AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36705

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36705.t1 MTR_7g029400 93.229 192 11 2 1 190 1 192 2.69e-133 371
MS.gene36705.t1 MTR_8g015250 93.158 190 4 1 1 190 1 181 9.00e-129 359
MS.gene36705.t1 MTR_6g016375 62.595 131 42 1 30 160 44 167 4.46e-47 153
MS.gene36705.t1 MTR_7g017880 61.194 134 50 2 54 186 58 190 5.39e-44 145
MS.gene36705.t1 MTR_4g070860 53.425 73 34 0 79 151 26 98 3.65e-19 80.1
MS.gene36705.t1 MTR_1g022495 41.489 94 54 1 60 153 8 100 9.90e-17 73.9
MS.gene36705.t1 MTR_3g117120 49.315 73 37 0 79 151 26 98 3.84e-16 72.4
MS.gene36705.t1 MTR_4g097440 38.318 107 56 1 71 167 63 169 8.36e-16 72.0
MS.gene36705.t1 MTR_8g086020 35.294 102 66 0 50 151 2 103 3.76e-15 69.7
MS.gene36705.t1 MTR_5g015090 40.625 96 50 1 80 168 58 153 6.82e-14 66.2
MS.gene36705.t1 MTR_1g087040 43.478 92 46 3 60 151 10 95 4.57e-13 63.9
MS.gene36705.t1 MTR_5g028850 40.426 94 51 2 58 146 280 373 2.10e-12 65.1
MS.gene36705.t1 MTR_5g028850 40.426 94 51 2 58 146 278 371 2.20e-12 65.1
MS.gene36705.t1 MTR_3g109310 40.426 94 53 1 78 168 121 214 2.50e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36705.t1 AT3G30530 70.690 116 32 1 61 174 57 172 3.51e-52 165
MS.gene36705.t1 AT1G13600 47.541 183 73 7 2 170 4 177 3.41e-41 138
MS.gene36705.t1 AT5G38800 56.250 128 54 1 45 170 34 161 1.13e-40 135
MS.gene36705.t1 AT5G15830 50.694 144 66 3 47 190 40 178 2.73e-37 127
MS.gene36705.t1 AT2G04038 63.158 95 35 0 64 158 55 149 9.37e-36 123
MS.gene36705.t1 AT1G68880 45.455 99 52 1 62 160 28 124 9.87e-23 89.0
MS.gene36705.t1 AT5G60830 48.718 78 40 0 81 158 69 146 4.50e-17 75.9
MS.gene36705.t1 AT1G75390 46.809 94 45 1 63 151 16 109 6.29e-17 74.7
MS.gene36705.t1 AT1G75390 45.055 91 46 1 61 147 15 105 1.38e-15 70.1
MS.gene36705.t1 AT2G18160 47.222 72 38 0 80 151 28 99 1.54e-15 71.2
MS.gene36705.t1 AT3G62420 37.624 101 59 1 79 175 21 121 6.93e-14 66.2
MS.gene36705.t1 AT4G37730 46.429 84 45 0 75 158 189 272 2.55e-12 64.3
MS.gene36705.t1 AT4G34590 43.243 74 42 0 78 151 22 95 3.14e-12 62.0
MS.gene36705.t1 AT3G49760 30.973 113 63 2 50 155 47 151 5.29e-11 58.9

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCAAAAGTTTCTTCTTTA+AGG 0.049723 8.2:-78106529 None:intergenic
AGATTATTTATATGGTAATT+TGG 0.174170 8.2:-78106197 None:intergenic
TGCCTAAAAGATTATTTATA+TGG 0.246310 8.2:-78106205 None:intergenic
TTCTCAATCATGAACTTTAG+AGG 0.310979 8.2:-78106654 None:intergenic
TTCTGTGGTAAGACAAAGTT+TGG 0.321309 8.2:-78106167 None:intergenic
ACATAAATCTTCCATGTTGC+AGG 0.321423 8.2:-78106594 None:intergenic
AGACAAAGTTTGGTTGAACT+TGG 0.414632 8.2:-78106157 None:intergenic
ATGGTAGCTGACATGCAAAT+TGG 0.415880 8.2:+78106560 MS.gene36705:CDS
TTTGCATGTCAGCTACCATT+TGG 0.441661 8.2:-78106556 None:intergenic
GCTGATGGGTAATGGAAGTT+TGG 0.447856 8.2:-78106233 None:intergenic
ACGATGGTGGAGCAAATTCA+TGG 0.483705 8.2:-78106259 None:intergenic
GAGAATCAGCTAGGAGATCA+AGG 0.496394 8.2:+78106375 MS.gene36705:CDS
CATGGCCTGCTGATGGGTAA+TGG 0.501858 8.2:-78106241 None:intergenic
CATGGTTGAGTTTGTCAACA+AGG 0.513554 8.2:-78106466 None:intergenic
CTCTGTTTGATATCATTCGC+CGG 0.528366 8.2:-78106355 None:intergenic
CAAATTCATGGCCTGCTGAT+GGG 0.533266 8.2:-78106247 None:intergenic
AACTTCCATTACCCATCAGC+AGG 0.542481 8.2:+78106236 MS.gene36705:CDS
TAATTTGGAATTTCATTCTG+TGG 0.549673 8.2:-78106182 None:intergenic
CAGCTAGGAGATCAAGGATG+AGG 0.553553 8.2:+78106381 MS.gene36705:CDS
GCAAATTCATGGCCTGCTGA+TGG 0.554547 8.2:-78106248 None:intergenic
TTGTGTTGAGATGTGTTGCA+TGG 0.567617 8.2:-78106623 None:intergenic
ACTTGGAATGAATTCTCAAG+AGG 0.603925 8.2:-78106140 None:intergenic
TTGACTCCTCTGATCTCACT+AGG 0.610669 8.2:-78106107 None:intergenic
AGTTTAACATCATCGACGAA+AGG 0.620965 8.2:+78106327 MS.gene36705:CDS
TATCAAACAGAGAATCAGCT+AGG 0.629542 8.2:+78106366 MS.gene36705:CDS
ATGGTTCCTAGTGAGATCAG+AGG 0.643037 8.2:+78106101 MS.gene36705:CDS
TCTGATCTCACTAGGAACCA+TGG 0.643297 8.2:-78106099 None:intergenic
TCATCGACGAAAGGAAGCAC+CGG 0.644213 8.2:+78106336 MS.gene36705:CDS
TTGCTGCTTAAACACGATGG+TGG 0.650100 8.2:-78106272 None:intergenic
TGTCATGTGACTCAGACACA+TGG 0.723782 8.2:-78106484 None:intergenic
GAGTTGCTGCTTAAACACGA+TGG 0.774209 8.2:-78106275 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTATTTATATGGTAATT+TGG - chr8.2:78106200-78106219 None:intergenic 15.0%
!!! TACCATATAAATAATCTTTT+AGG + chr8.2:78106203-78106222 MS.gene36705:CDS 15.0%
!! TGCCTAAAAGATTATTTATA+TGG - chr8.2:78106208-78106227 None:intergenic 20.0%
! GATCAAAAGTTTCTTCTTTA+AGG - chr8.2:78106532-78106551 None:intergenic 25.0%
!! TAATTTGGAATTTCATTCTG+TGG - chr8.2:78106185-78106204 None:intergenic 25.0%
AAAAACACTTGGATGAACTT+TGG + chr8.2:78106408-78106427 MS.gene36705:CDS 30.0%
ACATAAATCTTCCATGTTGC+AGG - chr8.2:78106597-78106616 None:intergenic 35.0%
ACTTGGAATGAATTCTCAAG+AGG - chr8.2:78106143-78106162 None:intergenic 35.0%
AGACAAAGTTTGGTTGAACT+TGG - chr8.2:78106160-78106179 None:intergenic 35.0%
AGTTTAACATCATCGACGAA+AGG + chr8.2:78106327-78106346 MS.gene36705:CDS 35.0%
GATGAGGAAACAAAAACACT+TGG + chr8.2:78106397-78106416 MS.gene36705:CDS 35.0%
TATCAAACAGAGAATCAGCT+AGG + chr8.2:78106366-78106385 MS.gene36705:CDS 35.0%
TTCTGTGGTAAGACAAAGTT+TGG - chr8.2:78106170-78106189 None:intergenic 35.0%
! AACTTTTGATCTTCGCCAAA+TGG + chr8.2:78106541-78106560 MS.gene36705:CDS 35.0%
! TAACTCTTTTACCTGCAACA+TGG + chr8.2:78106583-78106602 MS.gene36705:CDS 35.0%
ATGGTAGCTGACATGCAAAT+TGG + chr8.2:78106560-78106579 MS.gene36705:CDS 40.0%
CATGGTTGAGTTTGTCAACA+AGG - chr8.2:78106469-78106488 None:intergenic 40.0%
CTCTGTTTGATATCATTCGC+CGG - chr8.2:78106358-78106377 None:intergenic 40.0%
TTGTGTTGAGATGTGTTGCA+TGG - chr8.2:78106626-78106645 None:intergenic 40.0%
TTTGCATGTCAGCTACCATT+TGG - chr8.2:78106559-78106578 None:intergenic 40.0%
AACTTCCATTACCCATCAGC+AGG + chr8.2:78106236-78106255 MS.gene36705:CDS 45.0%
ATGGTTCCTAGTGAGATCAG+AGG + chr8.2:78106101-78106120 MS.gene36705:CDS 45.0%
CAAATTCATGGCCTGCTGAT+GGG - chr8.2:78106250-78106269 None:intergenic 45.0%
GAGAATCAGCTAGGAGATCA+AGG + chr8.2:78106375-78106394 MS.gene36705:CDS 45.0%
TGTCATGTGACTCAGACACA+TGG - chr8.2:78106487-78106506 None:intergenic 45.0%
TTGACTCCTCTGATCTCACT+AGG - chr8.2:78106110-78106129 None:intergenic 45.0%
! GAGTTGCTGCTTAAACACGA+TGG - chr8.2:78106278-78106297 None:intergenic 45.0%
! TTGCTGCTTAAACACGATGG+TGG - chr8.2:78106275-78106294 None:intergenic 45.0%
!! ACGATGGTGGAGCAAATTCA+TGG - chr8.2:78106262-78106281 None:intergenic 45.0%
!! GCTGATGGGTAATGGAAGTT+TGG - chr8.2:78106236-78106255 None:intergenic 45.0%
CAGCTAGGAGATCAAGGATG+AGG + chr8.2:78106381-78106400 MS.gene36705:CDS 50.0%
GCAAATTCATGGCCTGCTGA+TGG - chr8.2:78106251-78106270 None:intergenic 50.0%
! TCATCGACGAAAGGAAGCAC+CGG + chr8.2:78106336-78106355 MS.gene36705:CDS 50.0%
! CATGGCCTGCTGATGGGTAA+TGG - chr8.2:78106244-78106263 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 78106101 78106673 78106101 ID=MS.gene36705
chr8.2 mRNA 78106101 78106673 78106101 ID=MS.gene36705.t1;Parent=MS.gene36705
chr8.2 exon 78106101 78106673 78106101 ID=MS.gene36705.t1.exon1;Parent=MS.gene36705.t1
chr8.2 CDS 78106101 78106673 78106101 ID=cds.MS.gene36705.t1;Parent=MS.gene36705.t1
Gene Sequence

>MS.gene36705

ATGGTTCCTAGTGAGATCAGAGGAGTCAATTATCTAACTCCTCTTGAGAATTCATTCCAAGTTCAACCAAACTTTGTCTTACCACAGAATGAAATTCCAAATTACCATATAAATAATCTTTTAGGCAGCTTACCAAACTTCCATTACCCATCAGCAGGCCATGAATTTGCTCCACCATCGTGTTTAAGCAGCAACTCGACTACTTCTGATGAAGCAGATGAACTTCAGTTTAACATCATCGACGAAAGGAAGCACCGGCGAATGATATCAAACAGAGAATCAGCTAGGAGATCAAGGATGAGGAAACAAAAACACTTGGATGAACTTTGGTCACAAGTGATGAAACTCAGAACTGAAAATCACAACCTTGTTGACAAACTCAACCATGTGTCTGAGTCACATGACAAAGTTGTTCAAGAGAATGCACGCCTTAAAGAAGAAACTTTTGATCTTCGCCAAATGGTAGCTGACATGCAAATTGGTAACTCTTTTACCTGCAACATGGAAGATTTATGTGAAATTCCATGCAACACATCTCAACACAAAGATGATTCCTCTAAAGTTCATGATTGA
Protein sequence

>MS.gene36705.t1

MVPSEIRGVNYLTPLENSFQVQPNFVLPQNEIPNYHINNLLGSLPNFHYPSAGHEFAPPSCLSSNSTTSDEADELQFNIIDERKHRRMISNRESARRSRMRKQKHLDELWSQVMKLRTENHNLVDKLNHVSESHDKVVQENARLKEETFDLRQMVADMQIGNSFTCNMEDLCEIPCNTSQHKDDSSKVHD