AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70476


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70476.t1 MTR_3g082340 83.929 224 31 3 1 220 1 223 2.81e-135 379
MS.gene70476.t1 MTR_3g082420 76.233 223 47 3 3 220 1 222 6.98e-121 342
MS.gene70476.t1 MTR_3g080680 43.415 205 100 7 24 220 3 199 6.49e-39 133
MS.gene70476.t1 MTR_3g083030 39.834 241 111 9 1 219 1 229 2.93e-36 127
MS.gene70476.t1 MTR_3g083050 41.546 207 99 6 1 203 1 189 4.26e-34 121
MS.gene70476.t1 MTR_3g083080 36.607 224 118 8 1 219 1 205 7.49e-31 112
MS.gene70476.t1 MTR_8g461300 38.889 198 105 7 30 219 9 198 4.10e-23 92.8
MS.gene70476.t1 MTR_4g055800 39.744 156 74 5 52 203 134 273 2.77e-21 89.7
MS.gene70476.t1 MTR_3g083150 36.283 226 122 11 1 219 1 211 4.01e-21 87.8
MS.gene70476.t1 MTR_3g086030 45.783 83 39 2 48 126 15 95 1.26e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 67 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGAATTCGGAACCGGAATT+AGG 0.215538 3.1:-66725160 MS.gene70476:CDS
CCCTGCTTTAACAACTTTCC+AGG 0.234656 3.1:-66724449 MS.gene70476:CDS
CCTAATTCCGGTTCCGAATT+CGG 0.263860 3.1:+66725160 None:intergenic
GAACCCCGCGGTTTCGGTTT+GGG 0.291128 3.1:+66725124 None:intergenic
AACTTTCCAGGCCCAAGTTT+GGG 0.324224 3.1:-66724437 MS.gene70476:CDS
CGAAACCGCGGGGTTCTGTT+TGG 0.344981 3.1:-66725117 MS.gene70476:CDS
CAAACAGAACCCCGCGGTTT+CGG 0.345423 3.1:+66725118 None:intergenic
TGGAGTGTATTAGACTTTAA+TGG 0.348558 3.1:+66724378 None:intergenic
CAACTTTCCAGGCCCAAGTT+TGG 0.351722 3.1:-66724438 MS.gene70476:CDS
TTCGTGTTGCAGAATGTCTA+TGG 0.360071 3.1:-66725251 None:intergenic
GAAACCGCGGGGTTCTGTTT+GGG 0.361275 3.1:-66725116 MS.gene70476:CDS
TCTTGTTCCGATCCTAATTC+CGG 0.362062 3.1:+66725148 None:intergenic
TATCAAAACCGTCCCAAACT+TGG 0.364944 3.1:+66724425 None:intergenic
AGAACCCCGCGGTTTCGGTT+TGG 0.382583 3.1:+66725123 None:intergenic
CCGCCACATAACAGTGTTCC+TGG 0.391171 3.1:+66724785 None:intergenic
AAGAAGGAAGATGCCGAATT+CGG 0.415849 3.1:-66725173 MS.gene70476:CDS
GCGGGGTTCTGTTTGGGAGG+AGG 0.429584 3.1:-66725110 MS.gene70476:CDS
GAAGATGCCGAATTCGGAAC+CGG 0.437745 3.1:-66725167 MS.gene70476:CDS
CAGTGCAAACAATAATAATC+AGG 0.440939 3.1:-66724687 MS.gene70476:intron
GCCTGGAAAGTTGTTAAAGC+AGG 0.451734 3.1:+66724448 None:intergenic
ATCGGTTATGAAGAGGGGTT+GGG 0.467286 3.1:+66724760 None:intergenic
AACCGTCCCAAACTTGGGCC+TGG 0.470738 3.1:+66724431 None:intergenic
TGAACTCTCCCGGCTTGCAT+TGG 0.475836 3.1:-66724717 MS.gene70476:CDS
TAACAGTGTTCCTGGCGGAC+GGG 0.484854 3.1:+66724793 None:intergenic
TTATCACAAATATATATGTA+AGG 0.491342 3.1:+66725031 None:intergenic
GTGGGAGTTCGTGTGACTGC+GGG 0.493011 3.1:+66725211 None:intergenic
ACTTGATGAAACTCAAATGT+TGG 0.500719 3.1:+66724571 None:intergenic
CATCGGTTATGAAGAGGGGT+TGG 0.502034 3.1:+66724759 None:intergenic
AACAGTGTTCCTGGCGGACG+GGG 0.502549 3.1:+66724794 None:intergenic
GGGAGAGTTCATTGAGAGTA+GGG 0.505718 3.1:+66724729 None:intergenic
ATCAAAACCGTCCCAAACTT+GGG 0.509684 3.1:+66724426 None:intergenic
ATAGATAATTCACTCAACTC+TGG 0.516445 3.1:+66725073 None:intergenic
GTAATAGTCCAATGCAAGCC+GGG 0.518943 3.1:+66724709 None:intergenic
AGCAGCAATACCAACATCAT+AGG 0.521515 3.1:+66724537 None:intergenic
CGGGAGAGTTCATTGAGAGT+AGG 0.523682 3.1:+66724728 None:intergenic
CGGAAAACTGCAGAGAAAGA+AGG 0.523922 3.1:-66725189 MS.gene70476:CDS
ATCTTCATCGGTTATGAAGA+GGG 0.524106 3.1:+66724754 None:intergenic
TATGATGTTGGTATTGCTGC+TGG 0.533144 3.1:-66724535 MS.gene70476:CDS
TGTAATAGTCCAATGCAAGC+CGG 0.540454 3.1:+66724708 None:intergenic
GAGAGTAGGGCGATCTTCAT+CGG 0.549057 3.1:+66724742 None:intergenic
ATAACAGTGTTCCTGGCGGA+CGG 0.549223 3.1:+66724792 None:intergenic
ATGTCTATGGAATTCAATAC+CGG 0.569805 3.1:-66725238 MS.gene70476:CDS
CGCAGTCACACGAACTCCCA+CGG 0.573058 3.1:-66725209 MS.gene70476:CDS
ACCGCGGGGTTCTGTTTGGG+AGG 0.573859 3.1:-66725113 MS.gene70476:CDS
TTCCAGGCCCAAGTTTGGGA+CGG 0.574885 3.1:-66724433 MS.gene70476:CDS
AGAACCCAAACCGAAACCGC+GGG 0.577512 3.1:-66725128 MS.gene70476:CDS
CCTGGAAAGTTGTTAAAGCA+GGG 0.579311 3.1:+66724449 None:intergenic
CTACTCTCAATGAACTCTCC+CGG 0.588355 3.1:-66724727 MS.gene70476:CDS
CGTGGGAGTTCGTGTGACTG+CGG 0.590663 3.1:+66725210 None:intergenic
TCGTGTGACTGCGGGCACGC+CGG 0.604081 3.1:+66725219 None:intergenic
GAGCATTTAGAGCGTTCTCG+CGG 0.611708 3.1:-66724959 MS.gene70476:CDS
CCGCCAGGAACACTGTTATG+TGG 0.616088 3.1:-66724788 MS.gene70476:CDS
TTCGGAACCGGAATTAGGAT+CGG 0.619721 3.1:-66725155 MS.gene70476:CDS
TGGAAAGTTGTTAAAGCAGG+GGG 0.622860 3.1:+66724451 None:intergenic
ACAGTGTTCCTGGCGGACGG+GGG 0.624136 3.1:+66724795 None:intergenic
GATCTTCATCGGTTATGAAG+AGG 0.624382 3.1:+66724753 None:intergenic
GTCAAGTGTACCTATGATGT+TGG 0.629074 3.1:-66724547 MS.gene70476:CDS
CTGGAAAGTTGTTAAAGCAG+GGG 0.630786 3.1:+66724450 None:intergenic
TCTTCATCGGTTATGAAGAG+GGG 0.634517 3.1:+66724755 None:intergenic
AAGAACCCAAACCGAAACCG+CGG 0.646068 3.1:-66725129 MS.gene70476:CDS
TAAACTCAGGAAGAAACTAG+AGG 0.667176 3.1:-66724993 MS.gene70476:CDS
TTGTGTACAAGAATAAACTC+AGG 0.668106 3.1:-66725006 MS.gene70476:CDS
CCAGGAACACTGTTATGTGG+CGG 0.691865 3.1:-66724785 MS.gene70476:CDS
GAACCCAAACCGAAACCGCG+GGG 0.744268 3.1:-66725127 MS.gene70476:CDS
TCCTCCCAAACAGAACCCCG+CGG 0.747056 3.1:+66725112 None:intergenic
GGAAAGTTGTTAAAGCAGGG+GGG 0.752617 3.1:+66724452 None:intergenic
CCACATAACAGTGTTCCTGG+CGG 0.759130 3.1:+66724788 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTCTTCTTAATTAATTATT+AGG - chr3.1:66725029-66725048 MS.gene70476:CDS 15.0%
!! TTATCACAAATATATATGTA+AGG + chr3.1:66724597-66724616 None:intergenic 15.0%
!!! TAATTAATTTTGATTCTTTC+TGG - chr3.1:66724769-66724788 MS.gene70476:CDS 15.0%
ACTTGATGAAACTCAAATGT+TGG + chr3.1:66725057-66725076 None:intergenic 30.0%
ATAGATAATTCACTCAACTC+TGG + chr3.1:66724555-66724574 None:intergenic 30.0%
ATGTCTATGGAATTCAATAC+CGG - chr3.1:66724387-66724406 MS.gene70476:CDS 30.0%
CAGTGCAAACAATAATAATC+AGG - chr3.1:66724938-66724957 MS.gene70476:intron 30.0%
TTGTGTACAAGAATAAACTC+AGG - chr3.1:66724619-66724638 MS.gene70476:intron 30.0%
TAAACTCAGGAAGAAACTAG+AGG - chr3.1:66724632-66724651 MS.gene70476:intron 35.0%
! ATCTTCATCGGTTATGAAGA+GGG + chr3.1:66724874-66724893 None:intergenic 35.0%
!! GTCTTTTGCATTAGCTTGAA+AGG + chr3.1:66725133-66725152 None:intergenic 35.0%
AACACAACACAACACAACAC+AGG - chr3.1:66724794-66724813 MS.gene70476:CDS 40.0%
AAGAAGGAAGATGCCGAATT+CGG - chr3.1:66724452-66724471 MS.gene70476:CDS 40.0%
AGCAGCAATACCAACATCAT+AGG + chr3.1:66725091-66725110 None:intergenic 40.0%
ATAGACGCATACGTACACTT+AGG + chr3.1:66724692-66724711 None:intergenic 40.0%
ATCAAAACCGTCCCAAACTT+GGG + chr3.1:66725202-66725221 None:intergenic 40.0%
CCTGGAAAGTTGTTAAAGCA+GGG + chr3.1:66725179-66725198 None:intergenic 40.0%
CTGGAAAGTTGTTAAAGCAG+GGG + chr3.1:66725178-66725197 None:intergenic 40.0%
GTCAAGTGTACCTATGATGT+TGG - chr3.1:66725078-66725097 MS.gene70476:CDS 40.0%
TATCAAAACCGTCCCAAACT+TGG + chr3.1:66725203-66725222 None:intergenic 40.0%
TATGATGTTGGTATTGCTGC+TGG - chr3.1:66725090-66725109 MS.gene70476:CDS 40.0%
TCTTGTTCCGATCCTAATTC+CGG + chr3.1:66724480-66724499 None:intergenic 40.0%
TGGAAAGTTGTTAAAGCAGG+GGG + chr3.1:66725177-66725196 None:intergenic 40.0%
TGTAATAGTCCAATGCAAGC+CGG + chr3.1:66724920-66724939 None:intergenic 40.0%
! GATCTTCATCGGTTATGAAG+AGG + chr3.1:66724875-66724894 None:intergenic 40.0%
! TCTTCATCGGTTATGAAGAG+GGG + chr3.1:66724873-66724892 None:intergenic 40.0%
AACTTTCCAGGCCCAAGTTT+GGG - chr3.1:66725188-66725207 MS.gene70476:CDS 45.0%
ATCGGTTATGAAGAGGGGTT+GGG + chr3.1:66724868-66724887 None:intergenic 45.0%
CCCTGCTTTAACAACTTTCC+AGG - chr3.1:66725176-66725195 MS.gene70476:CDS 45.0%
CCTAATTCCGGTTCCGAATT+CGG + chr3.1:66724468-66724487 None:intergenic 45.0%
CGGAAAACTGCAGAGAAAGA+AGG - chr3.1:66724436-66724455 MS.gene70476:CDS 45.0%
CTACTCTCAATGAACTCTCC+CGG - chr3.1:66724898-66724917 MS.gene70476:intron 45.0%
GCCTGGAAAGTTGTTAAAGC+AGG + chr3.1:66725180-66725199 None:intergenic 45.0%
GGAAAGTTGTTAAAGCAGGG+GGG + chr3.1:66725176-66725195 None:intergenic 45.0%
GGGAGAGTTCATTGAGAGTA+GGG + chr3.1:66724899-66724918 None:intergenic 45.0%
GTAATAGTCCAATGCAAGCC+GGG + chr3.1:66724919-66724938 None:intergenic 45.0%
TTCGGAACCGGAATTAGGAT+CGG - chr3.1:66724470-66724489 MS.gene70476:CDS 45.0%
! CTTTCTCTGCAGTTTTCCGT+GGG + chr3.1:66724435-66724454 None:intergenic 45.0%
! TCTTTCTCTGCAGTTTTCCG+TGG + chr3.1:66724436-66724455 None:intergenic 45.0%
AAGAACCCAAACCGAAACCG+CGG - chr3.1:66724496-66724515 MS.gene70476:CDS 50.0%
ATAACAGTGTTCCTGGCGGA+CGG + chr3.1:66724836-66724855 None:intergenic 50.0%
CAACTTTCCAGGCCCAAGTT+TGG - chr3.1:66725187-66725206 MS.gene70476:CDS 50.0%
CCACATAACAGTGTTCCTGG+CGG + chr3.1:66724840-66724859 None:intergenic 50.0%
CCAGGAACACTGTTATGTGG+CGG - chr3.1:66724840-66724859 MS.gene70476:intron 50.0%
CCGAATTCGGAACCGGAATT+AGG - chr3.1:66724465-66724484 MS.gene70476:CDS 50.0%
CGGGAGAGTTCATTGAGAGT+AGG + chr3.1:66724900-66724919 None:intergenic 50.0%
GAAGATGCCGAATTCGGAAC+CGG - chr3.1:66724458-66724477 MS.gene70476:CDS 50.0%
GAGAGTAGGGCGATCTTCAT+CGG + chr3.1:66724886-66724905 None:intergenic 50.0%
! CATCGGTTATGAAGAGGGGT+TGG + chr3.1:66724869-66724888 None:intergenic 50.0%
! GAGCATTTAGAGCGTTCTCG+CGG - chr3.1:66724666-66724685 MS.gene70476:intron 50.0%
AGAACCCAAACCGAAACCGC+GGG - chr3.1:66724497-66724516 MS.gene70476:CDS 55.0%
CAAACAGAACCCCGCGGTTT+CGG + chr3.1:66724510-66724529 None:intergenic 55.0%
CCGCCACATAACAGTGTTCC+TGG + chr3.1:66724843-66724862 None:intergenic 55.0%
CCGCCAGGAACACTGTTATG+TGG - chr3.1:66724837-66724856 MS.gene70476:intron 55.0%
GAAACCGCGGGGTTCTGTTT+GGG - chr3.1:66724509-66724528 MS.gene70476:CDS 55.0%
TGTTAAAGCAGGGGGGCTGT+CGG + chr3.1:66725169-66725188 None:intergenic 55.0%
TTCCAGGCCCAAGTTTGGGA+CGG - chr3.1:66725192-66725211 MS.gene70476:CDS 55.0%
! TAACAGTGTTCCTGGCGGAC+GGG + chr3.1:66724835-66724854 None:intergenic 55.0%
! TGAACTCTCCCGGCTTGCAT+TGG - chr3.1:66724908-66724927 MS.gene70476:intron 55.0%
AACCGTCCCAAACTTGGGCC+TGG + chr3.1:66725197-66725216 None:intergenic 60.0%
AGAACCCCGCGGTTTCGGTT+TGG + chr3.1:66724505-66724524 None:intergenic 60.0%
CGAAACCGCGGGGTTCTGTT+TGG - chr3.1:66724508-66724527 MS.gene70476:CDS 60.0%
CGCAGTCACACGAACTCCCA+CGG - chr3.1:66724416-66724435 MS.gene70476:CDS 60.0%
CGTGGGAGTTCGTGTGACTG+CGG + chr3.1:66724418-66724437 None:intergenic 60.0%
GAACCCAAACCGAAACCGCG+GGG - chr3.1:66724498-66724517 MS.gene70476:CDS 60.0%
GAACCCCGCGGTTTCGGTTT+GGG + chr3.1:66724504-66724523 None:intergenic 60.0%
GTGGGAGTTCGTGTGACTGC+GGG + chr3.1:66724417-66724436 None:intergenic 60.0%
TCCTCCCAAACAGAACCCCG+CGG + chr3.1:66724516-66724535 None:intergenic 60.0%
! AACAGTGTTCCTGGCGGACG+GGG + chr3.1:66724834-66724853 None:intergenic 60.0%
AAAGCAGGGGGGCTGTCGGA+AGG + chr3.1:66725165-66725184 None:intergenic 65.0%
AAGCAGGGGGGCTGTCGGAA+GGG + chr3.1:66725164-66725183 None:intergenic 65.0%
ACCGCGGGGTTCTGTTTGGG+AGG - chr3.1:66724512-66724531 MS.gene70476:CDS 65.0%
GCGGGGTTCTGTTTGGGAGG+AGG - chr3.1:66724515-66724534 MS.gene70476:CDS 65.0%
! ACAGTGTTCCTGGCGGACGG+GGG + chr3.1:66724833-66724852 None:intergenic 65.0%
GATGTTCTCCCCCGTCCGCC+AGG - chr3.1:66724822-66724841 MS.gene70476:intron 70.0%
TCGTGTGACTGCGGGCACGC+CGG + chr3.1:66724409-66724428 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 66724387 66725260 66724387 ID=MS.gene70476
chr3.1 mRNA 66724387 66725260 66724387 ID=MS.gene70476.t1;Parent=MS.gene70476
chr3.1 exon 66724952 66725260 66724952 ID=MS.gene70476.t1.exon1;Parent=MS.gene70476.t1
chr3.1 CDS 66724952 66725260 66724952 ID=cds.MS.gene70476.t1;Parent=MS.gene70476.t1
chr3.1 exon 66724688 66724831 66724688 ID=MS.gene70476.t1.exon2;Parent=MS.gene70476.t1
chr3.1 CDS 66724688 66724831 66724688 ID=cds.MS.gene70476.t1;Parent=MS.gene70476.t1
chr3.1 exon 66724387 66724596 66724387 ID=MS.gene70476.t1.exon3;Parent=MS.gene70476.t1
chr3.1 CDS 66724387 66724596 66724387 ID=cds.MS.gene70476.t1;Parent=MS.gene70476.t1
Gene Sequence

>MS.gene70476

ATGTCTATGGAATTCAATACCGGCGTGCCCGCAGTCACACGAACTCCCACGGAAAACTGCAGAGAAAGAAGGAAGATGCCGAATTCGGAACCGGAATTAGGATCGGAACAAGAACCCAAACCGAAACCGCGGGGTTCTGTTTGGGAGGAGGTGTACGATGAAGATCCAGAGTTGAGTGAATTATCTATCTATGATGATGATGACGAGCCTTACATATATATTTGTGATAAATTTGTGTACAAGAATAAACTCAGGAAGAAACTAGAGGAAGCAGATAATGAGCATTTAGAGCGTTCTCGCGGCCTAAGTGTACGTATGCGTCTATCTATCTATTTCATTTTTGTTTTCAATTCACTGTTTTTCTTCAATTCTGTTTCACTCTTAATTAATTTTGATTCTTTCTGGACAACACAACACAACACAACACAGGTGTACGATGTTCTCCCCCGTCCGCCAGGAACACTGTTATGTGGCGGTACCCAACCCCTCTTCATAACCGATGAAGATCGCCCTACTCTCAATGAACTCTCCCGGCTTGCATTGGACTATTACAGTGCAAACAATAATAATCAGGTTCAATACTTAATACTTAACTGAAGAGAATGAATGAATATTGTATGTTGTTTATTCACTAAACTAATTGTTCTTCTTAATTAATTATTAGGCTCCAACATTTGAGTTTCATCAAGTTGTCAAGTGTACCTATGATGTTGGTATTGCTGCTGGCAATATGTTTTACATTACCTTTCAAGCTAATGCAAAAGACAAAGAAGACCCTTCCGACAGCCCCCCTGCTTTAACAACTTTCCAGGCCCAAGTTTGGGACGGTTTTGATAAATCACGCAATGTCATCAAGTGCACCATTAAAGTCTAA

Protein sequence

>MS.gene70476.t1

MSMEFNTGVPAVTRTPTENCRERRKMPNSEPELGSEQEPKPKPRGSVWEEVYDEDPELSELSIYDDDDEPYIYICDKFVYKNKLRKKLEEADNEHLERSRGLSVYDVLPRPPGTLLCGGTQPLFITDEDRPTLNELSRLALDYYSANNNNQAPTFEFHQVVKCTYDVGIAAGNMFYITFQANAKDKEDPSDSPPALTTFQAQVWDGFDKSRNVIKCTIKV