.gene025980:CDS 35.0%
CCAGAACCTTTATAGTGTAA+AGG - chr7.1:1656449-1656468 None:intergenic 35.0%
CCTTTACACTATAAAGGTTC+TGG + chr7.1:1656446-1656465 MS.gene025980:CDS 35.0%
CTAATTGGAAGAATGAAAGC+TGG + chr7.1:1656323-1656342 MS.gene025980:CDS 35.0%
GAAAGCTGGAAAGATAGTAA+TGG + chr7.1:1656337-1656356 MS.gene025980:CDS 35.0%
GCATGTTGTATTTGGAAAAG+TGG + chr7.1:1656688-1656707 MS.gene025980:CDS 35.0%
TTTGTACCTCAAAGACTGAA+TGG + chr7.1:1656654-1656673 MS.gene025980:CDS 35.0%
! AAGGAGGAGATTTTACCAAA+GGG + chr7.1:1656501-1656520 MS.gene025980:CDS 35.0%
! GATGGAAAGCATGTTGTATT+TGG + chr7.1:1656680-1656699 MS.gene025980:CDS 35.0%
AAATGGTAGGACATCAGAAC+AGG + chr7.1:1656757-1656776 MS.gene025980:CDS 40.0%
ACTGGAGGAGAGTCTATATA+TGG + chr7.1:1656530-1656549 MS.gene025980:CDS 40.0%
ATCAAGCCATTCAGTCTTTG+AGG - chr7.1:1656663-1656682 None:intergenic 40.0%
CTGGAGGAGAGTCTATATAT+GGG + chr7.1:1656531-1656550 MS.gene025980:CDS 40.0%
GTATTTGGAAAAGTGGTCGA+AGG + chr7.1:1656695-1656714 MS.gene025980:CDS 40.0%
TCAAAGACTGAATGGCTTGA+TGG + chr7.1:1656662-1656681 MS.gene025980:CDS 40.0%
TTTACCAAAGGGAATGGTAC+TGG + chr7.1:1656512-1656531 MS.gene025980:CDS 40.0%
TTTGCCATGGAAAGAATACC+AGG - chr7.1:1656599-1656618 None:intergenic 40.0%
! AGGTTGGTTCACAAAATGGT+AGG + chr7.1:1656744-1656763 MS.gene025980:CDS 40.0%
! CAAGGAGGAGATTTTACCAA+AGG + chr7.1:1656500-1656519 MS.gene025980:CDS 40.0%
! GAGAAGGTTGGTTCACAAAA+TGG + chr7.1:1656740-1656759 MS.gene025980:CDS 40.0%
! GGAGATTTTACCAAAGGGAA+TGG + chr7.1:1656506-1656525 MS.gene025980:CDS 40.0%
ATACGATGTAGTTCAGGCCA+TGG + chr7.1:1656718-1656737 MS.gene025980:CDS 45.0%
ATTGGGTCCAGAATTTGCCA+TGG - chr7.1:1656612-1656631 None:intergenic 45.0%
CAGGTTGTCATCGAAGATTG+TGG + chr7.1:1656776-1656795 MS.gene025980:CDS 45.0%
CCAGAGTTTATGTGTCAAGG+AGG + chr7.1:1656485-1656504 MS.gene025980:CDS 45.0%
CCTCCTTGACACATAAACTC+TGG - chr7.1:1656488-1656507 None:intergenic 45.0%
CGAAGGATACGATGTAGTTC+AGG + chr7.1:1656712-1656731 MS.gene025980:CDS 45.0%
TGGACCTGGTATTCTTTCCA+TGG + chr7.1:1656592-1656611 MS.gene025980:CDS 45.0%
TTGTGAACCAACCTTCTCCA+TGG - chr7.1:1656738-1656757 None:intergenic 45.0%
!!! AATTTTAGGGCACTCTGCAC+AGG + chr7.1:1656395-1656414 MS.gene025980:CDS 45.0%
AAGCTGAAGCATACTGGACC+TGG + chr7.1:1656578-1656597 MS.gene025980:CDS 50.0%
TCCTCCAGTACCATTCCCTT+TGG - chr7.1:1656519-1656538 None:intergenic 50.0%
TGTAGTTCAGGCCATGGAGA+AGG + chr7.1:1656724-1656743 MS.gene025980:CDS 50.0%
! ACCAAAGGGAATGGTACTGG+AGG + chr7.1:1656515-1656534 MS.gene025980:CDS 50.0%
! TGCACAGGAGAAAGGGGTAT+TGG + chr7.1:1656410-1656429 MS.gene025980:CDS 50.0%
!! GAAAGGGGTATTGGGCAATG+CGG + chr7.1:1656419-1656438 MS.gene025980:CDS 50.0%
!! GCACAGGAGAAAGGGGTATT+GGG + chr7.1:1656411-1656430 MS.gene025980:CDS 50.0%
GCACTCTGCACAGGAGAAAG+GGG + chr7.1:1656404-1656423 MS.gene025980:CDS 55.0%
GGCACTCTGCACAGGAGAAA+GGG + chr7.1:1656403-1656422 MS.gene025980:CDS 55.0%
GTTCAGGCCATGGAGAAGGT+TGG + chr7.1:1656728-1656747 MS.gene025980:CDS 55.0%
GGGCACTCTGCACAGGAGAA+AGG + chr7.1:1656402-1656421 MS.gene025980:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 1656293 1656811 1656293 ID=MS.gene025980
chr7.1 mRNA 1656293 1656811 1656293 ID=MS.gene025980.t1;Parent=MS.gene025980
chr7.1 exon 1656293 1656811 1656293 ID=MS.gene025980.t1.exon1;Parent=MS.gene025980.t1
chr7.1 CDS 1656293 1656811 1656293 ID=cds.MS.gene025980.t1;Parent=MS.gene025980.t1
Gene Sequence

>MS.gene025980

ATGTCAAATCCAAAGGTTTTCTTTGATATTCTAATTGGAAGAATGAAAGCTGGAAAGATAGTAATGGAGCTGTTTGCTGATGCTACCCCAAAAACAGCTGAAAATTTTAGGGCACTCTGCACAGGAGAAAGGGGTATTGGGCAATGCGGTAAACCTTTACACTATAAAGGTTCTGGTTTTCATCGTATTATTCCAGAGTTTATGTGTCAAGGAGGAGATTTTACCAAAGGGAATGGTACTGGAGGAGAGTCTATATATGGGTCTAAATTCGCTGACGAGAATTTCAAGCTGAAGCATACTGGACCTGGTATTCTTTCCATGGCAAATTCTGGACCCAATACTAATGGTTCTCAGTTTTTCATTTGTACCTCAAAGACTGAATGGCTTGATGGAAAGCATGTTGTATTTGGAAAAGTGGTCGAAGGATACGATGTAGTTCAGGCCATGGAGAAGGTTGGTTCACAAAATGGTAGGACATCAGAACAGGTTGTCATCGAAGATTGTGGACAAATTAGTTGA

Protein sequence

>MS.gene025980.t1

MSNPKVFFDILIGRMKAGKIVMELFADATPKTAENFRALCTGERGIGQCGKPLHYKGSGFHRIIPEFMCQGGDFTKGNGTGGESIYGSKFADENFKLKHTGPGILSMANSGPNTNGSQFFICTSKTEWLDGKHVVFGKVVEGYDVVQAMEKVGSQNGRTSEQVVIEDCGQIS