AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene89014

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89014.t1 MTR_2g103870 99.367 158 1 0 1 158 1 158 1.71e-115 323
MS.gene89014.t1 MTR_4g010160 86.713 143 19 0 13 155 1 143 2.81e-79 231
MS.gene89014.t1 MTR_7g114020 46.269 134 71 1 20 153 14 146 7.40e-37 124
MS.gene89014.t1 MTR_1g082290 45.161 124 67 1 20 143 18 140 8.04e-36 121
MS.gene89014.t1 MTR_1g089130 46.429 140 70 2 13 148 4 142 2.31e-35 120
MS.gene89014.t1 MTR_2g020770 46.207 145 73 3 10 154 10 149 3.58e-31 110
MS.gene89014.t1 MTR_2g100900 41.935 124 71 1 20 143 17 139 9.82e-30 106
MS.gene89014.t1 MTR_2g100880 41.935 124 71 1 20 143 17 139 1.42e-29 105
MS.gene89014.t1 MTR_2g020770 44.361 133 70 2 10 142 10 138 3.47e-27 99.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89014.t1 AT1G80100 77.273 154 35 0 1 154 1 154 1.38e-68 205
MS.gene89014.t1 AT1G80100 75.714 140 34 0 1 140 1 140 5.52e-58 178
MS.gene89014.t1 AT1G80100 66.883 154 29 1 1 154 1 132 7.78e-58 177
MS.gene89014.t1 AT5G39340 41.722 151 83 2 7 153 2 151 1.54e-36 124
MS.gene89014.t1 AT5G39340 44.030 134 74 1 20 153 52 184 8.48e-36 122
MS.gene89014.t1 AT1G03430 42.537 134 76 1 20 153 20 152 1.38e-35 121
MS.gene89014.t1 AT5G39340 44.030 134 74 1 20 153 68 200 2.15e-35 122
MS.gene89014.t1 AT5G39340 44.030 134 74 1 20 153 68 200 2.15e-35 122
MS.gene89014.t1 AT3G29350 41.221 131 77 0 20 150 19 149 8.59e-35 119
MS.gene89014.t1 AT1G03430 42.149 121 70 0 20 140 20 140 3.95e-33 115
MS.gene89014.t1 AT3G16360 41.791 134 77 1 20 153 12 144 1.37e-32 113
MS.gene89014.t1 AT3G21510 47.328 131 68 1 20 150 17 146 2.65e-32 112
MS.gene89014.t1 AT3G16360 43.333 120 67 1 23 142 9 127 9.91e-30 105
MS.gene89014.t1 AT3G29350 41.667 96 56 0 20 115 19 114 8.22e-24 90.1
MS.gene89014.t1 AT4G04402 29.012 162 98 6 4 153 6 162 1.23e-13 65.1

Find 31 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACTCTGGATGCTTGGTT+TGG 0.259246 2.1:+1729063 None:intergenic
CCACTCTGGATGCTTGGTTT+GGG 0.300260 2.1:+1729064 None:intergenic
CCTTGCATTTCTCTTCCATC+AGG 0.306041 2.1:+1729120 MS.gene89014:CDS
ACAACTTCAGAGACAAAGTT+AGG 0.349554 2.1:-1729196 None:intergenic
CAGCAACGTGCTTTGGCAGC+TGG 0.382396 2.1:+1730203 MS.gene89014:CDS
GATAGAGCAGCAACGTGCTT+TGG 0.394138 2.1:+1730196 MS.gene89014:intron
CTTGCATTTCTCTTCCATCA+GGG 0.403749 2.1:+1729121 MS.gene89014:CDS
ATACATTTGAATCAATTCAT+TGG 0.432634 2.1:+1729582 MS.gene89014:CDS
TTTGGGTGCGGACCTCTTGT+GGG 0.440442 2.1:+1729081 MS.gene89014:CDS
GGTCTTCCACTCTGGATGCT+TGG 0.445346 2.1:+1729058 None:intergenic
TTTGCGAGCGTTGGAAATGC+TGG 0.454165 2.1:+1730012 MS.gene89014:CDS
GTTTGGGTGCGGACCTCTTG+TGG 0.459527 2.1:+1729080 MS.gene89014:CDS
ATTTATTGATGCTGCTGCAT+AGG 0.460477 2.1:-1730236 None:intergenic
TTACAGCAATGATCTGAGAT+TGG 0.475206 2.1:-1729254 None:intergenic
TTTATTGATGCTGCTGCATA+GGG 0.480181 2.1:-1730235 None:intergenic
TCTGAGCAAGACAACCGTGC+TGG 0.483071 2.1:+1729666 MS.gene89014:CDS
TGCATTTCTCTTCCATCAGG+GGG 0.500140 2.1:+1729123 MS.gene89014:CDS
CTGAGCAAGACAACCGTGCT+GGG 0.507329 2.1:+1729667 MS.gene89014:CDS
CAACTTCAGAGACAAAGTTA+GGG 0.524139 2.1:-1729195 None:intergenic
TTGTAGATGTTTGCGAGCGT+TGG 0.533372 2.1:+1730003 MS.gene89014:intron
CTGGATGCTTGGTTTGGGTG+CGG 0.535283 2.1:+1729069 None:intergenic
TTGCATTTCTCTTCCATCAG+GGG 0.542436 2.1:+1729122 MS.gene89014:CDS
ATTGGTAGTAGCTCAAGCAT+TGG 0.586684 2.1:+1729600 MS.gene89014:CDS
GATGCATGTCGGCCCACAAG+AGG 0.616168 2.1:-1729093 None:intergenic
TCATCATTGTAGAATGGAGA+GGG 0.624565 2.1:+1729533 MS.gene89014:intron
TGCAAGGAGACGATGCATGT+CGG 0.635385 2.1:-1729104 None:intergenic
ATCATCATTGTAGAATGGAG+AGG 0.636661 2.1:+1729532 MS.gene89014:intron
CCTGATGGAAGAGAAATGCA+AGG 0.646278 2.1:-1729120 None:intergenic
AAAATGGAACGAACCCAGCA+CGG 0.649795 2.1:-1729680 None:intergenic
TTCAGAGACAAAGTTAGGGG+AGG 0.659336 2.1:-1729191 None:intergenic
AACTTCAGAGACAAAGTTAG+GGG 0.715591 2.1:-1729194 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATATTATATTATTATTA+TGG - chr2.1:1730135-1730154 None:intergenic 0.0%
!! TTACATAATATAGAAATATA+AGG - chr2.1:1729296-1729315 None:intergenic 10.0%
!! CTAAATTACGATAAATTATA+TGG + chr2.1:1730164-1730183 MS.gene89014:intron 15.0%
!! ATACATTTGAATCAATTCAT+TGG + chr2.1:1729582-1729601 MS.gene89014:CDS 20.0%
! CAATGATACAAAATGCATAA+TGG + chr2.1:1729930-1729949 MS.gene89014:intron 25.0%
! TAACTAGTAACTATATCTGT+AGG - chr2.1:1729365-1729384 None:intergenic 25.0%
!!! TTTTAAGAGGGAATGAAAAA+TGG - chr2.1:1729699-1729718 None:intergenic 25.0%
AGATGCAATAGAACTTTACT+TGG - chr2.1:1730081-1730100 None:intergenic 30.0%
CACAACACTAACATTGATAT+TGG - chr2.1:1729420-1729439 None:intergenic 30.0%
AACTTCAGAGACAAAGTTAG+GGG - chr2.1:1729197-1729216 None:intergenic 35.0%
ACAACTTCAGAGACAAAGTT+AGG - chr2.1:1729199-1729218 None:intergenic 35.0%
ATCATCATTGTAGAATGGAG+AGG + chr2.1:1729532-1729551 MS.gene89014:intron 35.0%
CAACTTCAGAGACAAAGTTA+GGG - chr2.1:1729198-1729217 None:intergenic 35.0%
GTGTGATCATCATTGTAGAA+TGG + chr2.1:1729527-1729546 MS.gene89014:intron 35.0%
TACAAGTTAGAACTCATCAC+TGG - chr2.1:1729970-1729989 None:intergenic 35.0%
TATATCTGTAGGTGTCTTGT+CGG - chr2.1:1729354-1729373 None:intergenic 35.0%
TCATCATTGTAGAATGGAGA+GGG + chr2.1:1729533-1729552 MS.gene89014:intron 35.0%
! AGTAGTGCACGAATTTTAAG+AGG - chr2.1:1729712-1729731 None:intergenic 35.0%
! TTACAGCAATGATCTGAGAT+TGG - chr2.1:1729257-1729276 None:intergenic 35.0%
!! AAAGTGCGTGCATTTTTAAG+TGG - chr2.1:1729836-1729855 None:intergenic 35.0%
!! GTAGTGCACGAATTTTAAGA+GGG - chr2.1:1729711-1729730 None:intergenic 35.0%
!!! AAGTGCGTGCATTTTTAAGT+GGG - chr2.1:1729835-1729854 None:intergenic 35.0%
!!! GTGCATTTTTAAGTGGGAAA+AGG - chr2.1:1729829-1729848 None:intergenic 35.0%
CTTGCATTTCTCTTCCATCA+GGG + chr2.1:1729121-1729140 MS.gene89014:CDS 40.0%
TACTTCTGATACAAGACGTC+TGG + chr2.1:1729325-1729344 MS.gene89014:intron 40.0%
TTGCATTTCTCTTCCATCAG+GGG + chr2.1:1729122-1729141 MS.gene89014:CDS 40.0%
! ATTGGTAGTAGCTCAAGCAT+TGG + chr2.1:1729600-1729619 MS.gene89014:CDS 40.0%
AAAATGGAACGAACCCAGCA+CGG - chr2.1:1729683-1729702 None:intergenic 45.0%
CCTGATGGAAGAGAAATGCA+AGG - chr2.1:1729123-1729142 None:intergenic 45.0%
CCTTGCATTTCTCTTCCATC+AGG + chr2.1:1729120-1729139 MS.gene89014:CDS 45.0%
GCTCGCAAACATCTACAATC+AGG - chr2.1:1730001-1730020 None:intergenic 45.0%
GTATGTCTGTGTGTCTGTCT+CGG + chr2.1:1729449-1729468 MS.gene89014:intron 45.0%
TGCATTTCTCTTCCATCAGG+GGG + chr2.1:1729123-1729142 MS.gene89014:CDS 45.0%
TTCAGAGACAAAGTTAGGGG+AGG - chr2.1:1729194-1729213 None:intergenic 45.0%
TTCTGATACAAGACGTCTGG+TGG + chr2.1:1729328-1729347 MS.gene89014:intron 45.0%
TTGTAGATGTTTGCGAGCGT+TGG + chr2.1:1730003-1730022 MS.gene89014:intron 45.0%
! AAAGGAAAGTGTGACAGTGG+AGG - chr2.1:1729811-1729830 None:intergenic 45.0%
! AAGGAAAGTGTGACAGTGGA+GGG - chr2.1:1729810-1729829 None:intergenic 45.0%
! GGAAAAGGAAAGTGTGACAG+TGG - chr2.1:1729814-1729833 None:intergenic 45.0%
!!! AATTTTTTATCAATAAAATA+AGG + chr2.1:1729751-1729770 MS.gene89014:intron 5.0%
GATAGAGCAGCAACGTGCTT+TGG + chr2.1:1730196-1730215 MS.gene89014:intron 50.0%
TGCAAGGAGACGATGCATGT+CGG - chr2.1:1729107-1729126 None:intergenic 50.0%
!! TGTCTGTCTCGGTGCTTCAT+AGG + chr2.1:1729460-1729479 MS.gene89014:intron 50.0%
!! TTTGCGAGCGTTGGAAATGC+TGG + chr2.1:1730012-1730031 MS.gene89014:CDS 50.0%
AGTGTGACAGTGGAGGGTTG+CGG - chr2.1:1729804-1729823 None:intergenic 55.0%
CTGAGCAAGACAACCGTGCT+GGG + chr2.1:1729667-1729686 MS.gene89014:CDS 55.0%
TCTGAGCAAGACAACCGTGC+TGG + chr2.1:1729666-1729685 MS.gene89014:CDS 55.0%
TTTGGGTGCGGACCTCTTGT+GGG + chr2.1:1729081-1729100 MS.gene89014:CDS 55.0%
! TCTCTTCCATCAGGGGGTGT+TGG + chr2.1:1729129-1729148 MS.gene89014:CDS 55.0%
CAGCAACGTGCTTTGGCAGC+TGG + chr2.1:1730203-1730222 MS.gene89014:CDS 60.0%
GATGCATGTCGGCCCACAAG+AGG - chr2.1:1729096-1729115 None:intergenic 60.0%
GCTCATCCAACACCCCCTGA+TGG - chr2.1:1729138-1729157 None:intergenic 60.0%
GTTTGGGTGCGGACCTCTTG+TGG + chr2.1:1729080-1729099 MS.gene89014:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 1729073 1730256 1729073 ID=MS.gene89014
chr2.1 mRNA 1729073 1730256 1729073 ID=MS.gene89014.t1;Parent=MS.gene89014
chr2.1 exon 1729073 1729272 1729073 ID=MS.gene89014.t1.exon1;Parent=MS.gene89014.t1
chr2.1 CDS 1729073 1729272 1729073 ID=cds.MS.gene89014.t1;Parent=MS.gene89014.t1
chr2.1 exon 1729545 1729688 1729545 ID=MS.gene89014.t1.exon2;Parent=MS.gene89014.t1
chr2.1 CDS 1729545 1729688 1729545 ID=cds.MS.gene89014.t1;Parent=MS.gene89014.t1
chr2.1 exon 1730009 1730081 1730009 ID=MS.gene89014.t1.exon3;Parent=MS.gene89014.t1
chr2.1 CDS 1730009 1730081 1730009 ID=cds.MS.gene89014.t1;Parent=MS.gene89014.t1
chr2.1 exon 1730197 1730256 1730197 ID=MS.gene89014.t1.exon4;Parent=MS.gene89014.t1
chr2.1 CDS 1730197 1730256 1730197 ID=cds.MS.gene89014.t1;Parent=MS.gene89014.t1
Gene Sequence

>MS.gene89014

ATGCTTGGTTTGGGTGCGGACCTCTTGTGGGCCGACATGCATCGTCTCCTTGCATTTCTCTTCCATCAGGGGGTGTTGGATGAGCAATTTTTGCAGCTTCAACAGCTTCAAGATCATACCTCCCCTAACTTTGTCTCTGAAGTTGTCAACATTTATTTTCATGAGTCTGAAAAACTACTCACCAATCTCAGATCATTGCTGTAATAACTCATTAATGTCTCCTTATATTTCTATATTATGTAACACTGACACTACTTCTGATACAAGACGTCTGGTGGCCGACAAGACACCTACAGATATAGTTACTAGTTATATTCGATTGTTCTATTTTTTTCACATTATTACCAATATCAATGTTAGTGTTGTGTCATGTCATGTATGTCTGTGTGTCTGTCTCGGTGCTTCATAGGAGAAATATATTCGTGTTATTATCGTGACATTAACATATATGTGTGTGTGATCATCATTGTAGAATGGAGAGGGAGTTTTCAGACTACAAGAAAATTGAAATACATTTGAATCAATTCATTGGTAGTAGCTCAAGCATTGGTGCTAAAAGAGTGACAAGCATTTGCATTGCATTTCGTGCAGCTTCTGAGCAAGACAACCGTGCTGGGTTCGTTCCATTTTTCATTCCCTCTTAAAATTCGTGCACTACTCTTTTTGTTAAATTTAGCTAATTTTTTATCAATAAAATAAGGATAATAGTTGCACTTGCTTTTAGTACTCCGCAACCCTCCACTGTCACACTTTCCTTTTCCCACTTAAAAATGCACGCACTTTATAGTTTAATACATTAATTAATTTATCATTATAGTTAATTATGATACTCTCAAATTCATTCATTCATAATACAACAATGATACAAAATGCATAATGGCTATATCATATTATCCAGTGATGAGTTCTAACTTGTAAGTATGTGCCTGATTGTAGATGTTTGCGAGCGTTGGAAATGCTGGAGCATGAATATTGCTATCTTAAAAACAAATTGCACGAACTCTTCCAAGTAAAGTTCTATTGCATCTAATTTAATCATGTTAATTTTATCATACATTACCATAATAATAATATAATATATTAGTAGTGTACTAAATTACGATAAATTATATGGTTTTGTTCAGATAGAGCAGCAACGTGCTTTGGCAGCTGGAGTGAGATACCCTATGCAGCAGCATCAATAA
Protein sequence

>MS.gene89014.t1

MLGLGADLLWADMHRLLAFLFHQGVLDEQFLQLQQLQDHTSPNFVSEVVNIYFHESEKLLTNLRSLLMEREFSDYKKIEIHLNQFIGSSSSIGAKRVTSICIAFRAASEQDNRAGCLRALEMLEHEYCYLKNKLHELFQIEQQRALAAGVRYPMQQHQ