AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01905

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01905.t1 MTR_2g023340 85.271 258 24 4 1 258 1 244 8.51e-148 413
MS.gene01905.t1 MTR_7g113680 43.697 238 121 8 21 252 80 310 3.12e-51 169
MS.gene01905.t1 MTR_1g082660 50.898 167 66 6 69 231 82 236 7.76e-48 159
MS.gene01905.t1 MTR_3g099180 54.688 128 54 1 70 197 37 160 1.27e-42 145
MS.gene01905.t1 MTR_3g099180 54.688 128 54 1 70 197 37 160 1.33e-42 144
MS.gene01905.t1 MTR_2g081600 59.740 77 30 1 89 164 23 99 7.33e-24 93.2
MS.gene01905.t1 MTR_2g081630 59.740 77 30 1 89 164 23 99 8.67e-24 93.2
MS.gene01905.t1 MTR_3g012030 42.308 78 45 0 89 166 9 86 4.00e-12 65.1
MS.gene01905.t1 MTR_8g041420 39.744 78 47 0 89 166 9 86 1.49e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01905.t1 AT1G54830 52.795 161 69 4 69 225 51 208 1.38e-49 162
MS.gene01905.t1 AT1G54830 52.795 161 69 4 69 225 51 208 1.38e-49 162
MS.gene01905.t1 AT1G54830 52.795 161 69 4 69 225 51 208 1.38e-49 162
MS.gene01905.t1 AT1G08970 50.505 198 73 8 46 238 39 216 8.66e-49 161
MS.gene01905.t1 AT1G08970 50.505 198 73 8 46 238 39 216 8.66e-49 161
MS.gene01905.t1 AT1G08970 50.505 198 73 8 46 238 39 216 8.66e-49 161
MS.gene01905.t1 AT1G08970 50.505 198 73 8 46 238 39 216 8.66e-49 161
MS.gene01905.t1 AT1G56170 59.690 129 46 3 67 193 55 179 2.36e-47 156
MS.gene01905.t1 AT1G56170 59.690 129 46 3 67 193 55 179 2.36e-47 156
MS.gene01905.t1 AT3G48590 51.299 154 57 3 70 219 47 186 5.59e-46 154
MS.gene01905.t1 AT5G63470 56.250 128 54 1 70 195 60 187 9.55e-44 149
MS.gene01905.t1 AT5G63470 56.250 128 54 1 70 195 60 187 9.55e-44 149
MS.gene01905.t1 AT5G50480 46.250 160 70 5 66 224 35 179 9.12e-37 129
MS.gene01905.t1 AT5G27910 41.176 170 78 6 65 232 16 165 5.79e-31 114
MS.gene01905.t1 AT5G50490 45.192 104 54 1 65 168 16 116 1.28e-25 100
MS.gene01905.t1 AT5G50470 41.818 110 55 2 70 173 48 154 9.69e-23 93.2
MS.gene01905.t1 AT5G38140 39.806 103 60 1 63 165 44 144 1.34e-21 89.7

Find 56 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGCTTAATCTTCTGAATT+TGG 0.149271 2.1:-65235962 None:intergenic
ATTGGGACACTTTCTCTTCT+TGG 0.187927 2.1:-65235740 None:intergenic
AATGGAGCGTGACATATTTA+TGG 0.236296 2.1:+65235709 MS.gene01905:CDS
GGCGAGGCACTGATACTATT+TGG 0.252757 2.1:-65235271 None:intergenic
TGGTCCTCCAAGAATGCTTA+TGG 0.263320 2.1:+65235832 MS.gene01905:CDS
GGCATGTGAAATGTTTATTA+TGG 0.268895 2.1:+65235553 MS.gene01905:CDS
TGTCTTCCCATAAGCATTCT+TGG 0.296015 2.1:-65235839 None:intergenic
GAATTTGGCAAATCAGTAGA+AGG 0.372595 2.1:-65235947 None:intergenic
ATCTTCTTAATCCTTGCTAA+TGG 0.378288 2.1:-65235470 None:intergenic
GTGCCACCTCAGTATGTTGC+AGG 0.380885 2.1:+65235800 MS.gene01905:CDS
TAATAAGGAACATTCCCTAT+TGG 0.390711 2.1:-65235758 None:intergenic
ACAGACATAGGCAGATAATA+AGG 0.391390 2.1:-65235773 None:intergenic
AATAAGGAACATTCCCTATT+GGG 0.400669 2.1:-65235757 None:intergenic
GTTGTCGGTGAGAGATTTCA+TGG 0.405799 2.1:-65235352 None:intergenic
CCCGTTGTAAGGAGGTTGAT+TGG 0.412220 2.1:-65235867 None:intergenic
AGAAGAGAAAGTGTCCCAAT+AGG 0.412571 2.1:+65235743 MS.gene01905:CDS
GGAAACATTTGATTTGCAAA+AGG 0.414669 2.1:-65235902 None:intergenic
ATGGAGCGTGACATATTTAT+GGG 0.417294 2.1:+65235710 MS.gene01905:CDS
GAAACATTTGATTTGCAAAA+GGG 0.434507 2.1:-65235901 None:intergenic
ACTGTTGATTTCAAAAGTAA+TGG 0.437192 2.1:+65235443 MS.gene01905:CDS
GAAGAGAAAGTGTCCCAATA+GGG 0.454022 2.1:+65235744 MS.gene01905:CDS
TCTACTCAGGTATGATGAAA+AGG 0.465576 2.1:-65235321 None:intergenic
GGTCCTCCAAGAATGCTTAT+GGG 0.469493 2.1:+65235833 MS.gene01905:CDS
CCGTTGTAAGGAGGTTGATT+GGG 0.477387 2.1:-65235866 None:intergenic
CCAATCAACCTCCTTACAAC+GGG 0.477395 2.1:+65235867 MS.gene01905:CDS
CATGCCTTAGCAAACAGAAT+AGG 0.486382 2.1:-65235536 None:intergenic
CCTAGTTGATATTGTCCCTA+GGG 0.487741 2.1:+65235679 MS.gene01905:CDS
TGGAGCTAGCAACAAGGTCA+TGG 0.501489 2.1:+65235573 MS.gene01905:CDS
AAGATCATGAAAACAGAAGA+AGG 0.505724 2.1:+65235488 MS.gene01905:CDS
CCCTAGGGACAATATCAACT+AGG 0.511793 2.1:-65235679 None:intergenic
TGTGATGGATGCCCGTTGTA+AGG 0.514096 2.1:-65235878 None:intergenic
TATGTTGCAGGTCCATCATA+TGG 0.515120 2.1:+65235812 MS.gene01905:CDS
GGCACCTATTCTGTTTGCTA+AGG 0.530640 2.1:+65235532 MS.gene01905:CDS
CATGGAGTTGAACTCTACTC+AGG 0.552006 2.1:-65235334 None:intergenic
TGATTTGCAAAAGGGTGTGA+TGG 0.553637 2.1:-65235893 None:intergenic
GCACTTGCAGTGTGAAACAA+AGG 0.556863 2.1:-65235293 None:intergenic
TCCTAGTTGATATTGTCCCT+AGG 0.558927 2.1:+65235678 MS.gene01905:CDS
CTTCCCATAAGCATTCTTGG+AGG 0.580142 2.1:-65235836 None:intergenic
GGAGCTAGCAACAAGGTCAT+GGG 0.582315 2.1:+65235574 MS.gene01905:CDS
CACTTGCAGTGTGAAACAAA+GGG 0.597437 2.1:-65235292 None:intergenic
GTAATGGCTTGCCATTAGCA+AGG 0.597965 2.1:+65235459 MS.gene01905:CDS
CCCAATCAACCTCCTTACAA+CGG 0.599569 2.1:+65235866 MS.gene01905:CDS
ATTCTTGGAGGACCATATGA+TGG 0.609961 2.1:-65235824 None:intergenic
GGTGGCACATGAACAGACAT+AGG 0.629233 2.1:-65235785 None:intergenic
AAGGTCATGGGCTAATACAG+AGG 0.637560 2.1:+65235586 MS.gene01905:CDS
TGGAGCGTGACATATTTATG+GGG 0.644468 2.1:+65235711 MS.gene01905:CDS
GCAGTGTGAAACAAAGGGCG+AGG 0.647228 2.1:-65235287 None:intergenic
AATTTGGCAAATCAGTAGAA+GGG 0.648246 2.1:-65235946 None:intergenic
GATGGATGCCCGTTGTAAGG+AGG 0.657482 2.1:-65235875 None:intergenic
GGAGCGTGACATATTTATGG+GGG 0.659242 2.1:+65235712 MS.gene01905:CDS
AGTGAGTATGATATCAGCTG+AGG 0.690629 2.1:+65235511 MS.gene01905:CDS
TTATTATGGAGCTAGCAACA+AGG 0.697305 2.1:+65235567 MS.gene01905:CDS
GAGCGTGACATATTTATGGG+GGG 0.703925 2.1:+65235713 MS.gene01905:CDS
GGACCTGCAACATACTGAGG+TGG 0.712994 2.1:-65235803 None:intergenic
GATGGACCTGCAACATACTG+AGG 0.735823 2.1:-65235806 None:intergenic
AAAGACACAAGTGAACCCAG+AGG 0.809094 2.1:+65235211 MS.gene01905:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACTGTTGATTTCAAAAGTAA+TGG + chr2.1:65235443-65235462 MS.gene01905:CDS 25.0%
!!! ATTCTTGTTGTTTTTGTTGT+CGG - chr2.1:65235370-65235389 None:intergenic 25.0%
!!! GAAACATTTGATTTGCAAAA+GGG - chr2.1:65235904-65235923 None:intergenic 25.0%
AAGATCATGAAAACAGAAGA+AGG + chr2.1:65235488-65235507 MS.gene01905:CDS 30.0%
AATAAGGAACATTCCCTATT+GGG - chr2.1:65235760-65235779 None:intergenic 30.0%
AATTTGGCAAATCAGTAGAA+GGG - chr2.1:65235949-65235968 None:intergenic 30.0%
ATCTTCTTAATCCTTGCTAA+TGG - chr2.1:65235473-65235492 None:intergenic 30.0%
CAAGAATTGCAGAAAAAACT+TGG + chr2.1:65235383-65235402 MS.gene01905:CDS 30.0%
GGCATGTGAAATGTTTATTA+TGG + chr2.1:65235553-65235572 MS.gene01905:CDS 30.0%
TAATAAGGAACATTCCCTAT+TGG - chr2.1:65235761-65235780 None:intergenic 30.0%
!! GGAAACATTTGATTTGCAAA+AGG - chr2.1:65235905-65235924 None:intergenic 30.0%
!! TGGTTTGATTGATTTTGTGT+TGG - chr2.1:65235254-65235273 None:intergenic 30.0%
!!! TATCATTCCTTTTTTCCTCT+GGG - chr2.1:65235229-65235248 None:intergenic 30.0%
AATGGAGCGTGACATATTTA+TGG + chr2.1:65235709-65235728 MS.gene01905:CDS 35.0%
ACAGACATAGGCAGATAATA+AGG - chr2.1:65235776-65235795 None:intergenic 35.0%
ATGGAGCGTGACATATTTAT+GGG + chr2.1:65235710-65235729 MS.gene01905:CDS 35.0%
GAATTTGGCAAATCAGTAGA+AGG - chr2.1:65235950-65235969 None:intergenic 35.0%
TCTACTCAGGTATGATGAAA+AGG - chr2.1:65235324-65235343 None:intergenic 35.0%
TTATTATGGAGCTAGCAACA+AGG + chr2.1:65235567-65235586 MS.gene01905:CDS 35.0%
!! AAGGGTCGTTTTCTTTCTTT+GGG - chr2.1:65235931-65235950 None:intergenic 35.0%
!!! GTATCATTCCTTTTTTCCTC+TGG - chr2.1:65235230-65235249 None:intergenic 35.0%
!!! TTCATTTTGTTTTGCCCAGA+AGG - chr2.1:65235411-65235430 None:intergenic 35.0%
AAGTGAACCCAGAGGAAAAA+AGG + chr2.1:65235219-65235238 MS.gene01905:CDS 40.0%
AGAAAAAACTTGGCACCTTC+TGG + chr2.1:65235393-65235412 MS.gene01905:CDS 40.0%
AGTGAGTATGATATCAGCTG+AGG + chr2.1:65235511-65235530 MS.gene01905:CDS 40.0%
ATTCTTGGAGGACCATATGA+TGG - chr2.1:65235827-65235846 None:intergenic 40.0%
ATTGGGACACTTTCTCTTCT+TGG - chr2.1:65235743-65235762 None:intergenic 40.0%
CACTTGCAGTGTGAAACAAA+GGG - chr2.1:65235295-65235314 None:intergenic 40.0%
CATGCCTTAGCAAACAGAAT+AGG - chr2.1:65235539-65235558 None:intergenic 40.0%
GAAAAAACTTGGCACCTTCT+GGG + chr2.1:65235394-65235413 MS.gene01905:CDS 40.0%
TATGTTGCAGGTCCATCATA+TGG + chr2.1:65235812-65235831 MS.gene01905:CDS 40.0%
TGGAGCGTGACATATTTATG+GGG + chr2.1:65235711-65235730 MS.gene01905:CDS 40.0%
TGTCCCTAGGGAAAAAACAA+TGG + chr2.1:65235691-65235710 MS.gene01905:CDS 40.0%
TGTCTTCCCATAAGCATTCT+TGG - chr2.1:65235842-65235861 None:intergenic 40.0%
! CCTAGTTGATATTGTCCCTA+GGG + chr2.1:65235679-65235698 MS.gene01905:CDS 40.0%
! TCCTAGTTGATATTGTCCCT+AGG + chr2.1:65235678-65235697 MS.gene01905:CDS 40.0%
! TGATTTGCAAAAGGGTGTGA+TGG - chr2.1:65235896-65235915 None:intergenic 40.0%
!! AGAAGAGAAAGTGTCCCAAT+AGG + chr2.1:65235743-65235762 MS.gene01905:CDS 40.0%
!! AGGGTCGTTTTCTTTCTTTG+GGG - chr2.1:65235930-65235949 None:intergenic 40.0%
!! GAAGAGAAAGTGTCCCAATA+GGG + chr2.1:65235744-65235763 MS.gene01905:CDS 40.0%
!! GAAGGGTCGTTTTCTTTCTT+TGG - chr2.1:65235932-65235951 None:intergenic 40.0%
!!! GCTCCATTGTTTTTTCCCTA+GGG - chr2.1:65235697-65235716 None:intergenic 40.0%
!!! TCGTTTTCTTTCTTTGGGGT+TGG - chr2.1:65235926-65235945 None:intergenic 40.0%
AAAGACACAAGTGAACCCAG+AGG + chr2.1:65235211-65235230 MS.gene01905:CDS 45.0%
CATGGAGTTGAACTCTACTC+AGG - chr2.1:65235337-65235356 None:intergenic 45.0%
CCAATCAACCTCCTTACAAC+GGG + chr2.1:65235867-65235886 MS.gene01905:CDS 45.0%
CCCAATCAACCTCCTTACAA+CGG + chr2.1:65235866-65235885 MS.gene01905:CDS 45.0%
CCCTAGGGACAATATCAACT+AGG - chr2.1:65235682-65235701 None:intergenic 45.0%
CTTCCCATAAGCATTCTTGG+AGG - chr2.1:65235839-65235858 None:intergenic 45.0%
GAGCGTGACATATTTATGGG+GGG + chr2.1:65235713-65235732 MS.gene01905:CDS 45.0%
GCACTTGCAGTGTGAAACAA+AGG - chr2.1:65235296-65235315 None:intergenic 45.0%
GGAGCGTGACATATTTATGG+GGG + chr2.1:65235712-65235731 MS.gene01905:CDS 45.0%
GGTCCTCCAAGAATGCTTAT+GGG + chr2.1:65235833-65235852 MS.gene01905:CDS 45.0%
GTTGTCGGTGAGAGATTTCA+TGG - chr2.1:65235355-65235374 None:intergenic 45.0%
TGGTCCTCCAAGAATGCTTA+TGG + chr2.1:65235832-65235851 MS.gene01905:CDS 45.0%
! AAGGTCATGGGCTAATACAG+AGG + chr2.1:65235586-65235605 MS.gene01905:CDS 45.0%
! CCGTTGTAAGGAGGTTGATT+GGG - chr2.1:65235869-65235888 None:intergenic 45.0%
! GGCACCTATTCTGTTTGCTA+AGG + chr2.1:65235532-65235551 MS.gene01905:CDS 45.0%
! GTAATGGCTTGCCATTAGCA+AGG + chr2.1:65235459-65235478 MS.gene01905:CDS 45.0%
!!! CGCTCCATTGTTTTTTCCCT+AGG - chr2.1:65235698-65235717 None:intergenic 45.0%
GATGGACCTGCAACATACTG+AGG - chr2.1:65235809-65235828 None:intergenic 50.0%
GGAGCTAGCAACAAGGTCAT+GGG + chr2.1:65235574-65235593 MS.gene01905:CDS 50.0%
GGTGGCACATGAACAGACAT+AGG - chr2.1:65235788-65235807 None:intergenic 50.0%
TGGAGCTAGCAACAAGGTCA+TGG + chr2.1:65235573-65235592 MS.gene01905:CDS 50.0%
! CCCGTTGTAAGGAGGTTGAT+TGG - chr2.1:65235870-65235889 None:intergenic 50.0%
!! GGCGAGGCACTGATACTATT+TGG - chr2.1:65235274-65235293 None:intergenic 50.0%
!! TGTGATGGATGCCCGTTGTA+AGG - chr2.1:65235881-65235900 None:intergenic 50.0%
GATGGATGCCCGTTGTAAGG+AGG - chr2.1:65235878-65235897 None:intergenic 55.0%
GCAGTGTGAAACAAAGGGCG+AGG - chr2.1:65235290-65235309 None:intergenic 55.0%
GGACCTGCAACATACTGAGG+TGG - chr2.1:65235806-65235825 None:intergenic 55.0%
GTGCCACCTCAGTATGTTGC+AGG + chr2.1:65235800-65235819 MS.gene01905:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 65235203 65235979 65235203 ID=MS.gene01905
chr2.1 mRNA 65235203 65235979 65235203 ID=MS.gene01905.t1;Parent=MS.gene01905
chr2.1 exon 65235203 65235979 65235203 ID=MS.gene01905.t1.exon1;Parent=MS.gene01905.t1
chr2.1 CDS 65235203 65235979 65235203 ID=cds.MS.gene01905.t1;Parent=MS.gene01905.t1
Gene Sequence

>MS.gene01905

ATGGATCAAAAGACACAAGTGAACCCAGAGGAAAAAAGGAATGATACACCAACACAAAATCAATCAAACCAAATAGTATCAGTGCCTCGCCCTTTGTTTCACACTGCAAGTGCTTCTGCCTTTTCATCATACCTGAGTAGAGTTCAACTCCATGAAATCTCTCACCGACAACAAAAACAACAAGAATTGCAGAAAAAACTTGGCACCTTCTGGGCAAAACAAAATGAAGAAGTTCAGAAGACTGTTGATTTCAAAAGTAATGGCTTGCCATTAGCAAGGATTAAGAAGATCATGAAAACAGAAGAAGGAGTGAGTATGATATCAGCTGAGGCACCTATTCTGTTTGCTAAGGCATGTGAAATGTTTATTATGGAGCTAGCAACAAGGTCATGGGCTAATACAGAGGTGAACAAAAGAAAGACACTTCAAAAGAGTGACATTGCATCTGCTGTCTCAAGTAATGAAGTGTTTGATTTCCTAGTTGATATTGTCCCTAGGGAAAAAACAATGGAGCGTGACATATTTATGGGGGGTATACCAAGAAGAGAAAGTGTCCCAATAGGGAATGTTCCTTATTATCTGCCTATGTCTGTTCATGTGCCACCTCAGTATGTTGCAGGTCCATCATATGGTCCTCCAAGAATGCTTATGGGAAGACATCTTCCCAATCAACCTCCTTACAACGGGCATCCATCACACCCTTTTGCAAATCAAATGTTTCCAACCCCAAAGAAAGAAAACGACCCTTCTACTGATTTGCCAAATTCAGAAGATTAA
Protein sequence

>MS.gene01905.t1

MDQKTQVNPEEKRNDTPTQNQSNQIVSVPRPLFHTASASAFSSYLSRVQLHEISHRQQKQQELQKKLGTFWAKQNEEVQKTVDFKSNGLPLARIKKIMKTEEGVSMISAEAPILFAKACEMFIMELATRSWANTEVNKRKTLQKSDIASAVSSNEVFDFLVDIVPREKTMERDIFMGGIPRRESVPIGNVPYYLPMSVHVPPQYVAGPSYGPPRMLMGRHLPNQPPYNGHPSHPFANQMFPTPKKENDPSTDLPNSED