AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97317

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97317.t1 MTR_7g077620 66.577 371 122 2 1 371 1 369 3.05e-167 473
MS.gene97317.t1 MTR_7g077650 63.421 380 125 5 1 374 1 372 2.46e-158 449
MS.gene97317.t1 MTR_7g077660 62.205 381 124 6 1 374 1 368 4.15e-152 433
MS.gene97317.t1 MTR_7g076110 54.392 296 124 6 86 374 22 313 6.05e-97 291
MS.gene97317.t1 MTR_7g076100 62.869 237 86 2 138 374 66 300 1.04e-92 280
MS.gene97317.t1 MTR_7g076100 78.000 50 11 0 4 53 5 54 2.28e-20 90.9
MS.gene97317.t1 MTR_1g108740 45.431 383 159 15 1 372 1 344 2.71e-86 265
MS.gene97317.t1 MTR_5g038260 41.646 401 184 15 3 374 4 383 1.80e-78 246
MS.gene97317.t1 MTR_5g082770 46.624 311 131 8 5 306 4 288 4.26e-74 232
MS.gene97317.t1 MTR_5g038230 40.609 394 164 15 5 372 4 353 6.31e-73 231
MS.gene97317.t1 MTR_1g064570 39.618 419 186 15 3 374 2 400 4.93e-71 228
MS.gene97317.t1 MTR_1g016150 50.794 189 86 5 1 184 1 187 7.27e-51 170
MS.gene97317.t1 MTR_1g016150 60.000 65 20 2 256 320 177 235 1.06e-11 64.7
MS.gene97317.t1 MTR_7g076130 64.800 125 44 0 167 291 24 148 8.24e-48 159
MS.gene97317.t1 MTR_5g082780 39.823 226 102 8 119 331 6 210 1.13e-33 125
MS.gene97317.t1 MTR_1g108750 46.154 156 48 5 5 159 4 124 3.05e-25 99.4
MS.gene97317.t1 MTR_3g114970 23.821 403 224 18 1 370 1 353 4.23e-14 73.2
MS.gene97317.t1 MTR_3g114990 23.040 421 236 18 4 370 22 408 4.27e-13 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 71 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGAGCAAGCCAATCATTT+TGG 0.214143 7.3:-78820193 MS.gene97317:CDS
TTCTCATAGTAAGTAAAATT+AGG 0.229231 7.3:+78820038 None:intergenic
AATGAACAAACTTGAGAGTT+TGG 0.291432 7.3:-78819832 MS.gene97317:CDS
GATCTTTACCCCGTTCCTTT+AGG 0.303694 7.3:-78819647 MS.gene97317:CDS
TAATCACTTGGGCTTGTAAT+CGG 0.334999 7.3:+78820257 None:intergenic
AAGAACACATAGATCATGTT+AGG 0.348741 7.3:-78820640 MS.gene97317:CDS
TTCGAGAGGTGGCAAACTAA+TGG 0.352493 7.3:+78820310 None:intergenic
AGAAGCCTATCCTCTTAGTT+TGG 0.365278 7.3:-78820678 MS.gene97317:CDS
CAAGAATATGAGTGTGTGTT+TGG 0.368427 7.3:-78820414 MS.gene97317:CDS
TAGCAATGGGGAAGTTAGAT+TGG 0.377310 7.3:-78820709 None:intergenic
TCTCATAGTAAGTAAAATTA+GGG 0.387493 7.3:+78820039 None:intergenic
TCGAGAGGTGGCAAACTAAT+GGG 0.396706 7.3:+78820311 None:intergenic
CACATAGATCATGTTAGGTT+TGG 0.400301 7.3:-78820635 MS.gene97317:CDS
TAGCATCGTCCTAAAGGAAC+GGG 0.405182 7.3:+78819638 None:intergenic
GAAGGATGGGATAACTGAAT+AGG 0.410351 7.3:+78820440 None:intergenic
AAAGACCTCCACAATAGCTT+GGG 0.418793 7.3:+78819985 None:intergenic
AGCCTCTTCTTTCTCCAAGA+TGG 0.427832 7.3:-78819760 MS.gene97317:CDS
TGATGTTTACAAATTAGAAC+TGG 0.441577 7.3:-78819880 MS.gene97317:CDS
GTAAACATCAAAATTATATG+AGG 0.442356 7.3:+78819893 None:intergenic
AATCACTTGGGCTTGTAATC+GGG 0.450364 7.3:+78820258 None:intergenic
CTACACGGATCCAAAATGAT+TGG 0.454970 7.3:+78820183 None:intergenic
AAGAATATGAGTGTGTGTTT+GGG 0.458889 7.3:-78820413 MS.gene97317:CDS
AAGGATGGGATAACTGAATA+GGG 0.469372 7.3:+78820441 None:intergenic
TTGGCGTGGTGTGCAAGAAT+TGG 0.475029 7.3:-78820616 MS.gene97317:CDS
AAAATGTAGCATCGTCCTAA+AGG 0.495677 7.3:+78819632 None:intergenic
TAAAGACCTCCACAATAGCT+TGG 0.498370 7.3:+78819984 None:intergenic
AGCAATGGGGAAGTTAGATT+GGG 0.499131 7.3:-78820708 None:intergenic
ACACACACTCATATTCTTGA+CGG 0.501504 7.3:+78820418 None:intergenic
TAGTTTGGTACTTGATAAGT+TGG 0.501505 7.3:-78820663 MS.gene97317:CDS
GTGTGTTTGGGCTTTAGCCA+TGG 0.507415 7.3:-78820401 MS.gene97317:CDS
AGGAGGATCATTGAACTTGA+AGG 0.508778 7.3:+78820079 None:intergenic
GTTTGGGCTTTAGCCATGGT+TGG 0.511722 7.3:-78820397 MS.gene97317:CDS
TTATCAAGTACCAAACTAAG+AGG 0.513488 7.3:+78820668 None:intergenic
ATGAGGACTTATCATACTGA+TGG 0.516472 7.3:+78819910 None:intergenic
TCATATTCTTGACGGAAGGA+TGG 0.516981 7.3:+78820426 None:intergenic
TACAAGCCCAAGTGATTATG+TGG 0.518805 7.3:-78820252 MS.gene97317:CDS
GTTCCAGCCCCAAGCTATTG+TGG 0.520312 7.3:-78819993 MS.gene97317:CDS
GGGTTCTACCACAATTTCGA+TGG 0.521333 7.3:-78819608 MS.gene97317:CDS
AATCGTTGAATGGAGACATA+TGG 0.523073 7.3:-78819953 MS.gene97317:CDS
CCTCCACAATAGCTTGGGGC+TGG 0.533348 7.3:+78819990 None:intergenic
GCTGCAACCACATAATCACT+TGG 0.549128 7.3:+78820245 None:intergenic
CATATTCTTGACGGAAGGAT+GGG 0.553200 7.3:+78820427 None:intergenic
GTTGATGAAAGTGATAAAGA+TGG 0.555094 7.3:-78819717 MS.gene97317:CDS
GGTTCTACCACAATTTCGAT+GGG 0.558966 7.3:-78819607 MS.gene97317:CDS
AAGTACCAAACTAAGAGGAT+AGG 0.568196 7.3:+78820673 None:intergenic
TTCCATCTTGGAGAAAGAAG+AGG 0.568234 7.3:+78819758 None:intergenic
GGTCAATCCCATCGAAATTG+TGG 0.570465 7.3:+78819600 None:intergenic
CATATCTATAATGCGCAGGA+TGG 0.570721 7.3:-78819684 MS.gene97317:CDS
GAGAGGATCATCAACATAGG+TGG 0.578281 7.3:+78820542 None:intergenic
ACCTCTCGAAAATATCAAGA+AGG 0.578390 7.3:-78820297 MS.gene97317:CDS
TGTAATCGGGTCAGCAGACA+AGG 0.580068 7.3:+78820271 None:intergenic
GGGTCATTTGAGTCATCACT+AGG 0.582222 7.3:+78820059 None:intergenic
GTTACATATCTATAATGCGC+AGG 0.584528 7.3:-78819688 MS.gene97317:CDS
TACGATAATTTATGTATGAG+AGG 0.585202 7.3:+78820525 None:intergenic
GTAGCATCGTCCTAAAGGAA+CGG 0.594173 7.3:+78819637 None:intergenic
ATTGAACTTGAAGGATGCAA+TGG 0.601929 7.3:+78820088 None:intergenic
GTTGCAGCGATTTACAGTTG+TGG 0.612685 7.3:-78820230 MS.gene97317:CDS
ACAAAGAAATTGAATCACCA+TGG 0.615481 7.3:+78819784 None:intergenic
ATTCTAATGCAAGCCAACCA+TGG 0.618228 7.3:+78820384 None:intergenic
AGAGGATCATCAACATAGGT+GGG 0.618694 7.3:+78820543 None:intergenic
TATGAGAGGATCATCAACAT+AGG 0.620354 7.3:+78820539 None:intergenic
ACACTCATATTCTTGACGGA+AGG 0.624301 7.3:+78820422 None:intergenic
AGATCATGTTAGGTTTGGCG+TGG 0.628602 7.3:-78820630 MS.gene97317:CDS
CCAGCCCCAAGCTATTGTGG+AGG 0.631845 7.3:-78819990 MS.gene97317:CDS
CTGCAACCACATAATCACTT+GGG 0.636696 7.3:+78820246 None:intergenic
TTAGAACTGGATGCCCTGAG+TGG 0.646236 7.3:-78819867 MS.gene97317:CDS
AAGACCTCCACAATAGCTTG+GGG 0.657237 7.3:+78819986 None:intergenic
TCATTTGAGTCATCACTAGG+AGG 0.685720 7.3:+78820062 None:intergenic
GTTGAATGGAGACATATGGA+TGG 0.713125 7.3:-78819949 MS.gene97317:CDS
AGGATGCAATGGTATGTGCA+AGG 0.722695 7.3:+78820099 None:intergenic
AGCATCGTCCTAAAGGAACG+GGG 0.748188 7.3:+78819639 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCTAATGTTGTATTTTATAA+AGG - chr7.3:78820166-78820185 MS.gene97317:CDS 15.0%
!! ACCATAAAAATCATCAATTT+AGG - chr7.3:78819732-78819751 MS.gene97317:CDS 20.0%
!! GTAAACATCAAAATTATATG+AGG + chr7.3:78820416-78820435 None:intergenic 20.0%
!! TCTCATAGTAAGTAAAATTA+GGG + chr7.3:78820270-78820289 None:intergenic 20.0%
!! TTCTCATAGTAAGTAAAATT+AGG + chr7.3:78820271-78820290 None:intergenic 20.0%
!!! TCCTAAATTGATGATTTTTA+TGG + chr7.3:78819736-78819755 None:intergenic 20.0%
! AAAAAGATTCACTAGTGTTA+TGG + chr7.3:78819960-78819979 None:intergenic 25.0%
! TACGATAATTTATGTATGAG+AGG + chr7.3:78819784-78819803 None:intergenic 25.0%
! TGATGTTTACAAATTAGAAC+TGG - chr7.3:78820426-78820445 MS.gene97317:CDS 25.0%
!! TATTGAATTCTTTTCCATCT+TGG + chr7.3:78820563-78820582 None:intergenic 25.0%
!! TATTTTGTGAAATCGTTGAA+TGG - chr7.3:78820343-78820362 MS.gene97317:CDS 25.0%
!!! ACAATTCATTTTTGTCTACA+CGG + chr7.3:78820141-78820160 None:intergenic 25.0%
!!! GAAGACAACATTTTATTTGT+CGG - chr7.3:78820496-78820515 MS.gene97317:CDS 25.0%
AAGAACACATAGATCATGTT+AGG - chr7.3:78819666-78819685 MS.gene97317:CDS 30.0%
AAGAATATGAGTGTGTGTTT+GGG - chr7.3:78819893-78819912 MS.gene97317:CDS 30.0%
AATGAACAAACTTGAGAGTT+TGG - chr7.3:78820474-78820493 MS.gene97317:CDS 30.0%
ACAAAGAAATTGAATCACCA+TGG + chr7.3:78820525-78820544 None:intergenic 30.0%
GTGTAGACAAAAATGAATTG+TGG - chr7.3:78820140-78820159 MS.gene97317:CDS 30.0%
TAGTTTGGTACTTGATAAGT+TGG - chr7.3:78819643-78819662 MS.gene97317:CDS 30.0%
TTATCAAGTACCAAACTAAG+AGG + chr7.3:78819641-78819660 None:intergenic 30.0%
! GTTGATGAAAGTGATAAAGA+TGG - chr7.3:78820589-78820608 MS.gene97317:CDS 30.0%
!! ATTTTATTTGTCGGAAACCA+TGG - chr7.3:78820505-78820524 MS.gene97317:CDS 30.0%
AAAATGTAGCATCGTCCTAA+AGG + chr7.3:78820677-78820696 None:intergenic 35.0%
AAGGATGGGATAACTGAATA+GGG + chr7.3:78819868-78819887 None:intergenic 35.0%
AAGTACCAAACTAAGAGGAT+AGG + chr7.3:78819636-78819655 None:intergenic 35.0%
AATCGTTGAATGGAGACATA+TGG - chr7.3:78820353-78820372 MS.gene97317:CDS 35.0%
ACACACACTCATATTCTTGA+CGG + chr7.3:78819891-78819910 None:intergenic 35.0%
ACCTCTCGAAAATATCAAGA+AGG - chr7.3:78820009-78820028 MS.gene97317:CDS 35.0%
ATGAGGACTTATCATACTGA+TGG + chr7.3:78820399-78820418 None:intergenic 35.0%
ATTGAACTTGAAGGATGCAA+TGG + chr7.3:78820221-78820240 None:intergenic 35.0%
CAAGAATATGAGTGTGTGTT+TGG - chr7.3:78819892-78819911 MS.gene97317:CDS 35.0%
CACATAGATCATGTTAGGTT+TGG - chr7.3:78819671-78819690 MS.gene97317:CDS 35.0%
GTTACATATCTATAATGCGC+AGG - chr7.3:78820618-78820637 MS.gene97317:CDS 35.0%
TAATCACTTGGGCTTGTAAT+CGG + chr7.3:78820052-78820071 None:intergenic 35.0%
TATGAGAGGATCATCAACAT+AGG + chr7.3:78819770-78819789 None:intergenic 35.0%
! AAAGAGCAAGCCAATCATTT+TGG - chr7.3:78820113-78820132 MS.gene97317:CDS 35.0%
! TAGGACGATGCTACATTTTT+GGG - chr7.3:78820678-78820697 MS.gene97317:CDS 35.0%
! TTAGGACGATGCTACATTTT+TGG - chr7.3:78820677-78820696 MS.gene97317:CDS 35.0%
!! ACCTTCTTGATATTTTCGAG+AGG + chr7.3:78820013-78820032 None:intergenic 35.0%
!! TTCTTGATATTTTCGAGAGG+TGG + chr7.3:78820010-78820029 None:intergenic 35.0%
!! TTGTTCAAGTTTTCCACTCA+GGG + chr7.3:78820455-78820474 None:intergenic 35.0%
!! TTTGTTCAAGTTTTCCACTC+AGG + chr7.3:78820456-78820475 None:intergenic 35.0%
AAAGACCTCCACAATAGCTT+GGG + chr7.3:78820324-78820343 None:intergenic 40.0%
AATCACTTGGGCTTGTAATC+GGG + chr7.3:78820051-78820070 None:intergenic 40.0%
ACACTCATATTCTTGACGGA+AGG + chr7.3:78819887-78819906 None:intergenic 40.0%
AGAAGCCTATCCTCTTAGTT+TGG - chr7.3:78819628-78819647 MS.gene97317:CDS 40.0%
AGAGGATCATCAACATAGGT+GGG + chr7.3:78819766-78819785 None:intergenic 40.0%
AGGAGGATCATTGAACTTGA+AGG + chr7.3:78820230-78820249 None:intergenic 40.0%
ATTCTAATGCAAGCCAACCA+TGG + chr7.3:78819925-78819944 None:intergenic 40.0%
CATATCTATAATGCGCAGGA+TGG - chr7.3:78820622-78820641 MS.gene97317:CDS 40.0%
CATATTCTTGACGGAAGGAT+GGG + chr7.3:78819882-78819901 None:intergenic 40.0%
CTACACGGATCCAAAATGAT+TGG + chr7.3:78820126-78820145 None:intergenic 40.0%
CTGCAACCACATAATCACTT+GGG + chr7.3:78820063-78820082 None:intergenic 40.0%
GAAGGATGGGATAACTGAAT+AGG + chr7.3:78819869-78819888 None:intergenic 40.0%
GGTTCTACCACAATTTCGAT+GGG - chr7.3:78820699-78820718 MS.gene97317:CDS 40.0%
GTTGAATGGAGACATATGGA+TGG - chr7.3:78820357-78820376 MS.gene97317:CDS 40.0%
TAAAGACCTCCACAATAGCT+TGG + chr7.3:78820325-78820344 None:intergenic 40.0%
TACAAGCCCAAGTGATTATG+TGG - chr7.3:78820054-78820073 MS.gene97317:CDS 40.0%
TCATATTCTTGACGGAAGGA+TGG + chr7.3:78819883-78819902 None:intergenic 40.0%
TCATTTGAGTCATCACTAGG+AGG + chr7.3:78820247-78820266 None:intergenic 40.0%
TTCCATCTTGGAGAAAGAAG+AGG + chr7.3:78820551-78820570 None:intergenic 40.0%
AAGACCTCCACAATAGCTTG+GGG + chr7.3:78820323-78820342 None:intergenic 45.0%
AGATCATGTTAGGTTTGGCG+TGG - chr7.3:78819676-78819695 MS.gene97317:CDS 45.0%
AGCCTCTTCTTTCTCCAAGA+TGG - chr7.3:78820546-78820565 MS.gene97317:CDS 45.0%
AGGATGCAATGGTATGTGCA+AGG + chr7.3:78820210-78820229 None:intergenic 45.0%
GAGAGGATCATCAACATAGG+TGG + chr7.3:78819767-78819786 None:intergenic 45.0%
GATCTTTACCCCGTTCCTTT+AGG - chr7.3:78820659-78820678 MS.gene97317:CDS 45.0%
GCTGCAACCACATAATCACT+TGG + chr7.3:78820064-78820083 None:intergenic 45.0%
GGGTCATTTGAGTCATCACT+AGG + chr7.3:78820250-78820269 None:intergenic 45.0%
GGGTTCTACCACAATTTCGA+TGG - chr7.3:78820698-78820717 MS.gene97317:CDS 45.0%
GTAGCATCGTCCTAAAGGAA+CGG + chr7.3:78820672-78820691 None:intergenic 45.0%
GTTGCAGCGATTTACAGTTG+TGG - chr7.3:78820076-78820095 MS.gene97317:CDS 45.0%
TAGCATCGTCCTAAAGGAAC+GGG + chr7.3:78820671-78820690 None:intergenic 45.0%
TCGAGAGGTGGCAAACTAAT+GGG + chr7.3:78819998-78820017 None:intergenic 45.0%
TTCGAGAGGTGGCAAACTAA+TGG + chr7.3:78819999-78820018 None:intergenic 45.0%
AGCATCGTCCTAAAGGAACG+GGG + chr7.3:78820670-78820689 None:intergenic 50.0%
TGTAATCGGGTCAGCAGACA+AGG + chr7.3:78820038-78820057 None:intergenic 50.0%
TTAGAACTGGATGCCCTGAG+TGG - chr7.3:78820439-78820458 MS.gene97317:CDS 50.0%
TTGGCGTGGTGTGCAAGAAT+TGG - chr7.3:78819690-78819709 MS.gene97317:CDS 50.0%
! GTGTGTTTGGGCTTTAGCCA+TGG - chr7.3:78819905-78819924 MS.gene97317:CDS 50.0%
! GTTTGGGCTTTAGCCATGGT+TGG - chr7.3:78819909-78819928 MS.gene97317:CDS 50.0%
GTTCCAGCCCCAAGCTATTG+TGG - chr7.3:78820313-78820332 MS.gene97317:CDS 55.0%
CCAGCCCCAAGCTATTGTGG+AGG - chr7.3:78820316-78820335 MS.gene97317:CDS 60.0%
CCTCCACAATAGCTTGGGGC+TGG + chr7.3:78820319-78820338 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 78819602 78820726 78819602 ID=MS.gene97317
chr7.3 mRNA 78819602 78820726 78819602 ID=MS.gene97317.t1;Parent=MS.gene97317
chr7.3 exon 78819602 78820726 78819602 ID=MS.gene97317.t1.exon1;Parent=MS.gene97317.t1
chr7.3 CDS 78819602 78820726 78819602 ID=cds.MS.gene97317.t1;Parent=MS.gene97317.t1
Gene Sequence

>MS.gene97317

ATGGGGAAGTTAGATTGGGCTAATTTAGAAGCCTATCCTCTTAGTTTGGTACTTGATAAGTTGGAAGAACACATAGATCATGTTAGGTTTGGCGTGGTGTGCAAGAATTGGCTATCAATTGCAAAGCTTAACCATAAAAATCATCAATTTAGGATTAATGTCCCACCTATGTTGATGATCCTCTCATACATAAATTATCGTATGCTTATAATATCACAGACGAAGAAGAGATATTTGTATAGTATTCTTAGTGAGAAAGAGTACCCTATTCAGTTATCCCATCCTTCCGTCAAGAATATGAGTGTGTGTTTGGGCTTTAGCCATGGTTGGCTTGCATTAGAATATGATAAGAAAGCCATAACACTAGTGAATCTTTTTAAGTATAGTGTAGCTCCCATTAGTTTGCCACCTCTCGAAAATATCAAGAAGGTTACCTTGTCTGCTGACCCGATTACAAGCCCAAGTGATTATGTGGTTGCAGCGATTTACAGTTGTGGTCGTCTCGCTTTGAAAAGAGCAAGCCAATCATTTTGGATCCGTGTAGACAAAAATGAATTGTGGTGCTCTAATGTTGTATTTTATAAAGGTCTAGTATTTGCTGACAACCTTGCACATACCATTGCATCCTTCAAGTTCAATGATCCTCCTAGTGATGACTCAAATGACCCTAATTTTACTTACTATGAGAAGATAGCTAGCACTAGATATAGTGTTCCAGCCCCAAGCTATTGTGGAGGTCTTTATTTTGTGAAATCGTTGAATGGAGACATATGGATGGTGAGAAGAAATATAATCCATCAGTATGATAAGTCCTCATATAATTTTGATGTTTACAAATTAGAACTGGATGCCCTGAGTGGAAAACTTGAACAAATGAACAAACTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGAAACCATGGTGATTCAATTTCTTTGTCAGCCTCTTCTTTCTCCAAGATGGAAAAGAATTCAATATATTTTGTTGATGAAAGTGATAAAGATGGTTTTGAGTTACATATCTATAATGCGCAGGATGGAAGTGTTGACAGTCGATCTTTACCCCGTTCCTTTAGGACGATGCTACATTTTTGGGTTCTACCACAATTTCGATGGGATTGA
Protein sequence

>MS.gene97317.t1

MGKLDWANLEAYPLSLVLDKLEEHIDHVRFGVVCKNWLSIAKLNHKNHQFRINVPPMLMILSYINYRMLIISQTKKRYLYSILSEKEYPIQLSHPSVKNMSVCLGFSHGWLALEYDKKAITLVNLFKYSVAPISLPPLENIKKVTLSADPITSPSDYVVAAIYSCGRLALKRASQSFWIRVDKNELWCSNVVFYKGLVFADNLAHTIASFKFNDPPSDDSNDPNFTYYEKIASTRYSVPAPSYCGGLYFVKSLNGDIWMVRRNIIHQYDKSSYNFDVYKLELDALSGKLEQMNKLESLEDNILFVGNHGDSISLSASSFSKMEKNSIYFVDESDKDGFELHIYNAQDGSVDSRSLPRSFRTMLHFWVLPQFRWD