AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene008586

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene008586.t1 MTR_3g031100 92.661 218 14 1 1 218 29 244 3.90e-138 387
MS.gene008586.t1 MTR_2g016210 41.429 210 122 1 1 209 29 238 2.79e-49 161
MS.gene008586.t1 MTR_3g031240 48.889 135 69 0 1 135 29 163 2.41e-39 134
MS.gene008586.t1 MTR_3g465410 43.262 141 80 0 1 141 1 141 3.17e-33 117
MS.gene008586.t1 MTR_3g467080 46.512 129 69 0 1 129 29 157 5.83e-33 117
MS.gene008586.t1 MTR_3g466980 41.447 152 78 3 1 148 29 173 8.26e-33 118
MS.gene008586.t1 MTR_4g063790 42.446 139 80 0 1 139 29 167 1.20e-32 116
MS.gene008586.t1 MTR_3g065100 32.512 203 129 3 4 200 32 232 2.27e-30 112
MS.gene008586.t1 MTR_4g032620 41.270 126 74 0 1 126 29 154 2.12e-28 107
MS.gene008586.t1 MTR_4g032290 41.463 123 72 0 6 128 34 156 7.72e-27 103
MS.gene008586.t1 MTR_4g031910 39.837 123 74 0 6 128 34 156 3.81e-25 98.6
MS.gene008586.t1 MTR_4g032260 38.211 123 76 0 6 128 34 156 5.60e-24 93.6
MS.gene008586.t1 MTR_3g466900 35.938 128 81 1 4 131 2 128 2.52e-23 91.3
MS.gene008586.t1 MTR_8g036130 36.429 140 87 1 1 138 29 168 2.77e-23 94.0
MS.gene008586.t1 MTR_2g035610 45.556 90 49 0 4 93 32 121 9.88e-23 89.4
MS.gene008586.t1 MTR_5g075380 37.302 126 78 1 1 126 29 153 2.01e-22 89.7
MS.gene008586.t1 MTR_3g466930 33.594 128 84 1 4 131 2 128 4.57e-21 85.5
MS.gene008586.t1 MTR_2g035580 40.769 130 76 1 2 131 30 158 1.39e-20 84.7
MS.gene008586.t1 MTR_3g466830 35.338 133 85 1 1 133 28 159 1.79e-20 84.7
MS.gene008586.t1 MTR_3g466890 33.077 130 86 1 2 131 29 157 2.18e-19 81.6
MS.gene008586.t1 MTR_1g077300 34.127 126 73 3 4 126 32 150 8.69e-17 74.7
MS.gene008586.t1 MTR_1g084950 30.952 126 85 2 4 129 32 155 8.28e-16 72.0
MS.gene008586.t1 MTR_1g077320 33.600 125 79 3 6 129 34 155 1.54e-15 71.6
MS.gene008586.t1 MTR_5g047580 29.457 129 89 2 1 129 29 155 8.97e-15 69.3
MS.gene008586.t1 MTR_1g090710 31.008 129 88 1 1 129 29 156 2.56e-14 68.2
MS.gene008586.t1 MTR_7g011950 32.258 124 82 2 6 129 34 155 2.58e-14 68.2
MS.gene008586.t1 MTR_1g077390 32.090 134 79 4 1 129 29 155 2.87e-14 68.2
MS.gene008586.t1 MTR_4g028720 31.452 124 83 2 6 129 34 155 4.81e-14 67.4
MS.gene008586.t1 MTR_1g090697 31.298 131 84 4 1 129 29 155 4.03e-13 65.1
MS.gene008586.t1 MTR_1g090783 33.333 132 84 3 1 131 28 156 1.22e-12 63.5
MS.gene008586.t1 MTR_6g018920 24.868 189 126 5 1 183 29 207 9.93e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene008586.t1 AT5G48670 39.024 123 74 1 5 127 33 154 1.27e-21 91.3
MS.gene008586.t1 AT5G27810 46.067 89 48 0 1 89 1 89 3.76e-20 82.8
MS.gene008586.t1 AT1G65300 31.959 194 119 5 2 183 29 221 3.01e-19 84.0
MS.gene008586.t1 AT3G05860 31.056 161 103 3 1 159 29 183 6.50e-18 79.7
MS.gene008586.t1 AT3G05860 33.129 163 94 4 1 161 29 178 8.32e-18 79.0
MS.gene008586.t1 AT3G05860 33.129 163 94 4 1 161 29 178 1.01e-17 79.7
MS.gene008586.t1 AT1G65330 42.697 89 51 0 1 89 28 116 8.95e-17 77.4
MS.gene008586.t1 AT5G26650 30.857 175 96 6 2 174 28 179 1.50e-15 74.7
MS.gene008586.t1 AT5G27960 26.471 170 113 3 2 159 28 197 7.82e-15 72.4
MS.gene008586.t1 AT5G26630 31.746 126 81 2 4 127 32 154 1.85e-14 70.1

Find 51 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGAGACTAACATGAATTA+TGG 0.238809 3.2:+56533670 MS.gene008586:CDS
GATTTCGACCCAAATGGATT+TGG 0.290310 3.2:+56533763 MS.gene008586:CDS
GCCCATGAGCAGGTTGTAAA+TGG 0.293188 3.2:+56533535 MS.gene008586:CDS
TGGTGGATCTATATAGCTTT+TGG 0.314881 3.2:+56533302 MS.gene008586:CDS
TTACAACCTGCTCATGGGCT+TGG 0.336276 3.2:-56533531 None:intergenic
ACCATGGTCAAGCAGAAGTT+TGG 0.357178 3.2:+56533206 MS.gene008586:CDS
TAGATTGATCCAAATCCATT+TGG 0.359545 3.2:-56533772 None:intergenic
TGCTTTCTCATACTTCTCTC+TGG 0.372187 3.2:-56533344 None:intergenic
TATAAAGGATGGAGATTTGT+TGG 0.375701 3.2:+56533567 MS.gene008586:CDS
TACAACCTGCTCATGGGCTT+GGG 0.383623 3.2:-56533530 None:intergenic
TTCAATAGGTATAATGAAGA+AGG 0.408359 3.2:+56533126 None:intergenic
TAATCAGAGGTTGGATTCAA+TGG 0.415635 3.2:+56533504 MS.gene008586:CDS
GAAGTATGAGAAAGCAATGA+TGG 0.430824 3.2:+56533351 MS.gene008586:CDS
AGATTGATCCAAATCCATTT+GGG 0.442780 3.2:-56533771 None:intergenic
AAATGGAGCTGAAACTATAA+AGG 0.448209 3.2:+56533552 MS.gene008586:CDS
CTCCATTTACAACCTGCTCA+TGG 0.464952 3.2:-56533537 None:intergenic
GAGGTATGTGTAATAATCTA+TGG 0.465342 3.2:+56533178 MS.gene008586:CDS
AATGAATTGAGCACCCTTTG+TGG 0.480151 3.2:+56533151 MS.gene008586:CDS
ATGAATTGAGCACCCTTTGT+GGG 0.482929 3.2:+56533152 MS.gene008586:CDS
AAGTGATGAGCAACTACCTA+TGG 0.489610 3.2:+56533699 MS.gene008586:CDS
GAAGGAAGTTAATCAGAGGT+TGG 0.490639 3.2:+56533495 MS.gene008586:CDS
TCAAAATCAAAATCATCAAA+TGG 0.490798 3.2:-56533736 None:intergenic
TTTAATTGATGACAATATGA+AGG 0.493575 3.2:+56533477 MS.gene008586:CDS
GAGCACCCTTTGTGGGGTAG+AGG 0.494310 3.2:+56533159 MS.gene008586:CDS
TCCATTTACAACCTGCTCAT+GGG 0.519104 3.2:-56533536 None:intergenic
CCTACTCGTAACTATAATGT+TGG 0.540983 3.2:+56533418 MS.gene008586:CDS
AGGAGATACACGGGATAACA+TGG 0.551769 3.2:+56533624 MS.gene008586:CDS
ACATACCTCTACCCCACAAA+GGG 0.555523 3.2:-56533164 None:intergenic
GGTAACCCAAGCCCATGAGC+AGG 0.557566 3.2:+56533525 MS.gene008586:CDS
GAAGTTTGGCCATCCGCGAT+AGG 0.559712 3.2:+56533220 MS.gene008586:CDS
GGAGCTGAAACTATAAAGGA+TGG 0.563914 3.2:+56533556 MS.gene008586:CDS
CGCTGAGTGGAGGAGATACA+CGG 0.569700 3.2:+56533614 MS.gene008586:CDS
GCCAAACTTCTGCTTGACCA+TGG 0.570779 3.2:-56533207 None:intergenic
TCATGTTAGTCTCATAACCA+TGG 0.584822 3.2:-56533663 None:intergenic
CATGTTAGTCTCATAACCAT+GGG 0.600840 3.2:-56533662 None:intergenic
GCTCAAGTGCCGCTGAGTGG+AGG 0.602451 3.2:+56533604 MS.gene008586:CDS
AATCATCAAATGGTGGCATG+AGG 0.619303 3.2:-56533726 None:intergenic
ATTGCTCAAGTGCCGCTGAG+TGG 0.623375 3.2:+56533601 MS.gene008586:CDS
AAATCAAAATCATCAAATGG+TGG 0.629108 3.2:-56533733 None:intergenic
CACATACCTCTACCCCACAA+AGG 0.629470 3.2:-56533165 None:intergenic
TACACGGGATAACATGGATG+AGG 0.629602 3.2:+56533630 MS.gene008586:CDS
TGAATTGAGCACCCTTTGTG+GGG 0.632793 3.2:+56533153 MS.gene008586:CDS
CCAACATTATAGTTACGAGT+AGG 0.633928 3.2:-56533418 None:intergenic
ATAATCTATGGTGAAAACCA+TGG 0.637538 3.2:+56533190 MS.gene008586:CDS
CGTTCTAGTCCTATCGCGGA+TGG 0.640692 3.2:-56533229 None:intergenic
GGTGGCATGAGGAAGTCCAT+AGG 0.659527 3.2:-56533715 None:intergenic
ATATGAAGGAAGTTAATCAG+AGG 0.681452 3.2:+56533491 MS.gene008586:CDS
GATGAGGTTGCTGATACCCA+TGG 0.682185 3.2:+56533646 MS.gene008586:CDS
CACACGTTCTAGTCCTATCG+CGG 0.694193 3.2:-56533233 None:intergenic
GCTGAGTGGAGGAGATACAC+GGG 0.698908 3.2:+56533615 MS.gene008586:CDS
CGTGTATCTCCTCCACTCAG+CGG 0.724307 3.2:-56533613 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAAATCAAAATCATCAAA+TGG - chr3.2:56533739-56533758 None:intergenic 20.0%
!!! TTTAATTGATGACAATATGA+AGG + chr3.2:56533477-56533496 MS.gene008586:CDS 20.0%
! AAATCAAAATCATCAAATGG+TGG - chr3.2:56533736-56533755 None:intergenic 25.0%
! ACTCAAAAGAAACAAAAAGA+TGG + chr3.2:56533282-56533301 MS.gene008586:CDS 25.0%
! TATGAGACTAACATGAATTA+TGG + chr3.2:56533670-56533689 MS.gene008586:CDS 25.0%
AAATGGAGCTGAAACTATAA+AGG + chr3.2:56533552-56533571 MS.gene008586:CDS 30.0%
AGATTGATCCAAATCCATTT+GGG - chr3.2:56533774-56533793 None:intergenic 30.0%
ATAATCTATGGTGAAAACCA+TGG + chr3.2:56533190-56533209 MS.gene008586:CDS 30.0%
ATATGAAGGAAGTTAATCAG+AGG + chr3.2:56533491-56533510 MS.gene008586:CDS 30.0%
CAAAAGAAACAAAAAGATGG+TGG + chr3.2:56533285-56533304 MS.gene008586:CDS 30.0%
GAGGTATGTGTAATAATCTA+TGG + chr3.2:56533178-56533197 MS.gene008586:CDS 30.0%
TAGATTGATCCAAATCCATT+TGG - chr3.2:56533775-56533794 None:intergenic 30.0%
TATAAAGGATGGAGATTTGT+TGG + chr3.2:56533567-56533586 MS.gene008586:CDS 30.0%
! TATATAGCTTTTGGATGCAA+AGG + chr3.2:56533311-56533330 MS.gene008586:CDS 30.0%
CCAACATTATAGTTACGAGT+AGG - chr3.2:56533421-56533440 None:intergenic 35.0%
CCTACTCGTAACTATAATGT+TGG + chr3.2:56533418-56533437 MS.gene008586:CDS 35.0%
GAAGTATGAGAAAGCAATGA+TGG + chr3.2:56533351-56533370 MS.gene008586:CDS 35.0%
TAATCAGAGGTTGGATTCAA+TGG + chr3.2:56533504-56533523 MS.gene008586:CDS 35.0%
! CATGTTAGTCTCATAACCAT+GGG - chr3.2:56533665-56533684 None:intergenic 35.0%
! TCATGTTAGTCTCATAACCA+TGG - chr3.2:56533666-56533685 None:intergenic 35.0%
!! TGGTGGATCTATATAGCTTT+TGG + chr3.2:56533302-56533321 MS.gene008586:CDS 35.0%
!!! GATTTTGATTTCGACCCAAA+TGG + chr3.2:56533757-56533776 MS.gene008586:CDS 35.0%
AAGTGATGAGCAACTACCTA+TGG + chr3.2:56533699-56533718 MS.gene008586:CDS 40.0%
AATCATCAAATGGTGGCATG+AGG - chr3.2:56533729-56533748 None:intergenic 40.0%
AATGAATTGAGCACCCTTTG+TGG + chr3.2:56533151-56533170 MS.gene008586:CDS 40.0%
ATGAATTGAGCACCCTTTGT+GGG + chr3.2:56533152-56533171 MS.gene008586:CDS 40.0%
GAAGGAAGTTAATCAGAGGT+TGG + chr3.2:56533495-56533514 MS.gene008586:CDS 40.0%
GGAGCTGAAACTATAAAGGA+TGG + chr3.2:56533556-56533575 MS.gene008586:CDS 40.0%
TCCATTTACAACCTGCTCAT+GGG - chr3.2:56533539-56533558 None:intergenic 40.0%
TGCTTTCTCATACTTCTCTC+TGG - chr3.2:56533347-56533366 None:intergenic 40.0%
! GATTTCGACCCAAATGGATT+TGG + chr3.2:56533763-56533782 MS.gene008586:CDS 40.0%
ACATACCTCTACCCCACAAA+GGG - chr3.2:56533167-56533186 None:intergenic 45.0%
ACCATGGTCAAGCAGAAGTT+TGG + chr3.2:56533206-56533225 MS.gene008586:CDS 45.0%
AGGAGATACACGGGATAACA+TGG + chr3.2:56533624-56533643 MS.gene008586:CDS 45.0%
CTCCATTTACAACCTGCTCA+TGG - chr3.2:56533540-56533559 None:intergenic 45.0%
TACACGGGATAACATGGATG+AGG + chr3.2:56533630-56533649 MS.gene008586:CDS 45.0%
TGAATTGAGCACCCTTTGTG+GGG + chr3.2:56533153-56533172 MS.gene008586:CDS 45.0%
CACACGTTCTAGTCCTATCG+CGG - chr3.2:56533236-56533255 None:intergenic 50.0%
CACATACCTCTACCCCACAA+AGG - chr3.2:56533168-56533187 None:intergenic 50.0%
GATGAGGTTGCTGATACCCA+TGG + chr3.2:56533646-56533665 MS.gene008586:CDS 50.0%
GCCAAACTTCTGCTTGACCA+TGG - chr3.2:56533210-56533229 None:intergenic 50.0%
GCCCATGAGCAGGTTGTAAA+TGG + chr3.2:56533535-56533554 MS.gene008586:CDS 50.0%
TACAACCTGCTCATGGGCTT+GGG - chr3.2:56533533-56533552 None:intergenic 50.0%
TTACAACCTGCTCATGGGCT+TGG - chr3.2:56533534-56533553 None:intergenic 50.0%
CGCTGAGTGGAGGAGATACA+CGG + chr3.2:56533614-56533633 MS.gene008586:CDS 55.0%
CGTGTATCTCCTCCACTCAG+CGG - chr3.2:56533616-56533635 None:intergenic 55.0%
CGTTCTAGTCCTATCGCGGA+TGG - chr3.2:56533232-56533251 None:intergenic 55.0%
GAAGTTTGGCCATCCGCGAT+AGG + chr3.2:56533220-56533239 MS.gene008586:CDS 55.0%
GCTGAGTGGAGGAGATACAC+GGG + chr3.2:56533615-56533634 MS.gene008586:CDS 55.0%
GGTGGCATGAGGAAGTCCAT+AGG - chr3.2:56533718-56533737 None:intergenic 55.0%
! ATTGCTCAAGTGCCGCTGAG+TGG + chr3.2:56533601-56533620 MS.gene008586:CDS 55.0%
GAGCACCCTTTGTGGGGTAG+AGG + chr3.2:56533159-56533178 MS.gene008586:CDS 60.0%
GGTAACCCAAGCCCATGAGC+AGG + chr3.2:56533525-56533544 MS.gene008586:CDS 60.0%
! GCTCAAGTGCCGCTGAGTGG+AGG + chr3.2:56533604-56533623 MS.gene008586:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 56533139 56533795 56533139 ID=MS.gene008586
chr3.2 mRNA 56533139 56533795 56533139 ID=MS.gene008586.t1;Parent=MS.gene008586
chr3.2 exon 56533139 56533795 56533139 ID=MS.gene008586.t1.exon1;Parent=MS.gene008586.t1
chr3.2 CDS 56533139 56533795 56533139 ID=cds.MS.gene008586.t1;Parent=MS.gene008586.t1
Gene Sequence

>MS.gene008586

ATGAAGAAGGCTAATGAATTGAGCACCCTTTGTGGGGTAGAGGTATGTGTAATAATCTATGGTGAAAACCATGGTCAAGCAGAAGTTTGGCCATCCGCGATAGGACTAGAACGTGTGTTGCACAAGTTTGAGAGTTTGTCTGAACTCAAAAGAAACAAAAAGATGGTGGATCTATATAGCTTTTGGATGCAAAGGATTGAAAAAGCCAGAGAGAAGTATGAGAAAGCAATGATGGAAAACAAGAAGAACGAAATGACTAATTTTATACGTCAATTTATTCCTACTCGTAACTATAATGTTGGTGATCTGAGCTTAAATGATATCAATTATCTGACGACTTTAATTGATGACAATATGAAGGAAGTTAATCAGAGGTTGGATTCAATGGTAACCCAAGCCCATGAGCAGGTTGTAAATGGAGCTGAAACTATAAAGGATGGAGATTTGTTGGCAAGTACAAACATTGCTCAAGTGCCGCTGAGTGGAGGAGATACACGGGATAACATGGATGAGGTTGCTGATACCCATGGTTATGAGACTAACATGAATTATGGTTTGCAAAGTGATGAGCAACTACCTATGGACTTCCTCATGCCACCATTTGATGATTTTGATTTTGATTTTGATTTCGACCCAAATGGATTTGGATCAATCTAG
Protein sequence

>MS.gene008586.t1

MKKANELSTLCGVEVCVIIYGENHGQAEVWPSAIGLERVLHKFESLSELKRNKKMVDLYSFWMQRIEKAREKYEKAMMENKKNEMTNFIRQFIPTRNYNVGDLSLNDINYLTTLIDDNMKEVNQRLDSMVTQAHEQVVNGAETIKDGDLLASTNIAQVPLSGGDTRDNMDEVADTHGYETNMNYGLQSDEQLPMDFLMPPFDDFDFDFDFDPNGFGSI