AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene020329

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020329.t1 MTR_7g096220 94.565 184 10 0 18 201 18 201 1.27e-124 350
MS.gene020329.t1 MTR_1g070480 56.784 199 79 3 3 201 2 193 6.15e-62 191
MS.gene020329.t1 MTR_5g083490 40.000 195 106 4 5 189 10 203 1.75e-38 132
MS.gene020329.t1 MTR_2g100260 45.333 150 76 2 32 176 30 178 5.82e-38 130
MS.gene020329.t1 MTR_1g080760 54.430 158 64 2 39 193 35 187 2.48e-36 125
MS.gene020329.t1 MTR_2g100270 49.133 173 84 2 10 178 3 175 2.14e-34 120
MS.gene020329.t1 MTR_4g014060 38.650 163 98 1 36 196 57 219 6.94e-34 120
MS.gene020329.t1 MTR_0562s0010 38.650 163 98 1 36 196 57 219 6.94e-34 120
MS.gene020329.t1 MTR_6g092690 40.373 161 92 3 39 197 37 195 1.43e-33 119
MS.gene020329.t1 MTR_8g016150 48.765 162 81 2 11 170 5 166 5.70e-33 117
MS.gene020329.t1 MTR_3g012070 56.842 95 38 3 101 194 31 123 1.42e-19 82.4
MS.gene020329.t1 MTR_1g093090 38.854 157 93 2 36 189 20 176 1.62e-19 82.0
MS.gene020329.t1 MTR_3g031070 36.879 141 87 1 38 176 28 168 7.10e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020329.t1 AT1G55190 43.353 173 93 2 10 177 3 175 4.85e-43 143
MS.gene020329.t1 AT1G04260 40.361 166 99 0 30 195 12 177 1.20e-41 139
MS.gene020329.t1 AT1G08770 41.566 166 95 1 28 191 37 202 3.85e-40 136
MS.gene020329.t1 AT5G07110 43.333 150 83 1 35 182 41 190 2.92e-37 129
MS.gene020329.t1 AT3G13720 41.040 173 97 2 10 177 3 175 4.96e-37 127
MS.gene020329.t1 AT3G13710 42.254 142 82 0 36 177 34 175 2.04e-36 126
MS.gene020329.t1 AT2G38360 37.566 189 106 5 12 189 19 206 6.21e-36 125
MS.gene020329.t1 AT2G40380 44.156 154 83 2 38 189 46 198 3.62e-35 123
MS.gene020329.t1 AT5G01640 38.158 152 91 2 39 188 55 205 1.10e-34 122
MS.gene020329.t1 AT3G56110 40.397 151 88 1 36 184 42 192 1.67e-33 119
MS.gene020329.t1 AT3G56110 40.397 151 88 1 36 184 42 192 1.67e-33 119
MS.gene020329.t1 AT3G56110 40.397 151 88 1 36 184 42 192 1.67e-33 119
MS.gene020329.t1 AT3G56110 40.397 151 88 1 36 184 42 192 1.67e-33 119
MS.gene020329.t1 AT1G17700 39.053 169 99 2 12 176 6 174 1.53e-31 113
MS.gene020329.t1 AT5G05380 43.046 151 84 1 36 184 45 195 2.38e-31 114
MS.gene020329.t1 AT5G05380 43.046 151 84 1 36 184 96 246 6.15e-31 114
MS.gene020329.t1 AT5G05380 43.046 151 84 1 36 184 88 238 6.39e-31 114
MS.gene020329.t1 AT5G05380 43.046 151 84 1 36 184 112 262 1.29e-30 113
MS.gene020329.t1 AT4G29658 38.028 142 87 1 36 176 32 173 2.33e-24 95.1
MS.gene020329.t1 AT5G56230 31.788 151 102 1 36 185 33 183 4.94e-23 91.7
MS.gene020329.t1 AT1G55640 34.266 143 94 0 34 176 34 176 2.28e-22 89.7
MS.gene020329.t1 AT4G29658 37.963 108 66 1 70 176 3 110 1.93e-13 64.7
MS.gene020329.t1 AT4G00005 31.000 100 67 1 61 158 2 101 9.39e-11 57.4

Find 60 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGGGCGTGAGATGAAATT+TGG 0.290458 7.2:-13997501 None:intergenic
GATTGCTTAATTCGTTTGTT+GGG 0.318088 7.2:+13997979 MS.gene020329:CDS
AAAATAAAGAACCTATATTA+AGG 0.327117 7.2:-13998033 None:intergenic
CGCGTGGCGGAGAGGGGTTT+TGG 0.349042 7.2:-13997528 None:intergenic
GGATTGCTTAATTCGTTTGT+TGG 0.355051 7.2:+13997978 MS.gene020329:CDS
GTGGCTTCGGTGAGAGAGTA+TGG 0.355861 7.2:-13997594 None:intergenic
TCTCCGCCACGCGCCGTCCA+TGG 0.370614 7.2:+13997538 MS.gene020329:CDS
TTGGGTGAATGTGTTGGTTT+CGG 0.377231 7.2:+13997866 MS.gene020329:CDS
TGGACGGCGCGTGGCGGAGA+GGG 0.393049 7.2:-13997535 None:intergenic
GAATGTGTTGGTTTCGGTTG+TGG 0.404968 7.2:+13997872 MS.gene020329:CDS
TTGTGTTGCATGGTGCGTTT+AGG 0.406968 7.2:+13997910 MS.gene020329:CDS
GACGAACCGATTGTTCTGTT+TGG 0.413004 7.2:+13997768 MS.gene020329:CDS
CTTCACGCGCGAGGTGGCTT+CGG 0.424427 7.2:-13997607 None:intergenic
TCTTGATCACACTGATAGCT+TGG 0.436154 7.2:+13997724 MS.gene020329:CDS
CTCCGCCACGCGCCGTCCAT+GGG 0.449853 7.2:+13997539 MS.gene020329:CDS
GGAGGAATGGAATTTGATGA+TGG 0.455858 7.2:-13997480 None:intergenic
TTCGGTTGTGGTTGGTGTTG+TGG 0.456074 7.2:+13997884 MS.gene020329:CDS
GTTGTGGTTGTTGTGTTGCA+TGG 0.460537 7.2:+13997900 MS.gene020329:CDS
TTCTGCGGCGGTGCTTGCGG+CGG 0.469986 7.2:+13997812 MS.gene020329:CDS
AAGAAGACGATGATTGAGAT+AGG 0.475530 7.2:-13997705 None:intergenic
ACCCCTACAAAACGTGGTGC+AGG 0.490203 7.2:+13998005 MS.gene020329:CDS
AGCTTCTGCGGCGGTGCTTG+CGG 0.491539 7.2:+13997809 MS.gene020329:CDS
TGGTGTTTGGGTGAATGTGT+TGG 0.494101 7.2:+13997860 MS.gene020329:CDS
TGAGATGAAATTTGGAGGAA+TGG 0.499497 7.2:-13997493 None:intergenic
GGAATAAGACGAAGAGGATG+AGG 0.506318 7.2:-13997665 None:intergenic
ACACGGCCAAACAGAACAAT+CGG 0.514431 7.2:-13997774 None:intergenic
ATTGCTTAATTCGTTTGTTG+GGG 0.514787 7.2:+13997980 MS.gene020329:CDS
TCTTATTCCTCAGTCTCCTA+TGG 0.515363 7.2:+13997679 MS.gene020329:CDS
ATGGACGGCGCGTGGCGGAG+AGG 0.522247 7.2:-13997536 None:intergenic
GTGTTGGTTTCGGTTGTGGT+TGG 0.533999 7.2:+13997876 MS.gene020329:CDS
GATGAACATGAAGGGTATGA+TGG 0.534737 7.2:+13997954 MS.gene020329:CDS
GAGTACAGAGGATTTGTATG+TGG 0.534977 7.2:+13997932 MS.gene020329:CDS
GGACGGCGCGTGGCGGAGAG+GGG 0.537542 7.2:-13997534 None:intergenic
TTCTTCCCATGGACGGCGCG+TGG 0.540922 7.2:-13997544 None:intergenic
GAGGAATGGAATTTGATGAT+GGG 0.542880 7.2:-13997479 None:intergenic
TGCAGGGTATACCTTAATAT+AGG 0.553653 7.2:+13998022 MS.gene020329:CDS
GGGCGTGAGATGAAATTTGG+AGG 0.564375 7.2:-13997498 None:intergenic
TTCCCATGGACGGCGCGTGG+CGG 0.568324 7.2:-13997541 None:intergenic
GAACATGAAGGGTATGATGG+AGG 0.570438 7.2:+13997957 MS.gene020329:CDS
GGTGCTTGCGGCGGTGACTG+TGG 0.576471 7.2:+13997821 MS.gene020329:CDS
GTTACGCTTCACGCGCGAGG+TGG 0.594481 7.2:-13997613 None:intergenic
GAGAGAGTATGGACGTGTGA+AGG 0.602366 7.2:-13997583 None:intergenic
AGTGCGAAAACTTCTTCCCA+TGG 0.611042 7.2:-13997555 None:intergenic
GACTGAGGAATAAGACGAAG+AGG 0.612998 7.2:-13997671 None:intergenic
TTGTATGTGGATGAACATGA+AGG 0.615757 7.2:+13997945 MS.gene020329:CDS
TGATTGAGATAGGATGCCAT+AGG 0.623237 7.2:-13997695 None:intergenic
CGAAAACTTCTTCCCATGGA+CGG 0.634534 7.2:-13997551 None:intergenic
TAGGATGCCATAGGAGACTG+AGG 0.641152 7.2:-13997686 None:intergenic
GATGTTACGCTTCACGCGCG+AGG 0.644346 7.2:-13997616 None:intergenic
CCCCTACAAAACGTGGTGCA+GGG 0.646335 7.2:+13998006 MS.gene020329:CDS
ACAGAACAATCGGTTCGTCA+CGG 0.650504 7.2:-13997764 None:intergenic
AAGCTCTATCATCGACAACA+CGG 0.654426 7.2:-13997791 None:intergenic
GCTTGCGGCGGTGACTGTGG+TGG 0.673252 7.2:+13997824 MS.gene020329:CDS
TTGCTTAATTCGTTTGTTGG+GGG 0.680040 7.2:+13997981 MS.gene020329:CDS
GGGAGAGAACTGTAATGAGG+TGG 0.684799 7.2:-13997459 None:intergenic
TGTCGATGATAGAGCTTCTG+CGG 0.689430 7.2:+13997797 MS.gene020329:CDS
GATGGGAGAGAACTGTAATG+AGG 0.691558 7.2:-13997462 None:intergenic
CGATGATAGAGCTTCTGCGG+CGG 0.707409 7.2:+13997800 MS.gene020329:CDS
TGGTGCGTTTAGGAGTACAG+AGG 0.718243 7.2:+13997920 MS.gene020329:CDS
TGTATGTGGATGAACATGAA+GGG 0.731483 7.2:+13997946 MS.gene020329:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GATTGCTTAATTCGTTTGTT+GGG + chr7.2:13997979-13997998 MS.gene020329:CDS 30.0%
! ATTGCTTAATTCGTTTGTTG+GGG + chr7.2:13997980-13997999 MS.gene020329:CDS 30.0%
AAGAAGACGATGATTGAGAT+AGG - chr7.2:13997708-13997727 None:intergenic 35.0%
GGATTGCTTAATTCGTTTGT+TGG + chr7.2:13997978-13997997 MS.gene020329:CDS 35.0%
TGAGATGAAATTTGGAGGAA+TGG - chr7.2:13997496-13997515 None:intergenic 35.0%
TGTATGTGGATGAACATGAA+GGG + chr7.2:13997946-13997965 MS.gene020329:CDS 35.0%
TTGTATGTGGATGAACATGA+AGG + chr7.2:13997945-13997964 MS.gene020329:CDS 35.0%
! GAGGAATGGAATTTGATGAT+GGG - chr7.2:13997482-13997501 None:intergenic 35.0%
! TTGCTTAATTCGTTTGTTGG+GGG + chr7.2:13997981-13998000 MS.gene020329:CDS 35.0%
!!! GTTAGCTTTTACTGGTGTTT+GGG + chr7.2:13997848-13997867 MS.gene020329:CDS 35.0%
AAGCTCTATCATCGACAACA+CGG - chr7.2:13997794-13997813 None:intergenic 40.0%
GAGTACAGAGGATTTGTATG+TGG + chr7.2:13997932-13997951 MS.gene020329:CDS 40.0%
GGAGGAATGGAATTTGATGA+TGG - chr7.2:13997483-13997502 None:intergenic 40.0%
TCTTATTCCTCAGTCTCCTA+TGG + chr7.2:13997679-13997698 MS.gene020329:CDS 40.0%
TCTTGATCACACTGATAGCT+TGG + chr7.2:13997724-13997743 MS.gene020329:CDS 40.0%
TGATTGAGATAGGATGCCAT+AGG - chr7.2:13997698-13997717 None:intergenic 40.0%
! GATGAACATGAAGGGTATGA+TGG + chr7.2:13997954-13997973 MS.gene020329:CDS 40.0%
!! TTGGGTGAATGTGTTGGTTT+CGG + chr7.2:13997866-13997885 MS.gene020329:CDS 40.0%
!!! CGTTAGCTTTTACTGGTGTT+TGG + chr7.2:13997847-13997866 MS.gene020329:CDS 40.0%
ACACGGCCAAACAGAACAAT+CGG - chr7.2:13997777-13997796 None:intergenic 45.0%
AGTGCGAAAACTTCTTCCCA+TGG - chr7.2:13997558-13997577 None:intergenic 45.0%
CGAAAACTTCTTCCCATGGA+CGG - chr7.2:13997554-13997573 None:intergenic 45.0%
GACGAACCGATTGTTCTGTT+TGG + chr7.2:13997768-13997787 MS.gene020329:CDS 45.0%
GACTGAGGAATAAGACGAAG+AGG - chr7.2:13997674-13997693 None:intergenic 45.0%
GATGGGAGAGAACTGTAATG+AGG - chr7.2:13997465-13997484 None:intergenic 45.0%
GGAATAAGACGAAGAGGATG+AGG - chr7.2:13997668-13997687 None:intergenic 45.0%
GTTGTGGTTGTTGTGTTGCA+TGG + chr7.2:13997900-13997919 MS.gene020329:CDS 45.0%
TGGTGTTTGGGTGAATGTGT+TGG + chr7.2:13997860-13997879 MS.gene020329:CDS 45.0%
TGTCGATGATAGAGCTTCTG+CGG + chr7.2:13997797-13997816 MS.gene020329:CDS 45.0%
TTGTGTTGCATGGTGCGTTT+AGG + chr7.2:13997910-13997929 MS.gene020329:CDS 45.0%
! GAACATGAAGGGTATGATGG+AGG + chr7.2:13997957-13997976 MS.gene020329:CDS 45.0%
!! ACAGAACAATCGGTTCGTCA+CGG - chr7.2:13997767-13997786 None:intergenic 45.0%
!! GAATGTGTTGGTTTCGGTTG+TGG + chr7.2:13997872-13997891 MS.gene020329:CDS 45.0%
GGGAGAGAACTGTAATGAGG+TGG - chr7.2:13997462-13997481 None:intergenic 50.0%
GGGCGTGAGATGAAATTTGG+AGG - chr7.2:13997501-13997520 None:intergenic 50.0%
GTGGGGCGTGAGATGAAATT+TGG - chr7.2:13997504-13997523 None:intergenic 50.0%
TAGGATGCCATAGGAGACTG+AGG - chr7.2:13997689-13997708 None:intergenic 50.0%
! ACCCTGCACCACGTTTTGTA+GGG - chr7.2:13998010-13998029 None:intergenic 50.0%
! GAGAGAGTATGGACGTGTGA+AGG - chr7.2:13997586-13997605 None:intergenic 50.0%
! TACCCTGCACCACGTTTTGT+AGG - chr7.2:13998011-13998030 None:intergenic 50.0%
! TGGTGCGTTTAGGAGTACAG+AGG + chr7.2:13997920-13997939 MS.gene020329:CDS 50.0%
!! GTGTTGGTTTCGGTTGTGGT+TGG + chr7.2:13997876-13997895 MS.gene020329:CDS 50.0%
!! TTCGGTTGTGGTTGGTGTTG+TGG + chr7.2:13997884-13997903 MS.gene020329:CDS 50.0%
!!! GTGGTGGCGTTAGCTTTTAC+TGG + chr7.2:13997840-13997859 MS.gene020329:CDS 50.0%
ACCCCTACAAAACGTGGTGC+AGG + chr7.2:13998005-13998024 MS.gene020329:CDS 55.0%
CCCCTACAAAACGTGGTGCA+GGG + chr7.2:13998006-13998025 MS.gene020329:CDS 55.0%
CGATGATAGAGCTTCTGCGG+CGG + chr7.2:13997800-13997819 MS.gene020329:CDS 55.0%
GTGGCTTCGGTGAGAGAGTA+TGG - chr7.2:13997597-13997616 None:intergenic 55.0%
! CCCTGCACCACGTTTTGTAG+GGG - chr7.2:13998009-13998028 None:intergenic 55.0%
!! AGAGGGGTTTTGGTGTGGTG+GGG - chr7.2:13997521-13997540 None:intergenic 55.0%
!! GAGAGGGGTTTTGGTGTGGT+GGG - chr7.2:13997522-13997541 None:intergenic 55.0%
GATGTTACGCTTCACGCGCG+AGG - chr7.2:13997619-13997638 None:intergenic 60.0%
!! GGAGAGGGGTTTTGGTGTGG+TGG - chr7.2:13997523-13997542 None:intergenic 60.0%
!! GGGGGTACCCCTACAAAACG+TGG + chr7.2:13997999-13998018 MS.gene020329:CDS 60.0%
AGCTTCTGCGGCGGTGCTTG+CGG + chr7.2:13997809-13997828 MS.gene020329:CDS 65.0%
CTTCACGCGCGAGGTGGCTT+CGG - chr7.2:13997610-13997629 None:intergenic 65.0%
GTTACGCTTCACGCGCGAGG+TGG - chr7.2:13997616-13997635 None:intergenic 65.0%
TTCTTCCCATGGACGGCGCG+TGG - chr7.2:13997547-13997566 None:intergenic 65.0%
!! GGCGGAGAGGGGTTTTGGTG+TGG - chr7.2:13997526-13997545 None:intergenic 65.0%
GCTTGCGGCGGTGACTGTGG+TGG + chr7.2:13997824-13997843 MS.gene020329:CDS 70.0%
GGTGCTTGCGGCGGTGACTG+TGG + chr7.2:13997821-13997840 MS.gene020329:CDS 70.0%
TTCCCATGGACGGCGCGTGG+CGG - chr7.2:13997544-13997563 None:intergenic 70.0%
TTCTGCGGCGGTGCTTGCGG+CGG + chr7.2:13997812-13997831 MS.gene020329:CDS 70.0%
!! CGCGTGGCGGAGAGGGGTTT+TGG - chr7.2:13997531-13997550 None:intergenic 70.0%
CTCCGCCACGCGCCGTCCAT+GGG + chr7.2:13997539-13997558 MS.gene020329:CDS 75.0%
TCTCCGCCACGCGCCGTCCA+TGG + chr7.2:13997538-13997557 MS.gene020329:CDS 75.0%
! ATGGACGGCGCGTGGCGGAG+AGG - chr7.2:13997539-13997558 None:intergenic 75.0%
! TGGACGGCGCGTGGCGGAGA+GGG - chr7.2:13997538-13997557 None:intergenic 75.0%
!! GGACGGCGCGTGGCGGAGAG+GGG - chr7.2:13997537-13997556 None:intergenic 80.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 13997438 13998043 13997438 ID=MS.gene020329
chr7.2 mRNA 13997438 13998043 13997438 ID=MS.gene020329.t1;Parent=MS.gene020329
chr7.2 exon 13997438 13998043 13997438 ID=MS.gene020329.t1.exon1;Parent=MS.gene020329.t1
chr7.2 CDS 13997438 13998043 13997438 ID=cds.MS.gene020329.t1;Parent=MS.gene020329.t1
Gene Sequence

>MS.gene020329

ATGAATTCTTCATCTTCTTCACCACCTCATTACAGTTCTCTCCCATCATCAAATTCCATTCCTCCAAATTTCATCTCACGCCCCACCACACCAAAACCCCTCTCCGCCACGCGCCGTCCATGGGAAGAAGTTTTCGCACTCTACTCCTTCACACGTCCATACTCTCTCACCGAAGCCACCTCGCGCGTGAAGCGTAACATCAATCACTTTCGCGCAAACTACATCATCCTCATCCTCTTCGTCTTATTCCTCAGTCTCCTATGGCATCCTATCTCAATCATCGTCTTCTTGATCACACTGATAGCTTGGTTTTTTCTCTACTTCTTCCGTGACGAACCGATTGTTCTGTTTGGCCGTGTTGTCGATGATAGAGCTTCTGCGGCGGTGCTTGCGGCGGTGACTGTGGTGGCGTTAGCTTTTACTGGTGTTTGGGTGAATGTGTTGGTTTCGGTTGTGGTTGGTGTTGTGGTTGTTGTGTTGCATGGTGCGTTTAGGAGTACAGAGGATTTGTATGTGGATGAACATGAAGGGTATGATGGAGGATTGCTTAATTCGTTTGTTGGGGGTACCCCTACAAAACGTGGTGCAGGGTATACCTTAATATAG
Protein sequence

>MS.gene020329.t1

MNSSSSSPPHYSSLPSSNSIPPNFISRPTTPKPLSATRRPWEEVFALYSFTRPYSLTEATSRVKRNINHFRANYIILILFVLFLSLLWHPISIIVFLITLIAWFFLYFFRDEPIVLFGRVVDDRASAAVLAAVTVVALAFTGVWVNVLVSVVVGVVVVVLHGAFRSTEDLYVDEHEGYDGGLLNSFVGGTPTKRGAGYTLI