AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071291

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071291.t1 MTR_0268s0080 98.788 330 4 0 1 330 1 330 0.0 678
MS.gene071291.t1 MTR_1g050472 98.182 330 6 0 1 330 1 330 0.0 672
MS.gene071291.t1 MTR_7g029110 97.879 330 7 0 1 330 1 330 0.0 670
MS.gene071291.t1 MTR_8g469010 92.727 330 19 1 1 330 1 325 0.0 637
MS.gene071291.t1 MTR_4g117370 76.615 325 75 1 6 330 18 341 0.0 531
MS.gene071291.t1 MTR_6g005270 67.442 43 14 0 265 307 25 67 1.54e-13 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071291.t1 AT3G27060 83.735 332 52 2 1 330 1 332 0.0 558
MS.gene071291.t1 AT3G23580 76.615 325 75 1 6 330 18 341 0.0 518

Find 57 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGTACATTTCCCAGATTT+TGG 0.151339 7.1:-68166575 None:intergenic
CATTCCATGTATTGCGAAAA+AGG 0.198353 7.1:+68166909 MS.gene071291:CDS
CAATCCAATACCCCAAAATC+TGG 0.320986 7.1:+68166563 MS.gene071291:CDS
GTTGCATTTGCTTGTGTAGA+AGG 0.323501 7.1:+68166985 MS.gene071291:CDS
ATTTCTTTGAGAAGCGCGTT+GGG 0.337568 7.1:+68167388 MS.gene071291:CDS
TTTGTTGCTGATAGATTATT+GGG 0.346573 7.1:+68167285 MS.gene071291:CDS
GTTTGTTGCTGATAGATTAT+TGG 0.356307 7.1:+68167284 MS.gene071291:CDS
AGGCTGATTGGGCGATGAAA+TGG 0.358474 7.1:+68166929 MS.gene071291:CDS
GGTGCGAGAAGTGGTTCTTC+TGG 0.368731 7.1:-68166514 None:intergenic
AATCGCTTATATACGTTTCA+AGG 0.387103 7.1:-68166849 None:intergenic
ATGTTCAGAATCCGTTTGAT+TGG 0.390491 7.1:+68167334 MS.gene071291:CDS
GAAAATCGCGCAGAAGCTTC+CGG 0.409737 7.1:-68167019 None:intergenic
ATACAGAATCGGTCTGGGTT+TGG 0.441730 7.1:-68166535 None:intergenic
GCCTTCTTCGCCGCCTCAGA+CGG 0.442189 7.1:+68166706 MS.gene071291:CDS
TCAGAATCCGTTTGATTGGA+TGG 0.443597 7.1:+68167338 MS.gene071291:CDS
CTGTTATGAATAGCTTGAAT+GGG 0.453833 7.1:+68167427 MS.gene071291:CDS
TCCGTCTGAGGCGGCGAAGA+AGG 0.458076 7.1:-68166707 None:intergenic
TCTGTTATGAATAGCTTGAA+TGG 0.458759 7.1:+68167426 MS.gene071291:CDS
CGACGCGCTTCCTTGCGCGT+TGG 0.462960 7.1:+68167224 MS.gene071291:CDS
GCGCTTCCTTGCGCGTTGGT+TGG 0.468741 7.1:+68167228 MS.gene071291:CDS
GGCGGTCCAGAATGAGGCTT+CGG 0.476778 7.1:-68166602 None:intergenic
ATGGAATTGATTTCGCTTCA+AGG 0.479094 7.1:+68167357 MS.gene071291:CDS
ATCAATTCCATCCAATCAAA+CGG 0.480364 7.1:-68167345 None:intergenic
GGAGGAAAGATCGACTTCTT+CGG 0.499480 7.1:-68166623 None:intergenic
GAGCTTATTTCACGTGATGA+AGG 0.499630 7.1:+68167087 MS.gene071291:CDS
TCTGAAGCACGTGCTTTCTA+CGG 0.503147 7.1:+68166778 MS.gene071291:CDS
GGGAACATACAGAATCGGTC+TGG 0.504168 7.1:-68166541 None:intergenic
AGTGGTTCTTCTGGAAAAGC+AGG 0.510370 7.1:-68166505 None:intergenic
GGGTGAACTTGGTTGTGAAA+AGG 0.510958 7.1:+68167305 MS.gene071291:CDS
GATAGATTATTGGGTGAACT+TGG 0.513434 7.1:+68167294 MS.gene071291:CDS
GTTGTTCCAGTGCTTGAGAT+CGG 0.515525 7.1:-68166644 None:intergenic
GGAACATACAGAATCGGTCT+GGG 0.519029 7.1:-68166540 None:intergenic
AATTTCTTTGAGAAGCGCGT+TGG 0.523856 7.1:+68167387 MS.gene071291:CDS
TTCTTCGGCGGTCCAGAATG+AGG 0.524296 7.1:-68166608 None:intergenic
TTCGAGGACAATTCCGTCTG+AGG 0.536756 7.1:-68166719 None:intergenic
TTTCCTCCGATCTCAAGCAC+TGG 0.537267 7.1:+68166638 MS.gene071291:CDS
TGAAATAAGCTCGTTTGAGA+AGG 0.538441 7.1:-68167076 None:intergenic
TCTGGGTTTGGTGCGAGAAG+TGG 0.546005 7.1:-68166523 None:intergenic
TGCGCGTTGGTTGGTATGAA+CGG 0.549799 7.1:+68167237 MS.gene071291:CDS
TGGAATTGATTTCGCTTCAA+GGG 0.551257 7.1:+68167358 MS.gene071291:CDS
CAAGGACGTGTGAGATGAAG+TGG 0.552828 7.1:-68166684 None:intergenic
GGATTGGGAACATACAGAAT+CGG 0.556653 7.1:-68166546 None:intergenic
AATCCAATACCCCAAAATCT+GGG 0.556684 7.1:+68166564 MS.gene071291:CDS
TCGTTTGAGAAGGTTAGTCC+TGG 0.559472 7.1:-68167066 None:intergenic
ATTGTCCTCGAAAATCTCGC+TGG 0.568595 7.1:+68166730 MS.gene071291:CDS
CACTGGAACAACCTCACAGA+CGG 0.586656 7.1:+68166655 MS.gene071291:CDS
CTGAGGCGGCGAAGAAGGCA+AGG 0.588500 7.1:-68166702 None:intergenic
TTTCTTTGAGAAGCGCGTTG+GGG 0.598671 7.1:+68167389 MS.gene071291:CDS
TTCATACCAACCAACGCGCA+AGG 0.601918 7.1:-68167234 None:intergenic
GAGGACAATTCCGTCTGAGG+CGG 0.603534 7.1:-68166716 None:intergenic
ATGAATAGCTTGAATGGGAA+TGG 0.603815 7.1:+68167432 MS.gene071291:CDS
ACTAACTTCAGAGCGTGTGA+AGG 0.618034 7.1:+68167158 MS.gene071291:CDS
GTTCCAGTGCTTGAGATCGG+AGG 0.623496 7.1:-68166641 None:intergenic
GGAAAGATCGACTTCTTCGG+CGG 0.687608 7.1:-68166620 None:intergenic
AGTGGCGTTCGCCGTCTGTG+AGG 0.694180 7.1:-68166666 None:intergenic
GCGTTGGTTGGTATGAACGG+TGG 0.700772 7.1:+68167240 MS.gene071291:CDS
GAAGTGAATACATCTCAGAG+TGG 0.738238 7.1:-68166825 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTTGTTGCTGATAGATTATT+GGG + chr7.1:68167285-68167304 MS.gene071291:CDS 25.0%
AATCGCTTATATACGTTTCA+AGG - chr7.1:68166852-68166871 None:intergenic 30.0%
ATCAATTCCATCCAATCAAA+CGG - chr7.1:68167348-68167367 None:intergenic 30.0%
CTGTTATGAATAGCTTGAAT+GGG + chr7.1:68167427-68167446 MS.gene071291:CDS 30.0%
TCTGTTATGAATAGCTTGAA+TGG + chr7.1:68167426-68167445 MS.gene071291:CDS 30.0%
! GTTTGTTGCTGATAGATTAT+TGG + chr7.1:68167284-68167303 MS.gene071291:CDS 30.0%
! TTGTACATTTCCCAGATTTT+GGG - chr7.1:68166577-68166596 None:intergenic 30.0%
! TTTGTACATTTCCCAGATTT+TGG - chr7.1:68166578-68166597 None:intergenic 30.0%
!!! ATTTTCTGGTTGAAAAAACG+CGG + chr7.1:68167036-68167055 MS.gene071291:CDS 30.0%
!!! TGCTGATTTTTGCTTTAGTT+TGG + chr7.1:68167458-68167477 MS.gene071291:CDS 30.0%
AATCCAATACCCCAAAATCT+GGG + chr7.1:68166564-68166583 MS.gene071291:CDS 35.0%
ATGAATAGCTTGAATGGGAA+TGG + chr7.1:68167432-68167451 MS.gene071291:CDS 35.0%
ATGTTCAGAATCCGTTTGAT+TGG + chr7.1:68167334-68167353 MS.gene071291:CDS 35.0%
CATTCCATGTATTGCGAAAA+AGG + chr7.1:68166909-68166928 MS.gene071291:CDS 35.0%
GATAGATTATTGGGTGAACT+TGG + chr7.1:68167294-68167313 MS.gene071291:CDS 35.0%
TATTGCGAAAAAGGCTGATT+GGG + chr7.1:68166918-68166937 MS.gene071291:CDS 35.0%
TGAAATAAGCTCGTTTGAGA+AGG - chr7.1:68167079-68167098 None:intergenic 35.0%
! ATGGAATTGATTTCGCTTCA+AGG + chr7.1:68167357-68167376 MS.gene071291:CDS 35.0%
! GGATGTTTTCAATTGCAATC+TGG - chr7.1:68166807-68166826 None:intergenic 35.0%
! GTAGAAGGAATTTTCTTCTC+CGG + chr7.1:68167000-68167019 MS.gene071291:CDS 35.0%
! TGGAATTGATTTCGCTTCAA+GGG + chr7.1:68167358-68167377 MS.gene071291:CDS 35.0%
! TGTACATTTCCCAGATTTTG+GGG - chr7.1:68166576-68166595 None:intergenic 35.0%
!! CTTTTTCGCAATACATGGAA+TGG - chr7.1:68166911-68166930 None:intergenic 35.0%
!!! AGATTTTGGGGTATTGGATT+GGG - chr7.1:68166564-68166583 None:intergenic 35.0%
AAAAAACGCGGTTTAATGCC+AGG + chr7.1:68167048-68167067 MS.gene071291:CDS 40.0%
CAATCCAATACCCCAAAATC+TGG + chr7.1:68166563-68166582 MS.gene071291:CDS 40.0%
GAAGTGAATACATCTCAGAG+TGG - chr7.1:68166828-68166847 None:intergenic 40.0%
GAGCTTATTTCACGTGATGA+AGG + chr7.1:68167087-68167106 MS.gene071291:CDS 40.0%
GGATTGGGAACATACAGAAT+CGG - chr7.1:68166549-68166568 None:intergenic 40.0%
GTATTGCGAAAAAGGCTGAT+TGG + chr7.1:68166917-68166936 MS.gene071291:CDS 40.0%
GTTGCATTTGCTTGTGTAGA+AGG + chr7.1:68166985-68167004 MS.gene071291:CDS 40.0%
TCAGAATCCGTTTGATTGGA+TGG + chr7.1:68167338-68167357 MS.gene071291:CDS 40.0%
! AATTTCTTTGAGAAGCGCGT+TGG + chr7.1:68167387-68167406 MS.gene071291:CDS 40.0%
! ATTTCTTTGAGAAGCGCGTT+GGG + chr7.1:68167388-68167407 MS.gene071291:CDS 40.0%
!! TCAGCCTTTTTCGCAATACA+TGG - chr7.1:68166916-68166935 None:intergenic 40.0%
!!! CAGATTTTGGGGTATTGGAT+TGG - chr7.1:68166565-68166584 None:intergenic 40.0%
!!! TTTCCCAGATTTTGGGGTAT+TGG - chr7.1:68166570-68166589 None:intergenic 40.0%
AAAAAGCCGAAGCCTCATTC+TGG + chr7.1:68166596-68166615 MS.gene071291:CDS 45.0%
ACTAACTTCAGAGCGTGTGA+AGG + chr7.1:68167158-68167177 MS.gene071291:CDS 45.0%
ATACAGAATCGGTCTGGGTT+TGG - chr7.1:68166538-68166557 None:intergenic 45.0%
ATTGTCCTCGAAAATCTCGC+TGG + chr7.1:68166730-68166749 MS.gene071291:CDS 45.0%
GGAACATACAGAATCGGTCT+GGG - chr7.1:68166543-68166562 None:intergenic 45.0%
GGGTGAACTTGGTTGTGAAA+AGG + chr7.1:68167305-68167324 MS.gene071291:CDS 45.0%
GTTGTTCCAGTGCTTGAGAT+CGG - chr7.1:68166647-68166666 None:intergenic 45.0%
! AGTGGTTCTTCTGGAAAAGC+AGG - chr7.1:68166508-68166527 None:intergenic 45.0%
! ATCTTCCAGCGAGATTTTCG+AGG - chr7.1:68166738-68166757 None:intergenic 45.0%
! GGAGGAAAGATCGACTTCTT+CGG - chr7.1:68166626-68166645 None:intergenic 45.0%
! TCGTTTGAGAAGGTTAGTCC+TGG - chr7.1:68167069-68167088 None:intergenic 45.0%
! TCTGAAGCACGTGCTTTCTA+CGG + chr7.1:68166778-68166797 MS.gene071291:CDS 45.0%
! TTTCTTTGAGAAGCGCGTTG+GGG + chr7.1:68167389-68167408 MS.gene071291:CDS 45.0%
AGGCTGATTGGGCGATGAAA+TGG + chr7.1:68166929-68166948 MS.gene071291:CDS 50.0%
CAAGGACGTGTGAGATGAAG+TGG - chr7.1:68166687-68166706 None:intergenic 50.0%
CACTGGAACAACCTCACAGA+CGG + chr7.1:68166655-68166674 MS.gene071291:CDS 50.0%
GAAAATCGCGCAGAAGCTTC+CGG - chr7.1:68167022-68167041 None:intergenic 50.0%
GGGAACATACAGAATCGGTC+TGG - chr7.1:68166544-68166563 None:intergenic 50.0%
TTCATACCAACCAACGCGCA+AGG - chr7.1:68167237-68167256 None:intergenic 50.0%
TTCGAGGACAATTCCGTCTG+AGG - chr7.1:68166722-68166741 None:intergenic 50.0%
TTTCCTCCGATCTCAAGCAC+TGG + chr7.1:68166638-68166657 MS.gene071291:CDS 50.0%
! GAAGCTTCTGCGCGATTTTC+TGG + chr7.1:68167022-68167041 MS.gene071291:CDS 50.0%
! GGAAAGATCGACTTCTTCGG+CGG - chr7.1:68166623-68166642 None:intergenic 50.0%
!! TGCGCGTTGGTTGGTATGAA+CGG + chr7.1:68167237-68167256 MS.gene071291:CDS 50.0%
GAGGACAATTCCGTCTGAGG+CGG - chr7.1:68166719-68166738 None:intergenic 55.0%
GGTGCGAGAAGTGGTTCTTC+TGG - chr7.1:68166517-68166536 None:intergenic 55.0%
GTTCCAGTGCTTGAGATCGG+AGG - chr7.1:68166644-68166663 None:intergenic 55.0%
TTCTTCGGCGGTCCAGAATG+AGG - chr7.1:68166611-68166630 None:intergenic 55.0%
!! GCGTTGGTTGGTATGAACGG+TGG + chr7.1:68167240-68167259 MS.gene071291:CDS 55.0%
!! TCTGGGTTTGGTGCGAGAAG+TGG - chr7.1:68166526-68166545 None:intergenic 55.0%
GGCGGTCCAGAATGAGGCTT+CGG - chr7.1:68166605-68166624 None:intergenic 60.0%
AGTGGCGTTCGCCGTCTGTG+AGG - chr7.1:68166669-68166688 None:intergenic 65.0%
CTGAGGCGGCGAAGAAGGCA+AGG - chr7.1:68166705-68166724 None:intergenic 65.0%
GCCTTCTTCGCCGCCTCAGA+CGG + chr7.1:68166706-68166725 MS.gene071291:CDS 65.0%
! GCGCTTCCTTGCGCGTTGGT+TGG + chr7.1:68167228-68167247 MS.gene071291:CDS 65.0%
! TCCGTCTGAGGCGGCGAAGA+AGG - chr7.1:68166710-68166729 None:intergenic 65.0%
CGACGCGCTTCCTTGCGCGT+TGG + chr7.1:68167224-68167243 MS.gene071291:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 68166502 68167494 68166502 ID=MS.gene071291
chr7.1 mRNA 68166502 68167494 68166502 ID=MS.gene071291.t1;Parent=MS.gene071291
chr7.1 exon 68166502 68167494 68166502 ID=MS.gene071291.t1.exon1;Parent=MS.gene071291.t1
chr7.1 CDS 68166502 68167494 68166502 ID=cds.MS.gene071291.t1;Parent=MS.gene071291.t1
Gene Sequence

>MS.gene071291

ATGCCTGCTTTTCCAGAAGAACCACTTCTCGCACCAAACCCAGACCGATTCTGTATGTTCCCAATCCAATACCCCAAAATCTGGGAAATGTACAAAAAAGCCGAAGCCTCATTCTGGACCGCCGAAGAAGTCGATCTTTCCTCCGATCTCAAGCACTGGAACAACCTCACAGACGGCGAACGCCACTTCATCTCACACGTCCTTGCCTTCTTCGCCGCCTCAGACGGAATTGTCCTCGAAAATCTCGCTGGAAGATTCATGAAAGAAGTTCAAGTCTCTGAAGCACGTGCTTTCTACGGTTTCCAGATTGCAATTGAAAACATCCACTCTGAGATGTATTCACTTCTCCTTGAAACGTATATAAGCGATTCTGCTGAAAAGAATCGCTTATTTCACGCAATTGAAACCATTCCATGTATTGCGAAAAAGGCTGATTGGGCGATGAAATGGATTGATTCAAGCGATTCTTTTGCTGAAAGAATCGTTGCATTTGCTTGTGTAGAAGGAATTTTCTTCTCCGGAAGCTTCTGCGCGATTTTCTGGTTGAAAAAACGCGGTTTAATGCCAGGACTAACCTTCTCAAACGAGCTTATTTCACGTGATGAAGGTCTGCATTGTGATTTCGCTTGTTTGTTATACTCGCTTCTACGCAAGAAACTAACTTCAGAGCGTGTGAAGGAAATTGTATGCAATGCTGTTGAAATTGAACGTGAATTTGTCTGCGACGCGCTTCCTTGCGCGTTGGTTGGTATGAACGGTGGATTGATGAGTACTTATATTGAGTTTGTTGCTGATAGATTATTGGGTGAACTTGGTTGTGAAAAGGTTTATAATGTTCAGAATCCGTTTGATTGGATGGAATTGATTTCGCTTCAAGGGAAGACGAATTTCTTTGAGAAGCGCGTTGGGGAGTATCAGAAAGCTTCTGTTATGAATAGCTTGAATGGGAATGGTGCTGCTGATTTTTGCTTTAGTTTGGATGAAGATTTTTAG
Protein sequence

>MS.gene071291.t1

MPAFPEEPLLAPNPDRFCMFPIQYPKIWEMYKKAEASFWTAEEVDLSSDLKHWNNLTDGERHFISHVLAFFAASDGIVLENLAGRFMKEVQVSEARAFYGFQIAIENIHSEMYSLLLETYISDSAEKNRLFHAIETIPCIAKKADWAMKWIDSSDSFAERIVAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSLLRKKLTSERVKEIVCNAVEIEREFVCDALPCALVGMNGGLMSTYIEFVADRLLGELGCEKVYNVQNPFDWMELISLQGKTNFFEKRVGEYQKASVMNSLNGNGAADFCFSLDEDF