AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011696

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011696.t1 MTR_4g097440 94.828 174 9 0 1 174 1 174 2.52e-122 342
MS.gene011696.t1 MTR_5g015090 56.897 174 58 6 1 174 1 157 6.38e-58 178
MS.gene011696.t1 MTR_3g103360 47.619 84 44 0 71 154 52 135 2.95e-18 77.0
MS.gene011696.t1 MTR_4g070860 41.935 93 54 0 62 154 17 109 2.97e-17 74.7
MS.gene011696.t1 MTR_1g017570 65.152 66 23 0 74 139 59 124 4.96e-17 73.9
MS.gene011696.t1 MTR_1g022495 38.739 111 66 1 44 154 1 109 8.70e-16 71.2
MS.gene011696.t1 MTR_3g117120 41.053 95 49 1 67 154 15 109 2.32e-15 69.7
MS.gene011696.t1 MTR_7g029400 34.091 132 75 2 16 147 37 156 8.33e-15 69.3
MS.gene011696.t1 MTR_6g016375 43.182 88 50 0 63 150 78 165 1.96e-14 68.2
MS.gene011696.t1 MTR_8g015250 44.706 85 47 0 63 147 62 146 2.02e-14 67.8
MS.gene011696.t1 MTR_8g086020 38.554 83 51 0 72 154 32 114 3.16e-13 64.3
MS.gene011696.t1 MTR_7g017880 41.176 85 50 0 63 147 75 159 3.70e-13 64.7
MS.gene011696.t1 MTR_1g087040 33.333 96 61 1 72 164 24 119 7.20e-12 60.5
MS.gene011696.t1 MTR_3g112220 37.079 89 55 1 72 160 1 88 2.89e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011696.t1 AT2G22850 34.579 214 86 5 1 160 1 214 9.97e-30 108
MS.gene011696.t1 AT2G22850 34.579 214 86 5 1 160 1 214 9.97e-30 108
MS.gene011696.t1 AT3G49760 37.736 159 88 4 1 155 1 152 2.46e-28 103
MS.gene011696.t1 AT4G37730 35.681 213 72 6 1 148 58 270 1.18e-25 100
MS.gene011696.t1 AT2G18160 45.783 83 45 0 72 154 28 110 4.40e-17 74.7
MS.gene011696.t1 AT5G38800 35.152 165 78 4 2 163 18 156 5.55e-17 74.3
MS.gene011696.t1 AT1G75390 40.860 93 55 0 62 154 28 120 5.64e-16 72.0
MS.gene011696.t1 AT3G30530 34.000 150 88 2 1 150 18 156 2.33e-15 70.5
MS.gene011696.t1 AT4G34590 38.372 86 53 0 69 154 21 106 1.23e-13 65.5
MS.gene011696.t1 AT1G75390 43.590 78 44 0 62 139 28 105 1.55e-13 64.3
MS.gene011696.t1 AT1G13600 40.217 92 48 1 63 154 74 158 3.63e-13 65.1
MS.gene011696.t1 AT5G15830 42.169 83 48 0 71 153 70 152 3.84e-13 64.7
MS.gene011696.t1 AT2G04038 43.299 97 44 2 64 157 60 148 4.33e-12 61.6
MS.gene011696.t1 AT3G62420 37.895 95 57 2 62 154 10 104 7.99e-12 60.5
MS.gene011696.t1 AT5G49450 34.524 84 55 0 72 155 13 96 4.61e-11 58.2

Find 66 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACAACTTTACTCAAATTT+TGG 0.127369 8.3:+22417373 MS.gene011696:CDS
GAACTTGAAGTGATAGGTTT+AGG 0.233565 8.3:-22417053 None:intergenic
AGGGTCGGAGGGAGGGAGGG+TGG 0.248625 8.3:-22416940 None:intergenic
TTCAACCTTTCTCCACTTCA+TGG 0.296044 8.3:+22417408 MS.gene011696:CDS
AACTTGAAGTGATAGGTTTA+GGG 0.302807 8.3:-22417052 None:intergenic
GAGTAAAGTTGTTGATTCTT+TGG 0.303377 8.3:-22417364 None:intergenic
AAAGACATGTTGAGAATCTA+AGG 0.334537 8.3:+22417216 MS.gene011696:CDS
CCATTCTACACTTGTTCAAC+TGG 0.337078 8.3:-22417241 None:intergenic
CTTACGCATCCGTGACCTTC+GGG 0.341899 8.3:-22417192 None:intergenic
GTGACCTTCGGGCTGATTCC+CGG 0.353723 8.3:-22417181 None:intergenic
GAAGAGGGTCGGAGGGAGGG+AGG 0.360965 8.3:-22416944 None:intergenic
CGTTTCTCATGAGGTTGGTT+TGG 0.369818 8.3:-22417089 None:intergenic
GCTTACGCATCCGTGACCTT+CGG 0.391903 8.3:-22417193 None:intergenic
ATGGACATGTAACACTACTA+TGG 0.403099 8.3:+22417427 MS.gene011696:CDS
TTGGTTTGGTTCATCTGAAC+CGG 0.403812 8.3:-22417075 None:intergenic
AAACCTATCACTTCAAGTTC+CGG 0.408152 8.3:+22417056 MS.gene011696:CDS
GTTTGATATCATCTGAAAAT+AGG 0.412330 8.3:-22417022 None:intergenic
TTCGCTCATCGACCGCCCCT+TGG 0.413058 8.3:-22417136 None:intergenic
GTGATAGGTTTAGGGCTTGA+GGG 0.422766 8.3:-22417044 None:intergenic
TCATCGACCGCCCCTTGGTT+CGG 0.428702 8.3:-22417131 None:intergenic
ACAAGTGTAGAATGGAAAAC+CGG 0.443917 8.3:+22417249 MS.gene011696:CDS
GAACCGGAACTTGAAGTGAT+AGG 0.454607 8.3:-22417059 None:intergenic
CCACCGTGGAAGGCGGAGAA+TGG 0.455984 8.3:-22416975 None:intergenic
AAGAGGGTCGGAGGGAGGGA+GGG 0.467095 8.3:-22416943 None:intergenic
CGAGAAGAGGGTCGGAGGGA+GGG 0.468348 8.3:-22416947 None:intergenic
CACCGTGGAAGGCGGAGAAT+GGG 0.468367 8.3:-22416974 None:intergenic
GAGAATGGGTTGTCGAGAAG+AGG 0.487282 8.3:-22416960 None:intergenic
TCCACGGTGGTTTCCCGCCG+TGG 0.491615 8.3:+22416988 MS.gene011696:CDS
GGGAGGGAGGGTGGAGAGCA+TGG 0.493386 8.3:-22416931 None:intergenic
ACCTCATGAGAAACGTAAAC+CGG 0.495603 8.3:+22417097 MS.gene011696:CDS
CCACGGTGGTTTCCCGCCGT+GGG 0.499047 8.3:+22416989 MS.gene011696:CDS
GCCGACGCATGATATCGAAC+CGG 0.501368 8.3:+22417162 MS.gene011696:CDS
TGGTTCGGTTCGTCTGAGTC+CGG 0.507087 8.3:-22417116 None:intergenic
AGTGATAGGTTTAGGGCTTG+AGG 0.507472 8.3:-22417045 None:intergenic
AACCCATTCTCCGCCTTCCA+CGG 0.508492 8.3:+22416972 MS.gene011696:CDS
CGGCGGGAAACCACCGTGGA+AGG 0.511630 8.3:-22416985 None:intergenic
CCAGTTGAACAAGTGTAGAA+TGG 0.512636 8.3:+22417241 MS.gene011696:CDS
TGGAGAAAGGTTGAAAATGT+TGG 0.517387 8.3:-22417400 None:intergenic
TCGAGAAGAGGGTCGGAGGG+AGG 0.518665 8.3:-22416948 None:intergenic
GTTTACGTTTCTCATGAGGT+TGG 0.523598 8.3:-22417094 None:intergenic
GAACCGAAAATGAATGGCTT+CGG 0.526344 8.3:+22417321 MS.gene011696:CDS
CATGTCCATGAAGTGGAGAA+AGG 0.530046 8.3:-22417413 None:intergenic
ACTCAGACGAACCGAACCAA+GGG 0.530730 8.3:+22417120 MS.gene011696:CDS
GTTGATTCTTTGGTTCAGCA+TGG 0.532415 8.3:-22417354 None:intergenic
TCCGGTTTACGTTTCTCATG+AGG 0.541127 8.3:-22417098 None:intergenic
GGATACGAACCGAAAATGAA+TGG 0.552887 8.3:+22417315 MS.gene011696:CDS
AGTGTTACATGTCCATGAAG+TGG 0.557208 8.3:-22417420 None:intergenic
GGTCGTGAAAATCCCACGGC+GGG 0.559315 8.3:-22417001 None:intergenic
GGGAATCAGCCCGAAGGTCA+CGG 0.563982 8.3:+22417183 MS.gene011696:CDS
CCGACGCATGATATCGAACC+GGG 0.566445 8.3:+22417163 MS.gene011696:CDS
GTTGTCGAGAAGAGGGTCGG+AGG 0.580313 8.3:-22416952 None:intergenic
CAAGTGTAGAATGGAAAACC+GGG 0.581252 8.3:+22417250 MS.gene011696:CDS
TTGTCGAGAAGAGGGTCGGA+GGG 0.592518 8.3:-22416951 None:intergenic
GACTCAGACGAACCGAACCA+AGG 0.594629 8.3:+22417119 MS.gene011696:CDS
CGGGAAACCACCGTGGAAGG+CGG 0.596771 8.3:-22416982 None:intergenic
AGAATGGGTTGTCGAGAAGA+GGG 0.603075 8.3:-22416959 None:intergenic
CCCGGTTCGATATCATGCGT+CGG 0.613058 8.3:-22417163 None:intergenic
GACATGTAACACTACTATGG+TGG 0.614953 8.3:+22417430 MS.gene011696:CDS
TGGGTTGTCGAGAAGAGGGT+CGG 0.634456 8.3:-22416955 None:intergenic
CCATTCTCCGCCTTCCACGG+TGG 0.668455 8.3:+22416975 MS.gene011696:CDS
CTCAGACGAACCGAACCAAG+GGG 0.675861 8.3:+22417121 MS.gene011696:CDS
AATAGGTCGTGAAAATCCCA+CGG 0.684068 8.3:-22417005 None:intergenic
AGACGAACCGAACCAAGGGG+CGG 0.685051 8.3:+22417124 MS.gene011696:CDS
CGAACCGGGAATCAGCCCGA+AGG 0.694000 8.3:+22417177 MS.gene011696:CDS
CCCACGGCGGGAAACCACCG+TGG 0.712297 8.3:-22416989 None:intergenic
AGGTCGTGAAAATCCCACGG+CGG 0.775837 8.3:-22417002 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTTTGATATCATCTGAAAAT+AGG - chr8.3:22417025-22417044 None:intergenic 25.0%
!! CAACAACTTTACTCAAATTT+TGG + chr8.3:22417373-22417392 MS.gene011696:CDS 25.0%
AAAACCGGGAAATGAAAAAT+CGG + chr8.3:22417264-22417283 MS.gene011696:CDS 30.0%
AAAGACATGTTGAGAATCTA+AGG + chr8.3:22417216-22417235 MS.gene011696:CDS 30.0%
AACTTGAAGTGATAGGTTTA+GGG - chr8.3:22417055-22417074 None:intergenic 30.0%
!! GAGTAAAGTTGTTGATTCTT+TGG - chr8.3:22417367-22417386 None:intergenic 30.0%
!! TCATTTTGTTTCACTTGAAC+CGG + chr8.3:22417294-22417313 MS.gene011696:CDS 30.0%
ACAAGTGTAGAATGGAAAAC+CGG + chr8.3:22417249-22417268 MS.gene011696:CDS 35.0%
ATGGACATGTAACACTACTA+TGG + chr8.3:22417427-22417446 MS.gene011696:CDS 35.0%
GAACTTGAAGTGATAGGTTT+AGG - chr8.3:22417056-22417075 None:intergenic 35.0%
TGGAGAAAGGTTGAAAATGT+TGG - chr8.3:22417403-22417422 None:intergenic 35.0%
! AAACCTATCACTTCAAGTTC+CGG + chr8.3:22417056-22417075 MS.gene011696:CDS 35.0%
!! ATTCATTTTCGGTTCGTATC+CGG - chr8.3:22417316-22417335 None:intergenic 35.0%
!! GTAACCGATTTTTCATTTCC+CGG - chr8.3:22417271-22417290 None:intergenic 35.0%
AATAGGTCGTGAAAATCCCA+CGG - chr8.3:22417008-22417027 None:intergenic 40.0%
ACCTCATGAGAAACGTAAAC+CGG + chr8.3:22417097-22417116 MS.gene011696:CDS 40.0%
AGTGTTACATGTCCATGAAG+TGG - chr8.3:22417423-22417442 None:intergenic 40.0%
CAAGTGTAGAATGGAAAACC+GGG + chr8.3:22417250-22417269 MS.gene011696:CDS 40.0%
CCAGTTGAACAAGTGTAGAA+TGG + chr8.3:22417241-22417260 MS.gene011696:CDS 40.0%
CCATTCTACACTTGTTCAAC+TGG - chr8.3:22417244-22417263 None:intergenic 40.0%
GAACCGAAAATGAATGGCTT+CGG + chr8.3:22417321-22417340 MS.gene011696:CDS 40.0%
GACATGTAACACTACTATGG+TGG + chr8.3:22417430-22417449 MS.gene011696:CDS 40.0%
GGATACGAACCGAAAATGAA+TGG + chr8.3:22417315-22417334 MS.gene011696:CDS 40.0%
GTTTACGTTTCTCATGAGGT+TGG - chr8.3:22417097-22417116 None:intergenic 40.0%
TTCAACCTTTCTCCACTTCA+TGG + chr8.3:22417408-22417427 MS.gene011696:CDS 40.0%
! AGACCGAAGCCATTCATTTT+CGG - chr8.3:22417327-22417346 None:intergenic 40.0%
! GTTGATTCTTTGGTTCAGCA+TGG - chr8.3:22417357-22417376 None:intergenic 40.0%
!! TTGGTTTGGTTCATCTGAAC+CGG - chr8.3:22417078-22417097 None:intergenic 40.0%
CATGTCCATGAAGTGGAGAA+AGG - chr8.3:22417416-22417435 None:intergenic 45.0%
GAACCGGAACTTGAAGTGAT+AGG - chr8.3:22417062-22417081 None:intergenic 45.0%
TCCGGTTTACGTTTCTCATG+AGG - chr8.3:22417101-22417120 None:intergenic 45.0%
! AGTGATAGGTTTAGGGCTTG+AGG - chr8.3:22417048-22417067 None:intergenic 45.0%
! CGTTTCTCATGAGGTTGGTT+TGG - chr8.3:22417092-22417111 None:intergenic 45.0%
! GTGATAGGTTTAGGGCTTGA+GGG - chr8.3:22417047-22417066 None:intergenic 45.0%
!! AGAATGGGTTGTCGAGAAGA+GGG - chr8.3:22416962-22416981 None:intergenic 45.0%
ACTCAGACGAACCGAACCAA+GGG + chr8.3:22417120-22417139 MS.gene011696:CDS 50.0%
!! GAGAATGGGTTGTCGAGAAG+AGG - chr8.3:22416963-22416982 None:intergenic 50.0%
AACCCATTCTCCGCCTTCCA+CGG + chr8.3:22416972-22416991 MS.gene011696:CDS 55.0%
AGGTCGTGAAAATCCCACGG+CGG - chr8.3:22417005-22417024 None:intergenic 55.0%
CCGACGCATGATATCGAACC+GGG + chr8.3:22417163-22417182 MS.gene011696:CDS 55.0%
CTCAGACGAACCGAACCAAG+GGG + chr8.3:22417121-22417140 MS.gene011696:CDS 55.0%
CTTACGCATCCGTGACCTTC+GGG - chr8.3:22417195-22417214 None:intergenic 55.0%
GACTCAGACGAACCGAACCA+AGG + chr8.3:22417119-22417138 MS.gene011696:CDS 55.0%
GCCGACGCATGATATCGAAC+CGG + chr8.3:22417162-22417181 MS.gene011696:CDS 55.0%
GCTTACGCATCCGTGACCTT+CGG - chr8.3:22417196-22417215 None:intergenic 55.0%
TGGGTTGTCGAGAAGAGGGT+CGG - chr8.3:22416958-22416977 None:intergenic 55.0%
TTGTCGAGAAGAGGGTCGGA+GGG - chr8.3:22416954-22416973 None:intergenic 55.0%
! CCCGGTTCGATATCATGCGT+CGG - chr8.3:22417166-22417185 None:intergenic 55.0%
!! TGGTTCGGTTCGTCTGAGTC+CGG - chr8.3:22417119-22417138 None:intergenic 55.0%
AGACGAACCGAACCAAGGGG+CGG + chr8.3:22417124-22417143 MS.gene011696:CDS 60.0%
CACCGTGGAAGGCGGAGAAT+GGG - chr8.3:22416977-22416996 None:intergenic 60.0%
GGGAATCAGCCCGAAGGTCA+CGG + chr8.3:22417183-22417202 MS.gene011696:CDS 60.0%
GGTCGTGAAAATCCCACGGC+GGG - chr8.3:22417004-22417023 None:intergenic 60.0%
GTTGTCGAGAAGAGGGTCGG+AGG - chr8.3:22416955-22416974 None:intergenic 60.0%
TCATCGACCGCCCCTTGGTT+CGG - chr8.3:22417134-22417153 None:intergenic 60.0%
! GTGACCTTCGGGCTGATTCC+CGG - chr8.3:22417184-22417203 None:intergenic 60.0%
AAGAGGGTCGGAGGGAGGGA+GGG - chr8.3:22416946-22416965 None:intergenic 65.0%
CCACCGTGGAAGGCGGAGAA+TGG - chr8.3:22416978-22416997 None:intergenic 65.0%
CCATTCTCCGCCTTCCACGG+TGG + chr8.3:22416975-22416994 MS.gene011696:CDS 65.0%
CGAACCGGGAATCAGCCCGA+AGG + chr8.3:22417177-22417196 MS.gene011696:CDS 65.0%
CGAGAAGAGGGTCGGAGGGA+GGG - chr8.3:22416950-22416969 None:intergenic 65.0%
CGGGAAACCACCGTGGAAGG+CGG - chr8.3:22416985-22417004 None:intergenic 65.0%
TCGAGAAGAGGGTCGGAGGG+AGG - chr8.3:22416951-22416970 None:intergenic 65.0%
TTCGCTCATCGACCGCCCCT+TGG - chr8.3:22417139-22417158 None:intergenic 65.0%
CCACGGTGGTTTCCCGCCGT+GGG + chr8.3:22416989-22417008 MS.gene011696:CDS 70.0%
CGGCGGGAAACCACCGTGGA+AGG - chr8.3:22416988-22417007 None:intergenic 70.0%
GAAGAGGGTCGGAGGGAGGG+AGG - chr8.3:22416947-22416966 None:intergenic 70.0%
TCCACGGTGGTTTCCCGCCG+TGG + chr8.3:22416988-22417007 MS.gene011696:CDS 70.0%
AGGGTCGGAGGGAGGGAGGG+TGG - chr8.3:22416943-22416962 None:intergenic 75.0%
CCCACGGCGGGAAACCACCG+TGG - chr8.3:22416992-22417011 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 22416933 22417457 22416933 ID=MS.gene011696
chr8.3 mRNA 22416933 22417457 22416933 ID=MS.gene011696.t1;Parent=MS.gene011696
chr8.3 exon 22416933 22417457 22416933 ID=MS.gene011696.t1.exon1;Parent=MS.gene011696.t1
chr8.3 CDS 22416933 22417457 22416933 ID=cds.MS.gene011696.t1;Parent=MS.gene011696.t1
Gene Sequence

>MS.gene011696

ATGCTCTCCACCCTCCCTCCCTCCGACCCTCTTCTCGACAACCCATTCTCCGCCTTCCACGGTGGTTTCCCGCCGTGGGATTTTCACGACCTATTTTCAGATGATATCAAACCCTCAAGCCCTAAACCTATCACTTCAAGTTCCGGTTCAGATGAACCAAACCAACCTCATGAGAAACGTAAACCGGACTCAGACGAACCGAACCAAGGGGCGGTCGATGAGCGAAAGCGCCGACGCATGATATCGAACCGGGAATCAGCCCGAAGGTCACGGATGCGTAAGCAAAGACATGTTGAGAATCTAAGGAACCAGTTGAACAAGTGTAGAATGGAAAACCGGGAAATGAAAAATCGGTTACAATTCATTTTGTTTCACTTGAACCGGATACGAACCGAAAATGAATGGCTTCGGTCTGAGCGAACCATGCTGAACCAAAGAATCAACAACTTTACTCAAATTTTGGTTTGCCAACATTTTCAACCTTTCTCCACTTCATGGACATGTAACACTACTATGGTGGAATAA
Protein sequence

>MS.gene011696.t1

MLSTLPPSDPLLDNPFSAFHGGFPPWDFHDLFSDDIKPSSPKPITSSSGSDEPNQPHEKRKPDSDEPNQGAVDERKRRRMISNRESARRSRMRKQRHVENLRNQLNKCRMENREMKNRLQFILFHLNRIRTENEWLRSERTMLNQRINNFTQILVCQHFQPFSTSWTCNTTMVE