AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73460


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73460.t1 MTR_1g108740 88.218 348 36 2 1 347 1 344 0.0 630
MS.gene73460.t1 MTR_1g016150 76.531 196 40 2 1 191 1 195 1.60e-105 309
MS.gene73460.t1 MTR_1g016150 84.127 63 10 0 245 307 175 237 3.62e-27 107
MS.gene73460.t1 MTR_5g038260 44.703 387 163 12 3 347 4 381 1.76e-95 289
MS.gene73460.t1 MTR_7g077650 44.681 376 173 15 1 347 1 370 1.10e-84 261
MS.gene73460.t1 MTR_7g077620 45.098 357 163 12 1 332 1 349 3.47e-82 255
MS.gene73460.t1 MTR_5g038230 41.192 386 152 13 3 347 2 353 6.33e-82 253
MS.gene73460.t1 MTR_7g077660 43.316 374 177 14 1 347 1 366 1.82e-79 247
MS.gene73460.t1 MTR_5g082770 47.368 304 125 10 5 292 4 288 1.89e-78 242
MS.gene73460.t1 MTR_1g064570 41.191 403 165 13 7 347 6 398 1.93e-78 246
MS.gene73460.t1 MTR_5g082780 43.182 220 104 5 112 319 2 212 6.05e-46 156
MS.gene73460.t1 MTR_7g076110 40.206 291 143 12 86 347 23 311 3.67e-45 157
MS.gene73460.t1 MTR_7g076100 43.096 239 105 8 134 347 66 298 5.60e-45 156
MS.gene73460.t1 MTR_7g076100 66.667 48 16 0 5 52 6 53 9.81e-17 80.1
MS.gene73460.t1 MTR_1g108750 49.673 153 47 3 3 155 2 124 6.37e-36 127
MS.gene73460.t1 MTR_3g114970 22.051 390 206 17 6 339 5 352 1.59e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 52 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATATTGGGATAGTCCTTAT+TGG 0.201013 1.4:+83406851 MS.gene73460:CDS
AAGATCGTATCCTTTAATTT+TGG 0.210117 1.4:+83406454 MS.gene73460:CDS
CTTGTTGAAACTTGAGAGTT+TGG 0.232269 1.4:+83406681 MS.gene73460:CDS
ATCTGAATAACCAAAATTAA+AGG 0.257469 1.4:-83406464 None:intergenic
ATAGAATGAAGAGACGAAAT+TGG 0.272589 1.4:+83405846 None:intergenic
TATCCTTAAAAGGACTCATT+AGG 0.272862 1.4:-83406204 None:intergenic
TTGGAAGAGATCAGCAAAAT+TGG 0.286104 1.4:+83406350 MS.gene73460:CDS
ATGCAAGGTATATCCTTAAA+AGG 0.293423 1.4:-83406214 None:intergenic
GTGTTCAAGTTTCTCACTTT+TGG 0.303025 1.4:-83406659 None:intergenic
GACTCAATTTACTTTGCTAA+TGG 0.321675 1.4:+83406781 MS.gene73460:CDS
GTTCTTCTATAGAGAAGAAT+TGG 0.352953 1.4:+83406047 MS.gene73460:CDS
AGGACTCATTAGGGTTATAA+TGG 0.356886 1.4:-83406194 None:intergenic
CAATAAGGACTATCCCAATA+TGG 0.359462 1.4:-83406850 None:intergenic
CACATAGATCATGTTTCGTT+TGG 0.369870 1.4:+83405920 MS.gene73460:CDS
CTAGTTTCAATTTGTATACA+TGG 0.383970 1.4:-83406633 None:intergenic
GGTTATTCAGATGATACTTC+GGG 0.390839 1.4:+83406475 MS.gene73460:CDS
ATCCTTAAAAGGACTCATTA+GGG 0.399472 1.4:-83406203 None:intergenic
GCTACAATCATATAATCATT+TGG 0.403630 1.4:-83406298 None:intergenic
TAAAGGATACGATCTTGTTT+CGG 0.413966 1.4:-83406447 None:intergenic
AAATGTGGCAGAATCCAATA+AGG 0.445291 1.4:-83406865 None:intergenic
TTGTTGAAACTTGAGAGTTT+GGG 0.445712 1.4:+83406682 MS.gene73460:CDS
CGGCATACCTGATATTGAAA+AGG 0.454768 1.4:-83406100 None:intergenic
AAGATCTATAATATGAAGAA+TGG 0.455106 1.4:+83406808 MS.gene73460:CDS
ATAGAGAAGAATTGGTTGTA+TGG 0.455558 1.4:+83406055 MS.gene73460:CDS
AAGAGCTATGGATGGTAAGA+AGG 0.465590 1.4:+83406587 MS.gene73460:CDS
TAGAATGAAGAGACGAAATT+GGG 0.472065 1.4:+83405847 None:intergenic
TCGCTCTGTGGCTCTAGCCA+TGG 0.491261 1.4:+83406142 MS.gene73460:CDS
TGGTTATTCAGATGATACTT+CGG 0.502123 1.4:+83406474 MS.gene73460:CDS
TTGTCAAGAATCAAACTAAG+AGG 0.512709 1.4:-83405887 None:intergenic
TGTGGTAATCTTGCTTATGT+TGG 0.520193 1.4:+83406331 MS.gene73460:CDS
CAAGAATCAAACTAAGAGGA+AGG 0.538427 1.4:-83405883 None:intergenic
CATTAGCATTGGTAGTGCAA+TGG 0.541084 1.4:-83406005 None:intergenic
TATAAATCTCATTGAAAATG+TGG 0.541531 1.4:-83406880 None:intergenic
TCTGTGGCTCTAGCCATGGT+TGG 0.545055 1.4:+83406146 MS.gene73460:CDS
CGACACGGAAATTGAATCTC+CGG 0.546457 1.4:-83406728 None:intergenic
GGCATACCTGATATTGAAAA+GGG 0.548895 1.4:-83406099 None:intergenic
AAAGTTTACGATTATTAGCA+CGG 0.557209 1.4:-83406120 None:intergenic
TTGGTGCTGTGTGCAAGACT+TGG 0.560056 1.4:+83405939 MS.gene73460:CDS
ACCTCTCAATTCTGTTAACA+AGG 0.561179 1.4:+83406246 MS.gene73460:CDS
AATCACTAGAAGAAGAGCTA+TGG 0.566646 1.4:+83406575 MS.gene73460:CDS
ATTGTAGCAATTTATGATTG+TGG 0.568571 1.4:+83406313 MS.gene73460:CDS
CTTCTTCTAGTGATTTCACA+AGG 0.577230 1.4:-83406567 None:intergenic
CGGAGATTCAATTTCCGTGT+CGG 0.586695 1.4:+83406729 MS.gene73460:CDS
AAGAATCAAACTAAGAGGAA+GGG 0.607697 1.4:-83405882 None:intergenic
CTACAAATGCAAACCAACCA+TGG 0.610070 1.4:-83406159 None:intergenic
TTGTTAACAGAATTGAGAGG+TGG 0.610311 1.4:-83406244 None:intergenic
AATCGTAAACTTTCGCTCTG+TGG 0.619251 1.4:+83406130 MS.gene73460:CDS
TGTTAACAGAATTGAGAGGT+GGG 0.631633 1.4:-83406243 None:intergenic
AGAGGTGGGAGAGTAATGCA+AGG 0.635075 1.4:-83406229 None:intergenic
AGAGAAATATGACGCCGACA+CGG 0.636199 1.4:-83406743 None:intergenic
ACTAGAAGAAGAGCTATGGA+TGG 0.645211 1.4:+83406579 MS.gene73460:CDS
ACCTTGTTAACAGAATTGAG+AGG 0.720165 1.4:-83406247 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGATTTCATATTTTATAA+AGG + chr1.4:83406403-83406422 MS.gene73460:CDS 10.0%
!! AAGATCTATAATATGAAGAA+TGG + chr1.4:83406808-83406827 MS.gene73460:CDS 20.0%
!! ATCTGAATAACCAAAATTAA+AGG - chr1.4:83406467-83406486 None:intergenic 20.0%
!!! ATGGTATTTTAAACAAAAGA+TGG + chr1.4:83406074-83406093 MS.gene73460:CDS 20.0%
!!! GGAGATAACATTTTATTTTT+AGG + chr1.4:83406703-83406722 MS.gene73460:CDS 20.0%
!!! TAATCATTTGGACTTTTTAT+TGG - chr1.4:83406289-83406308 None:intergenic 20.0%
!!! TTTTGAATTGATGATTTTGA+TGG - chr1.4:83405985-83406004 None:intergenic 20.0%
! AAAGTTTACGATTATTAGCA+CGG - chr1.4:83406123-83406142 None:intergenic 25.0%
! ATTGTAGCAATTTATGATTG+TGG + chr1.4:83406313-83406332 MS.gene73460:CDS 25.0%
! CTAGTTTCAATTTGTATACA+TGG - chr1.4:83406636-83406655 None:intergenic 25.0%
! GCTACAATCATATAATCATT+TGG - chr1.4:83406301-83406320 None:intergenic 25.0%
!! TAGTTATCGTTTTCCATATT+GGG + chr1.4:83406837-83406856 MS.gene73460:CDS 25.0%
!! TTTTCAGATATCATTAGCAT+TGG - chr1.4:83406019-83406038 None:intergenic 25.0%
!!! AACATTTTATTTTTAGGAGC+CGG + chr1.4:83406709-83406728 MS.gene73460:CDS 25.0%
!!! AAGATCGTATCCTTTAATTT+TGG + chr1.4:83406454-83406473 MS.gene73460:CDS 25.0%
AAGAATCAAACTAAGAGGAA+GGG - chr1.4:83405885-83405904 None:intergenic 30.0%
ATAGAGAAGAATTGGTTGTA+TGG + chr1.4:83406055-83406074 MS.gene73460:CDS 30.0%
ATCCTTAAAAGGACTCATTA+GGG - chr1.4:83406206-83406225 None:intergenic 30.0%
ATGCAAGGTATATCCTTAAA+AGG - chr1.4:83406217-83406236 None:intergenic 30.0%
GACTCAATTTACTTTGCTAA+TGG + chr1.4:83406781-83406800 MS.gene73460:CDS 30.0%
GTTCTTCTATAGAGAAGAAT+TGG + chr1.4:83406047-83406066 MS.gene73460:CDS 30.0%
TATCCTTAAAAGGACTCATT+AGG - chr1.4:83406207-83406226 None:intergenic 30.0%
TGGTTATTCAGATGATACTT+CGG + chr1.4:83406474-83406493 MS.gene73460:CDS 30.0%
TTGTCAAGAATCAAACTAAG+AGG - chr1.4:83405890-83405909 None:intergenic 30.0%
TTGTTGAAACTTGAGAGTTT+GGG + chr1.4:83406682-83406701 MS.gene73460:CDS 30.0%
! CTAGTTATCGTTTTCCATAT+TGG + chr1.4:83406836-83406855 MS.gene73460:CDS 30.0%
! TAAAGGATACGATCTTGTTT+CGG - chr1.4:83406450-83406469 None:intergenic 30.0%
AAATGTGGCAGAATCCAATA+AGG - chr1.4:83406868-83406887 None:intergenic 35.0%
AATCACTAGAAGAAGAGCTA+TGG + chr1.4:83406575-83406594 MS.gene73460:CDS 35.0%
ACCTCTCAATTCTGTTAACA+AGG + chr1.4:83406246-83406265 MS.gene73460:CDS 35.0%
ACCTTGTTAACAGAATTGAG+AGG - chr1.4:83406250-83406269 None:intergenic 35.0%
AGGACTCATTAGGGTTATAA+TGG - chr1.4:83406197-83406216 None:intergenic 35.0%
CAAGAATCAAACTAAGAGGA+AGG - chr1.4:83405886-83405905 None:intergenic 35.0%
CAATAAGGACTATCCCAATA+TGG - chr1.4:83406853-83406872 None:intergenic 35.0%
CACATAGATCATGTTTCGTT+TGG + chr1.4:83405920-83405939 MS.gene73460:CDS 35.0%
CATATTGGGATAGTCCTTAT+TGG + chr1.4:83406851-83406870 MS.gene73460:CDS 35.0%
CTTCTTCTAGTGATTTCACA+AGG - chr1.4:83406570-83406589 None:intergenic 35.0%
CTTGTTGAAACTTGAGAGTT+TGG + chr1.4:83406681-83406700 MS.gene73460:CDS 35.0%
GGCATACCTGATATTGAAAA+GGG - chr1.4:83406102-83406121 None:intergenic 35.0%
GGTTATTCAGATGATACTTC+GGG + chr1.4:83406475-83406494 MS.gene73460:CDS 35.0%
TGTGGTAATCTTGCTTATGT+TGG + chr1.4:83406331-83406350 MS.gene73460:CDS 35.0%
TGTTAACAGAATTGAGAGGT+GGG - chr1.4:83406246-83406265 None:intergenic 35.0%
TTGGAAGAGATCAGCAAAAT+TGG + chr1.4:83406350-83406369 MS.gene73460:CDS 35.0%
TTGTTAACAGAATTGAGAGG+TGG - chr1.4:83406247-83406266 None:intergenic 35.0%
! AACCCTAATGAGTCCTTTTA+AGG + chr1.4:83406201-83406220 MS.gene73460:CDS 35.0%
!! GTGTTCAAGTTTCTCACTTT+TGG - chr1.4:83406662-83406681 None:intergenic 35.0%
AAGAGCTATGGATGGTAAGA+AGG + chr1.4:83406587-83406606 MS.gene73460:CDS 40.0%
AATCGTAAACTTTCGCTCTG+TGG + chr1.4:83406130-83406149 MS.gene73460:CDS 40.0%
ACTAGAAGAAGAGCTATGGA+TGG + chr1.4:83406579-83406598 MS.gene73460:CDS 40.0%
CGGCATACCTGATATTGAAA+AGG - chr1.4:83406103-83406122 None:intergenic 40.0%
CTACAAATGCAAACCAACCA+TGG - chr1.4:83406162-83406181 None:intergenic 40.0%
! ATGGCACCCTTTTCAATATC+AGG + chr1.4:83406093-83406112 MS.gene73460:CDS 40.0%
!! CATTAGCATTGGTAGTGCAA+TGG - chr1.4:83406008-83406027 None:intergenic 40.0%
AGAGAAATATGACGCCGACA+CGG - chr1.4:83406746-83406765 None:intergenic 45.0%
CGACACGGAAATTGAATCTC+CGG - chr1.4:83406731-83406750 None:intergenic 45.0%
CGGAGATTCAATTTCCGTGT+CGG + chr1.4:83406729-83406748 MS.gene73460:CDS 45.0%
AGAGGTGGGAGAGTAATGCA+AGG - chr1.4:83406232-83406251 None:intergenic 50.0%
!! TTGGTGCTGTGTGCAAGACT+TGG + chr1.4:83405939-83405958 MS.gene73460:CDS 50.0%
!! TCTGTGGCTCTAGCCATGGT+TGG + chr1.4:83406146-83406165 MS.gene73460:CDS 55.0%
!! TCGCTCTGTGGCTCTAGCCA+TGG + chr1.4:83406142-83406161 MS.gene73460:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 83405851 83406894 83405851 ID=MS.gene73460
chr1.4 mRNA 83405851 83406894 83405851 ID=MS.gene73460.t1;Parent=MS.gene73460
chr1.4 exon 83405851 83406894 83405851 ID=MS.gene73460.t1.exon1;Parent=MS.gene73460.t1
chr1.4 CDS 83405851 83406894 83405851 ID=cds.MS.gene73460.t1;Parent=MS.gene73460.t1
Gene Sequence

>MS.gene73460

ATGAAGAGACGAAATTGGGCAAATTTAGAAGCCCTTCCTCTTAGTTTGATTCTTGACAACTTAGAAGAACACATAGATCATGTTTCGTTTGGTGCTGTGTGCAAGACTTGGCGATCAATTGCAAAGTTTAGCCATCAAAATCATCAATTCAAAACCATTGCACTACCAATGCTAATGATATCTGAAAAAACAAATAGTTCTTCTATAGAGAAGAATTGGTTGTATGGTATTTTAAACAAAAGATGGCACCCTTTTCAATATCAGGTATGCCGTGCTAATAATCGTAAACTTTCGCTCTGTGGCTCTAGCCATGGTTGGTTTGCATTTGTAGATGATTCTAAGTCCATTATAACCCTAATGAGTCCTTTTAAGGATATACCTTGCATTACTCTCCCACCTCTCAATTCTGTTAACAAGGTTACTTTATCAGCTGATCCAATAAAAAGTCCAAATGATTATATGATTGTAGCAATTTATGATTGTGGTAATCTTGCTTATGTTGGAAGAGATCAGCAAAATTGGACTTATATAGACACATCAAAATCTTCTTTCATTGATTTCATATTTTATAAAGGTCTATTAGTTGCTCTCAATAACCGAAACAAGATCGTATCCTTTAATTTTGGTTATTCAGATGATACTTCGGGTAAAACAACGATAACTTCAAACGTTGTTTTAGAAGAAAAAGATGAACATTGCTTTGTACGAGATAAATTCCTTGTGAAATCACTAGAAGAAGAGCTATGGATGGTAAGAAGGTGTGACACGAGTATGTGTACATTCCATGTATACAAATTGAAACTAGATGCCAAAAGTGAGAAACTTGAACACTTGTTGAAACTTGAGAGTTTGGGAGATAACATTTTATTTTTAGGAGCCGGAGATTCAATTTCCGTGTCGGCGTCATATTTCTCTAAGTCTTTGCAGAGAGACTCAATTTACTTTGCTAATGGATTGAAGATCTATAATATGAAGAATGGAACTGCTAGTTATCGTTTTCCATATTGGGATAGTCCTTATTGGATTCTGCCACATTTTCAATGA

Protein sequence

>MS.gene73460.t1

MKRRNWANLEALPLSLILDNLEEHIDHVSFGAVCKTWRSIAKFSHQNHQFKTIALPMLMISEKTNSSSIEKNWLYGILNKRWHPFQYQVCRANNRKLSLCGSSHGWFAFVDDSKSIITLMSPFKDIPCITLPPLNSVNKVTLSADPIKSPNDYMIVAIYDCGNLAYVGRDQQNWTYIDTSKSSFIDFIFYKGLLVALNNRNKIVSFNFGYSDDTSGKTTITSNVVLEEKDEHCFVRDKFLVKSLEEELWMVRRCDTSMCTFHVYKLKLDAKSEKLEHLLKLESLGDNILFLGAGDSISVSASYFSKSLQRDSIYFANGLKIYNMKNGTASYRFPYWDSPYWILPHFQ