AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53272

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53272.t1 MTR_8g087450 96.918 292 9 0 1 292 1 292 0.0 566
MS.gene53272.t1 MTR_2g017960 71.379 290 66 6 1 289 1 274 3.09e-116 335
MS.gene53272.t1 MTR_2g017970 77.143 210 46 2 76 285 67 274 1.61e-109 318
MS.gene53272.t1 MTR_4g059840 55.187 241 93 6 58 288 53 288 3.51e-80 244
MS.gene53272.t1 MTR_4g053380 49.836 305 121 8 2 291 7 294 2.22e-78 240
MS.gene53272.t1 MTR_4g059790 60.199 201 70 3 58 248 53 253 5.49e-78 239
MS.gene53272.t1 MTR_2g093980 48.814 295 130 9 1 288 1 281 9.75e-76 233
MS.gene53272.t1 MTR_4g059780 49.815 271 115 5 21 284 45 301 8.99e-69 216
MS.gene53272.t1 MTR_2g093970 45.890 292 125 7 10 285 13 287 7.21e-68 213
MS.gene53272.t1 MTR_2g017950 43.345 293 139 8 6 285 12 290 2.67e-64 204
MS.gene53272.t1 MTR_8g087470 45.113 266 127 6 41 288 51 315 1.05e-62 201
MS.gene53272.t1 MTR_8g087460 46.212 264 121 7 45 288 53 315 1.05e-61 198
MS.gene53272.t1 MTR_4g059720 45.415 229 84 4 1 228 4 192 1.04e-56 183
MS.gene53272.t1 MTR_2g093990 46.117 206 101 3 77 279 41 239 7.22e-53 173
MS.gene53272.t1 MTR_7g101080 44.578 166 90 2 58 222 21 185 2.35e-41 144
MS.gene53272.t1 MTR_2g090765 35.565 239 132 4 50 286 29 247 1.41e-27 107
MS.gene53272.t1 MTR_5g098060 30.588 170 113 3 77 243 48 215 1.06e-15 75.5
MS.gene53272.t1 MTR_7g075453 31.746 189 113 4 68 250 175 353 3.68e-14 72.4
MS.gene53272.t1 MTR_2g437700 31.544 149 95 4 77 221 195 340 1.88e-12 67.4
MS.gene53272.t1 MTR_5g098420 30.270 185 114 5 55 235 177 350 7.20e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53272.t1 AT5G60490 54.795 146 64 2 77 221 39 183 7.29e-47 158
MS.gene53272.t1 AT5G03170 46.023 176 93 2 70 244 29 203 7.20e-45 152
MS.gene53272.t1 AT5G44130 40.437 183 103 3 77 257 36 214 1.10e-33 123
MS.gene53272.t1 AT2G20520 41.622 185 95 5 77 249 38 221 1.34e-29 112
MS.gene53272.t1 AT1G03870 38.830 188 109 4 77 263 39 221 2.85e-29 112
MS.gene53272.t1 AT2G04780 31.544 149 96 3 75 221 44 188 2.65e-13 68.9
MS.gene53272.t1 AT2G04780 31.544 149 96 3 75 221 44 188 2.65e-13 68.9
MS.gene53272.t1 AT3G46550 28.495 186 120 8 63 243 194 371 1.06e-12 68.2
MS.gene53272.t1 AT3G60900 28.488 172 117 3 70 240 183 349 3.26e-12 67.0

Find 49 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGCTGGAGCTTTAGCTTT+AGG 0.270473 4.1:+13226780 None:intergenic
TTCGAACTTGATACATATTC+AGG 0.279696 4.1:+13227005 None:intergenic
GAATTCTCTTTCTCAGCTTT+AGG 0.296501 4.1:+13226741 None:intergenic
TGCTATATATCATGTGAATA+AGG 0.305049 4.1:-13226829 MS.gene53272:CDS
CAGATTAATGTGACTGCATA+TGG 0.308276 4.1:-13226924 MS.gene53272:CDS
GGTGCTGGAGCAGGTGTTGA+AGG 0.331645 4.1:+13227320 None:intergenic
ATGCATGTTATTCAAGCTAA+TGG 0.337878 4.1:+13226668 None:intergenic
GAATAAGGTTCTTATTCCTT+TGG 0.338628 4.1:-13226814 MS.gene53272:CDS
TCTTGGTTTCCTGACGAATC+AGG 0.343060 4.1:+13227251 None:intergenic
AGCAGGTTACTTCAACTCCT+TGG 0.397163 4.1:-13227069 MS.gene53272:CDS
TGTGGTAATGCTGGGACTAA+TGG 0.407871 4.1:+13227290 None:intergenic
GATTAGTGTGTTGAATGATT+TGG 0.407894 4.1:+13227205 None:intergenic
TTAGAATCTTGATTATGTCT+TGG 0.417666 4.1:+13227234 None:intergenic
GCCTTAGCAAGAGCTGGTGC+TGG 0.431209 4.1:+13226765 None:intergenic
TCTGAAAAGGCACCATCATC+TGG 0.442423 4.1:+13227098 None:intergenic
GTGCTGGAGCAGGTGTTGAA+GGG 0.442970 4.1:+13227321 None:intergenic
AGAAGATAGAGGCAAGTAGT+AGG 0.446057 4.1:+13227432 None:intergenic
ATATCAGTGTTGGTTTCCCT+TGG 0.450067 4.1:-13226642 MS.gene53272:CDS
GGAGCAGGTGTTGAAGGGGT+TGG 0.451921 4.1:+13227326 None:intergenic
GCAGGTTACTTCAACTCCTT+GGG 0.455965 4.1:-13227068 MS.gene53272:CDS
AACAGTGTGAATATTTCAAC+TGG 0.459076 4.1:-13226900 MS.gene53272:CDS
GTAGGTGATTGTGGTAATGC+TGG 0.464029 4.1:+13227281 None:intergenic
GACGAATCAGGATTTGTTGT+AGG 0.471829 4.1:+13227263 None:intergenic
CATTAATCTGAAATCCTTGT+GGG 0.483229 4.1:+13226937 None:intergenic
ACCTGCTTTGAGTTCTGAAA+AGG 0.484192 4.1:+13227085 None:intergenic
TTAGGTGCCTTAGCAAGAGC+TGG 0.489973 4.1:+13226759 None:intergenic
GGATTTGTTGTAGGTGATTG+TGG 0.513333 4.1:+13227272 None:intergenic
ACAATTCTTGCACCAGATGA+TGG 0.514841 4.1:-13227110 MS.gene53272:CDS
ACAACAAATCCTGATTCGTC+AGG 0.522883 4.1:-13227260 MS.gene53272:CDS
AGTGGTGATTGAGAAGATAG+AGG 0.531658 4.1:+13227421 None:intergenic
TTTGTGTTGTCTTGAGCAAA+CGG 0.534377 4.1:+13227183 None:intergenic
TCCAGCACCAGCTCTTGCTA+AGG 0.542557 4.1:-13226766 MS.gene53272:CDS
AGCGTAAACGATTCCAGTGA+TGG 0.545525 4.1:+13226863 None:intergenic
TTACAAGCTGTGCATTGACT+TGG 0.551173 4.1:+13227153 None:intergenic
TGCTGGAGCAGGTGTTGAAG+GGG 0.559876 4.1:+13227322 None:intergenic
CATGCATGGAATATCAGTGT+TGG 0.573529 4.1:-13226652 MS.gene53272:CDS
ACATTAATCTGAAATCCTTG+TGG 0.574915 4.1:+13226936 None:intergenic
CTGCAAGCAGAGAAATTCCA+AGG 0.575775 4.1:+13226625 None:intergenic
AGCTGGTGATTGAGCTAAAG+TGG 0.578327 4.1:+13227403 None:intergenic
ATTAGCTTGAATAACATGCA+TGG 0.579278 4.1:-13226666 MS.gene53272:CDS
TAGGTGATTGTGGTAATGCT+GGG 0.582717 4.1:+13227282 None:intergenic
GTTGTTGATACAACCATCAC+TGG 0.593007 4.1:-13226876 MS.gene53272:CDS
TTAGGCTTAACAAAATCCAA+AGG 0.601169 4.1:+13226798 None:intergenic
CTAGCTAGTGATAGCCCACA+AGG 0.607212 4.1:-13226951 MS.gene53272:CDS
TGATCAGACTCAGGCACACA+AGG 0.622744 4.1:-13226703 MS.gene53272:CDS
AGATGATGATGATCAGACTC+AGG 0.626792 4.1:-13226712 MS.gene53272:CDS
CACTAGCTAGTGTCAACACA+GGG 0.648522 4.1:+13226964 None:intergenic
TGCAAGCAGAGAAATTCCAA+GGG 0.658685 4.1:+13226626 None:intergenic
TCACTAGCTAGTGTCAACAC+AGG 0.685638 4.1:+13226963 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGCTATATATCATGTGAATA+AGG - chr4.1:13227231-13227250 MS.gene53272:CDS 25.0%
! TTAGAATCTTGATTATGTCT+TGG + chr4.1:13226829-13226848 None:intergenic 25.0%
AACAGTGTGAATATTTCAAC+TGG - chr4.1:13227160-13227179 MS.gene53272:CDS 30.0%
ATGCATGTTATTCAAGCTAA+TGG + chr4.1:13227395-13227414 None:intergenic 30.0%
CAGCTTGTAACTACAAAAAA+TGG - chr4.1:13226920-13226939 MS.gene53272:CDS 30.0%
CTTGTAACTACAAAAAATGG+AGG - chr4.1:13226923-13226942 MS.gene53272:CDS 30.0%
GAATAAGGTTCTTATTCCTT+TGG - chr4.1:13227246-13227265 MS.gene53272:CDS 30.0%
GATTAGTGTGTTGAATGATT+TGG + chr4.1:13226858-13226877 None:intergenic 30.0%
TTAGGCTTAACAAAATCCAA+AGG + chr4.1:13227265-13227284 None:intergenic 30.0%
TTCGAACTTGATACATATTC+AGG + chr4.1:13227058-13227077 None:intergenic 30.0%
! ACATTAATCTGAAATCCTTG+TGG + chr4.1:13227127-13227146 None:intergenic 30.0%
! ATTAGCTTGAATAACATGCA+TGG - chr4.1:13227394-13227413 MS.gene53272:CDS 30.0%
! CATTAATCTGAAATCCTTGT+GGG + chr4.1:13227126-13227145 None:intergenic 30.0%
CAGATTAATGTGACTGCATA+TGG - chr4.1:13227136-13227155 MS.gene53272:CDS 35.0%
GAATTCTCTTTCTCAGCTTT+AGG + chr4.1:13227322-13227341 None:intergenic 35.0%
TTTGTGTTGTCTTGAGCAAA+CGG + chr4.1:13226880-13226899 None:intergenic 35.0%
!! TTTTTGTTGTCTTTCTCCCA+AGG + chr4.1:13227011-13227030 None:intergenic 35.0%
ACAATTCTTGCACCAGATGA+TGG - chr4.1:13226950-13226969 MS.gene53272:CDS 40.0%
AGAAGATAGAGGCAAGTAGT+AGG + chr4.1:13226631-13226650 None:intergenic 40.0%
AGTGGTGATTGAGAAGATAG+AGG + chr4.1:13226642-13226661 None:intergenic 40.0%
CATGCATGGAATATCAGTGT+TGG - chr4.1:13227408-13227427 MS.gene53272:CDS 40.0%
GTTGTTGATACAACCATCAC+TGG - chr4.1:13227184-13227203 MS.gene53272:CDS 40.0%
TGCAAGCAGAGAAATTCCAA+GGG + chr4.1:13227437-13227456 None:intergenic 40.0%
! ACAACAAATCCTGATTCGTC+AGG - chr4.1:13226800-13226819 MS.gene53272:CDS 40.0%
! AGATGATGATGATCAGACTC+AGG - chr4.1:13227348-13227367 MS.gene53272:CDS 40.0%
! TAGGTGATTGTGGTAATGCT+GGG + chr4.1:13226781-13226800 None:intergenic 40.0%
!! ACCTGCTTTGAGTTCTGAAA+AGG + chr4.1:13226978-13226997 None:intergenic 40.0%
!! ATATCAGTGTTGGTTTCCCT+TGG - chr4.1:13227418-13227437 MS.gene53272:CDS 40.0%
!! GACGAATCAGGATTTGTTGT+AGG + chr4.1:13226800-13226819 None:intergenic 40.0%
!! GGATTTGTTGTAGGTGATTG+TGG + chr4.1:13226791-13226810 None:intergenic 40.0%
!! TTACAAGCTGTGCATTGACT+TGG + chr4.1:13226910-13226929 None:intergenic 40.0%
!!! TTGAAGGGGTTGGTTTTGTA+GGG + chr4.1:13226727-13226746 None:intergenic 40.0%
!!! TTTGTAGGTGCTGGTTTTTC+TGG + chr4.1:13226698-13226717 None:intergenic 40.0%
AGCAGGTTACTTCAACTCCT+TGG - chr4.1:13226991-13227010 MS.gene53272:CDS 45.0%
AGCGTAAACGATTCCAGTGA+TGG + chr4.1:13227200-13227219 None:intergenic 45.0%
AGCTGGTGATTGAGCTAAAG+TGG + chr4.1:13226660-13226679 None:intergenic 45.0%
CACTAGCTAGTGTCAACACA+GGG + chr4.1:13227099-13227118 None:intergenic 45.0%
CTGCAAGCAGAGAAATTCCA+AGG + chr4.1:13227438-13227457 None:intergenic 45.0%
GCAGGTTACTTCAACTCCTT+GGG - chr4.1:13226992-13227011 MS.gene53272:CDS 45.0%
TCACTAGCTAGTGTCAACAC+AGG + chr4.1:13227100-13227119 None:intergenic 45.0%
TCTTGGTTTCCTGACGAATC+AGG + chr4.1:13226812-13226831 None:intergenic 45.0%
! GCCTTTTCAGAACTCAAAGC+AGG - chr4.1:13226974-13226993 MS.gene53272:CDS 45.0%
! GTAGGTGATTGTGGTAATGC+TGG + chr4.1:13226782-13226801 None:intergenic 45.0%
! TGTGGTAATGCTGGGACTAA+TGG + chr4.1:13226773-13226792 None:intergenic 45.0%
!! ACTAATGGTTTTGCTGGTGC+TGG + chr4.1:13226758-13226777 None:intergenic 45.0%
!! TCTGAAAAGGCACCATCATC+TGG + chr4.1:13226965-13226984 None:intergenic 45.0%
!!! GCTGGTTTTTCTGGTGCTTT+TGG + chr4.1:13226689-13226708 None:intergenic 45.0%
!!! GTTGAAGGGGTTGGTTTTGT+AGG + chr4.1:13226728-13226747 None:intergenic 45.0%
!!! TGAAGGGGTTGGTTTTGTAG+GGG + chr4.1:13226726-13226745 None:intergenic 45.0%
!!! TTTGTAGGGGCTGGTTTTGT+AGG + chr4.1:13226713-13226732 None:intergenic 45.0%
CTAGCTAGTGATAGCCCACA+AGG - chr4.1:13227109-13227128 MS.gene53272:CDS 50.0%
TGATCAGACTCAGGCACACA+AGG - chr4.1:13227357-13227376 MS.gene53272:CDS 50.0%
TTAGGTGCCTTAGCAAGAGC+TGG + chr4.1:13227304-13227323 None:intergenic 50.0%
!! GCTGGGACTAATGGTTTTGC+TGG + chr4.1:13226764-13226783 None:intergenic 50.0%
!! GGTGCTGGAGCTTTAGCTTT+AGG + chr4.1:13227283-13227302 None:intergenic 50.0%
TCCAGCACCAGCTCTTGCTA+AGG - chr4.1:13227294-13227313 MS.gene53272:CDS 55.0%
!! GTGCTGGAGCAGGTGTTGAA+GGG + chr4.1:13226742-13226761 None:intergenic 55.0%
!! TGCTGGAGCAGGTGTTGAAG+GGG + chr4.1:13226741-13226760 None:intergenic 55.0%
GCCTTAGCAAGAGCTGGTGC+TGG + chr4.1:13227298-13227317 None:intergenic 60.0%
!! GGAGCAGGTGTTGAAGGGGT+TGG + chr4.1:13226737-13226756 None:intergenic 60.0%
!! GGTGCTGGAGCAGGTGTTGA+AGG + chr4.1:13226743-13226762 None:intergenic 60.0%
!! GGTTTTGCTGGTGCTGGAGC+AGG + chr4.1:13226752-13226771 None:intergenic 60.0%
!!! GGGGCTGGTTTTGTAGGTGC+TGG + chr4.1:13226707-13226726 None:intergenic 60.0%
!!! GGGGTTGGTTTTGTAGGGGC+TGG + chr4.1:13226722-13226741 None:intergenic 60.0%
!!! GGTGCTTTTGGTGCTGCAGC+TGG + chr4.1:13226677-13226696 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 13226602 13227480 13226602 ID=MS.gene53272
chr4.1 mRNA 13226602 13227480 13226602 ID=MS.gene53272.t1;Parent=MS.gene53272
chr4.1 exon 13226602 13227480 13226602 ID=MS.gene53272.t1.exon1;Parent=MS.gene53272.t1
chr4.1 CDS 13226602 13227480 13226602 ID=cds.MS.gene53272.t1;Parent=MS.gene53272.t1
Gene Sequence

>MS.gene53272

ATGAATCAAATTTTCTTGTTCTCACTCCTACTACTTGCCTCTATCTTCTCAATCACCACTTTAGCTCAATCACCAGCTGCAGCACCAAAAGCACCAGAAAAACCAGCACCTACAAAACCAGCCCCTACAAAACCAACCCCTTCAACACCTGCTCCAGCACCAGCAAAACCATTAGTCCCAGCATTACCACAATCACCTACAACAAATCCTGATTCGTCAGGAAACCAAGACATAATCAAGATTCTAAGAAAAGCCAAATCATTCAACACACTAATCCGTTTGCTCAAGACAACACAAATCATCAACCAAGTCAATGCACAGCTTGTAACTACAAAAAATGGAGGCTTGACAATTCTTGCACCAGATGATGGTGCCTTTTCAGAACTCAAAGCAGGTTACTTCAACTCCTTGGGAGAAAGACAACAAAAAGAATTGATTCAGTATCATGTTCTTCCTGAATATGTATCAAGTTCGAACTTTGATTCTCTCAGCAACCCTGTGTTGACACTAGCTAGTGATAGCCCACAAGGATTTCAGATTAATGTGACTGCATATGGAAACAGTGTGAATATTTCAACTGGCGTTGTTGATACAACCATCACTGGAATCGTTTACGCTGATAAAACACTTGCTATATATCATGTGAATAAGGTTCTTATTCCTTTGGATTTTGTTAAGCCTAAAGCTAAAGCTCCAGCACCAGCTCTTGCTAAGGCACCTAAAGCTGAGAAAGAGAATTCATCTGCAGATGATGATGATCAGACTCAGGCACACAAGGATAGTTCTGATGCCATTAGCTTGAATAACATGCATGGAATATCAGTGTTGGTTTCCCTTGGAATTTCTCTGCTTGCAGTTGCAGTAACAACTATGTTGTGA
Protein sequence

>MS.gene53272.t1

MNQIFLFSLLLLASIFSITTLAQSPAAAPKAPEKPAPTKPAPTKPTPSTPAPAPAKPLVPALPQSPTTNPDSSGNQDIIKILRKAKSFNTLIRLLKTTQIINQVNAQLVTTKNGGLTILAPDDGAFSELKAGYFNSLGERQQKELIQYHVLPEYVSSSNFDSLSNPVLTLASDSPQGFQINVTAYGNSVNISTGVVDTTITGIVYADKTLAIYHVNKVLIPLDFVKPKAKAPAPALAKAPKAEKENSSADDDDQTQAHKDSSDAISLNNMHGISVLVSLGISLLAVAVTTML