AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068172

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068172.t1 MTR_2g435310 97.500 160 4 0 1 160 1 160 4.40e-114 320
MS.gene068172.t1 MTR_4g120760 74.843 159 40 0 1 159 1 159 9.87e-90 258
MS.gene068172.t1 MTR_4g120760 74.214 159 41 0 1 159 1 159 5.46e-89 256
MS.gene068172.t1 MTR_2g035100 41.026 156 91 1 1 156 1 155 2.67e-39 130
MS.gene068172.t1 MTR_2g035105 39.490 157 94 1 1 157 1 156 8.33e-38 127
MS.gene068172.t1 MTR_2g035150 38.854 157 95 1 1 157 1 156 9.08e-37 124
MS.gene068172.t1 MTR_2g035130 37.580 157 97 1 1 157 1 156 3.29e-36 123
MS.gene068172.t1 MTR_2g035120 37.580 157 97 1 1 157 1 156 6.02e-36 122
MS.gene068172.t1 MTR_6g033450 37.821 156 96 1 1 156 1 155 2.75e-33 115
MS.gene068172.t1 MTR_4g120970 37.821 156 96 1 1 156 1 155 2.75e-33 115
MS.gene068172.t1 MTR_2g035320 32.051 156 105 1 1 156 1 155 1.14e-29 106
MS.gene068172.t1 MTR_2g035170 36.184 152 94 2 7 156 5 155 2.57e-29 105
MS.gene068172.t1 MTR_2g035210 31.410 156 106 1 1 156 1 155 6.11e-29 104
MS.gene068172.t1 MTR_2g035220 31.126 151 103 1 6 156 6 155 9.62e-29 103
MS.gene068172.t1 MTR_2g035190 30.769 156 107 1 1 156 1 155 1.14e-27 101
MS.gene068172.t1 MTR_4g120950 34.177 158 100 3 1 156 1 156 7.51e-26 96.7
MS.gene068172.t1 MTR_2g035320 32.222 90 61 0 67 156 31 120 4.85e-13 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 33 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACAACCTCCATCATTAA+TGG 0.267686 2.3:+55585144 None:intergenic
ACTAGCAAATACAATGCTAT+TGG 0.309101 2.3:-55585112 MS.gene068172:CDS
CTAGCAAATACAATGCTATT+GGG 0.326067 2.3:-55585111 MS.gene068172:CDS
ATGAACTGAGGTAAGAGTTT+TGG 0.327571 2.3:+55585830 None:intergenic
GCTTGAGTCAATTGCTTATG+AGG 0.335592 2.3:-55585179 MS.gene068172:CDS
TTCCAGCTTCTCCATTTCCT+TGG 0.338136 2.3:+55585789 None:intergenic
AGTCAAAGAGGAAGAGATAA+AGG 0.347021 2.3:-55585080 MS.gene068172:CDS
GACTCAAGCTTGTCACCTAA+TGG 0.355452 2.3:+55585193 None:intergenic
TGCTCCATCACGTATGTTCA+AGG 0.390448 2.3:-55585882 MS.gene068172:CDS
AACATACGTGATGGAGCAAT+AGG 0.416199 2.3:+55585887 None:intergenic
AGGAAGAGATAAAGGAAGGA+AGG 0.431527 2.3:-55585072 MS.gene068172:CDS
GTCAACGTAATCCAAGGAAA+TGG 0.442764 2.3:-55585800 MS.gene068172:CDS
TGCTTATGAGGTTAAGTTTG+AGG 0.448209 2.3:-55585167 MS.gene068172:CDS
ACATACGTGATGGAGCAATA+GGG 0.457948 2.3:+55585888 None:intergenic
CACAACTTTGCAAATTCCAA+TGG 0.469640 2.3:+55585042 None:intergenic
AAGTTTGAGGCCATTAATGA+TGG 0.470153 2.3:-55585154 MS.gene068172:CDS
GGAAGAATAATTATTTGTAA+AGG 0.473368 2.3:+55585910 None:intergenic
AGTTGTGGAAGCATACTTGC+TGG 0.476134 2.3:-55585026 MS.gene068172:CDS
ATCCAAGGAAATGGAGAAGC+TGG 0.480647 2.3:-55585791 MS.gene068172:CDS
ATGATTGAAGGAGATCCATT+AGG 0.495029 2.3:-55585208 MS.gene068172:CDS
CATTGGAATTTGCAAAGTTG+TGG 0.510944 2.3:-55585041 MS.gene068172:CDS
GGAAGAGATAAAGGAAGGAA+GGG 0.516313 2.3:-55585071 MS.gene068172:CDS
TGCAACTACACTATGATTGA+AGG 0.519866 2.3:-55585220 MS.gene068172:CDS
GAAGGAAGGGAAAACTCCAT+TGG 0.523267 2.3:-55585058 MS.gene068172:CDS
AAAGAGGAAGAGATAAAGGA+AGG 0.532049 2.3:-55585076 MS.gene068172:CDS
TATGATTGATAATGATAACT+TGG 0.540241 2.3:-55585245 MS.gene068172:CDS
CATACGTGATGGAGCAATAG+GGG 0.553823 2.3:+55585889 None:intergenic
TTTGAGGCCATTAATGATGG+AGG 0.588869 2.3:-55585151 MS.gene068172:CDS
AAAGATGTCAACGTAATCCA+AGG 0.591971 2.3:-55585806 MS.gene068172:CDS
TAGCAAATACAATGCTATTG+GGG 0.598363 2.3:-55585110 MS.gene068172:CDS
AATAACTAAACATAGACTTG+TGG 0.600652 2.3:+55584998 None:intergenic
AAAGCCTTGAACATACGTGA+TGG 0.622247 2.3:+55585878 None:intergenic
TGTAAAGGTTGAGACGACCA+TGG 0.669945 2.3:+55585925 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACCTCAAATAAAAAATATTT+AGG - chr2.3:55585407-55585426 MS.gene068172:intron 15.0%
!!! AAAAAAAAACATTTTAAAGC+TGG - chr2.3:55585200-55585219 MS.gene068172:CDS 15.0%
!!! TTTTCTTTTTTTCTTTATGT+TGG - chr2.3:55585271-55585290 MS.gene068172:CDS 15.0%
!! AACCCTAAATAAGATTTATT+TGG + chr2.3:55585554-55585573 None:intergenic 20.0%
!! ACATGAATGATAAAATCTAA+AGG - chr2.3:55585437-55585456 MS.gene068172:intron 20.0%
!! ACCCTAAATAAGATTTATTT+GGG + chr2.3:55585553-55585572 None:intergenic 20.0%
!! CTTTCAAATATTTGAAAAAC+AGG - chr2.3:55585653-55585672 MS.gene068172:intron 20.0%
!! GGAAGAATAATTATTTGTAA+AGG + chr2.3:55585019-55585038 None:intergenic 20.0%
!!! ATAAGTAAGAATTGTTATTG+AGG + chr2.3:55585606-55585625 None:intergenic 20.0%
!!! CTGTTTTTCAAATATTTGAA+AGG + chr2.3:55585655-55585674 None:intergenic 20.0%
!!! GCCTAAATATTTTTTATTTG+AGG + chr2.3:55585411-55585430 None:intergenic 20.0%
!!! TATGATTGATAATGATAACT+TGG - chr2.3:55585681-55585700 MS.gene068172:intron 20.0%
!! GCCCAAATAAATCTTATTTA+GGG - chr2.3:55585549-55585568 MS.gene068172:intron 25.0%
!! TGCCCAAATAAATCTTATTT+AGG - chr2.3:55585548-55585567 MS.gene068172:intron 25.0%
AAAACAACCTCCATCATTAA+TGG + chr2.3:55585785-55585804 None:intergenic 30.0%
ACTAGCAAATACAATGCTAT+TGG - chr2.3:55585814-55585833 MS.gene068172:CDS 30.0%
CTAGCAAATACAATGCTATT+GGG - chr2.3:55585815-55585834 MS.gene068172:CDS 30.0%
TAGCAAATACAATGCTATTG+GGG - chr2.3:55585816-55585835 MS.gene068172:CDS 30.0%
! AATTGTTATTGAGGCAACAT+AGG + chr2.3:55585597-55585616 None:intergenic 30.0%
! GAACAAGTTAATTTTGCTGA+AGG - chr2.3:55585165-55585184 MS.gene068172:CDS 30.0%
! TTGACATCTTTTATGAACTG+AGG + chr2.3:55585111-55585130 None:intergenic 30.0%
AAAGAGGAAGAGATAAAGGA+AGG - chr2.3:55585850-55585869 MS.gene068172:CDS 35.0%
AAAGATGTCAACGTAATCCA+AGG - chr2.3:55585120-55585139 MS.gene068172:CDS 35.0%
AGTCAAAGAGGAAGAGATAA+AGG - chr2.3:55585846-55585865 MS.gene068172:CDS 35.0%
ATGATTGAAGGAGATCCATT+AGG - chr2.3:55585718-55585737 MS.gene068172:intron 35.0%
CACAACTTTGCAAATTCCAA+TGG + chr2.3:55585887-55585906 None:intergenic 35.0%
CATTGGAATTTGCAAAGTTG+TGG - chr2.3:55585885-55585904 MS.gene068172:CDS 35.0%
GTTGCGAGAAATACTTAGTT+TGG - chr2.3:55585380-55585399 MS.gene068172:intron 35.0%
TGCAACTACACTATGATTGA+AGG - chr2.3:55585706-55585725 MS.gene068172:intron 35.0%
TGCTTATGAGGTTAAGTTTG+AGG - chr2.3:55585759-55585778 MS.gene068172:intron 35.0%
! AAGTTTGAGGCCATTAATGA+TGG - chr2.3:55585772-55585791 MS.gene068172:CDS 35.0%
! ATGAACTGAGGTAAGAGTTT+TGG + chr2.3:55585099-55585118 None:intergenic 35.0%
AAAGCCTTGAACATACGTGA+TGG + chr2.3:55585051-55585070 None:intergenic 40.0%
AGGAAGAGATAAAGGAAGGA+AGG - chr2.3:55585854-55585873 MS.gene068172:CDS 40.0%
GCTTGAGTCAATTGCTTATG+AGG - chr2.3:55585747-55585766 MS.gene068172:intron 40.0%
GGAAGAGATAAAGGAAGGAA+GGG - chr2.3:55585855-55585874 MS.gene068172:CDS 40.0%
GTCAACGTAATCCAAGGAAA+TGG - chr2.3:55585126-55585145 MS.gene068172:CDS 40.0%
! AACATACGTGATGGAGCAAT+AGG + chr2.3:55585042-55585061 None:intergenic 40.0%
! ACATACGTGATGGAGCAATA+GGG + chr2.3:55585041-55585060 None:intergenic 40.0%
! TTTGAGGCCATTAATGATGG+AGG - chr2.3:55585775-55585794 MS.gene068172:CDS 40.0%
!!! TGGGGATTTTGAAGTCAAAG+AGG - chr2.3:55585834-55585853 MS.gene068172:CDS 40.0%
ATCCAAGGAAATGGAGAAGC+TGG - chr2.3:55585135-55585154 MS.gene068172:CDS 45.0%
GAAGGAAGGGAAAACTCCAT+TGG - chr2.3:55585868-55585887 MS.gene068172:CDS 45.0%
GACTCAAGCTTGTCACCTAA+TGG + chr2.3:55585736-55585755 None:intergenic 45.0%
TGCTCCATCACGTATGTTCA+AGG - chr2.3:55585044-55585063 MS.gene068172:CDS 45.0%
TTCCAGCTTCTCCATTTCCT+TGG + chr2.3:55585140-55585159 None:intergenic 45.0%
! AGTTGTGGAAGCATACTTGC+TGG - chr2.3:55585900-55585919 MS.gene068172:CDS 45.0%
! CATACGTGATGGAGCAATAG+GGG + chr2.3:55585040-55585059 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 55585003 55585945 55585003 ID=MS.gene068172
chr2.3 mRNA 55585003 55585945 55585003 ID=MS.gene068172.t1;Parent=MS.gene068172
chr2.3 exon 55585762 55585945 55585762 ID=MS.gene068172.t1.exon1;Parent=MS.gene068172.t1
chr2.3 CDS 55585762 55585945 55585762 ID=cds.MS.gene068172.t1;Parent=MS.gene068172.t1
chr2.3 exon 55585003 55585301 55585003 ID=MS.gene068172.t1.exon2;Parent=MS.gene068172.t1
chr2.3 CDS 55585003 55585301 55585003 ID=cds.MS.gene068172.t1;Parent=MS.gene068172.t1
Gene Sequence

>MS.gene068172

ATGGTCGTCTCAACCTTTACAAATAATTATTCTTCCCCTATTGCTCCATCACGTATGTTCAAGGCTTTAATCACAGACTCTAGCAATTTGCTTCCAAAACTCTTACCTCAGTTCATAAAAGATGTCAACGTAATCCAAGGAAATGGAGAAGCTGGAACAATTGAACAAGTTAATTTTGCTGAAGGTTAGCATAAAAAAAAAAAAAACATTTTAAAGCTGGAAGAATTAAAATGCTCTTTTTATTTTTTATTTTTAAATTTAAAGAGATTTTTCTTTTTTTCTTTATGTTGGTTGAATAACTTCTTACTTACATGTTTCATTTTAGAGAGAAAAAATAGACTTATATTTTTATTGAAAAGTGATTTTTTTTCTTCTAAGTTGCGAGAAATACTTAGTTTGGCACAACCTCAAATAAAAAATATTTAGGCACATACACATGAATGATAAAATCTAAAGGAAAAATAATTTAATCACATTGCTCTCAAAAAAAAAAAAAATTAGTCACATCATTTCTCTTTTAAATTTTCATCAATCATGTGTTTGTGTGCCCAAATAAATCTTATTTAGGGTTGTGTCAATACAAGACTTGCTCCTATGTTGCCTCAATAACAATTCTTACTTATATGTTCTATTTATCATTGCAGCTAGTCCTTTCAAATATTTGAAAAACAGGATTGATATGATTGATAATGATAACTTGGTGTGCAACTACACTATGATTGAAGGAGATCCATTAGGTGACAAGCTTGAGTCAATTGCTTATGAGGTTAAGTTTGAGGCCATTAATGATGGAGGTTGTTTTTGTAAAATGACTAGCAAATACAATGCTATTGGGGATTTTGAAGTCAAAGAGGAAGAGATAAAGGAAGGAAGGGAAAACTCCATTGGAATTTGCAAAGTTGTGGAAGCATACTTGCTGGAGAATCCACAAGTCTATGTTTAG
Protein sequence

>MS.gene068172.t1

MVVSTFTNNYSSPIAPSRMFKALITDSSNLLPKLLPQFIKDVNVIQGNGEAGTIEQVNFAEASPFKYLKNRIDMIDNDNLVCNYTMIEGDPLGDKLESIAYEVKFEAINDGGCFCKMTSKYNAIGDFEVKEEEIKEGRENSIGICKVVEAYLLENPQVYV