AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071292

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071292.t1 MTR_0268s0080 98.788 330 4 0 1 330 1 330 0.0 678
MS.gene071292.t1 MTR_1g050472 98.182 330 6 0 1 330 1 330 0.0 672
MS.gene071292.t1 MTR_7g029110 97.879 330 7 0 1 330 1 330 0.0 670
MS.gene071292.t1 MTR_8g469010 92.727 330 19 1 1 330 1 325 0.0 637
MS.gene071292.t1 MTR_4g117370 76.615 325 75 1 6 330 18 341 0.0 531
MS.gene071292.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.gene071292.t1 AT3G27060 83.735 332 52 2 1 330 1 332 0.0 558
MS.gene071292.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:-68124511 None:intergenic
CATTCCATGTATTGCGAAAA+AGG 0.198353 7.1:+68124845 MS.gene071292:CDS
CAATCCAATACCCCAAAATC+TGG 0.320986 7.1:+68124499 MS.gene071292:CDS
GTTGCATTTGCTTGTGTAGA+AGG 0.323501 7.1:+68124921 MS.gene071292:CDS
ATTTCTTTGAGAAGCGCGTT+GGG 0.337568 7.1:+68125324 MS.gene071292:CDS
TTTGTTGCTGATAGATTATT+GGG 0.346573 7.1:+68125221 MS.gene071292:CDS
GTTTGTTGCTGATAGATTAT+TGG 0.356307 7.1:+68125220 MS.gene071292:CDS
AGGCTGATTGGGCGATGAAA+TGG 0.358474 7.1:+68124865 MS.gene071292:CDS
GGTGCGAGAAGTGGTTCTTC+TGG 0.368731 7.1:-68124450 None:intergenic
AATCGCTTATATACGTTTCA+AGG 0.387103 7.1:-68124785 None:intergenic
ATGTTCAGAATCCGTTTGAT+TGG 0.390491 7.1:+68125270 MS.gene071292:CDS
GAAAATCGCGCAGAAGCTTC+CGG 0.409737 7.1:-68124955 None:intergenic
ATACAGAATCGGTCTGGGTT+TGG 0.441730 7.1:-68124471 None:intergenic
GCCTTCTTCGCCGCCTCAGA+CGG 0.442189 7.1:+68124642 MS.gene071292:CDS
TCAGAATCCGTTTGATTGGA+TGG 0.443597 7.1:+68125274 MS.gene071292:CDS
CTGTTATGAATAGCTTGAAT+GGG 0.453833 7.1:+68125363 MS.gene071292:CDS
TCCGTCTGAGGCGGCGAAGA+AGG 0.458076 7.1:-68124643 None:intergenic
TCTGTTATGAATAGCTTGAA+TGG 0.458759 7.1:+68125362 MS.gene071292:CDS
CGACGCGCTTCCTTGCGCGT+TGG 0.462960 7.1:+68125160 MS.gene071292:CDS
GCGCTTCCTTGCGCGTTGGT+TGG 0.468741 7.1:+68125164 MS.gene071292:CDS
GGCGGTCCAGAATGAGGCTT+CGG 0.476778 7.1:-68124538 None:intergenic
ATGGAATTGATTTCGCTTCA+AGG 0.479094 7.1:+68125293 MS.gene071292:CDS
ATCAATTCCATCCAATCAAA+CGG 0.480364 7.1:-68125281 None:intergenic
GGAGGAAAGATCGACTTCTT+CGG 0.499480 7.1:-68124559 None:intergenic
GAGCTTATTTCACGTGATGA+AGG 0.499630 7.1:+68125023 MS.gene071292:CDS
TCTGAAGCACGTGCTTTCTA+CGG 0.503147 7.1:+68124714 MS.gene071292:CDS
GGGAACATACAGAATCGGTC+TGG 0.504168 7.1:-68124477 None:intergenic
AGTGGTTCTTCTGGAAAAGC+AGG 0.510370 7.1:-68124441 None:intergenic
GGGTGAACTTGGTTGTGAAA+AGG 0.510958 7.1:+68125241 MS.gene071292:CDS
GATAGATTATTGGGTGAACT+TGG 0.513434 7.1:+68125230 MS.gene071292:CDS
GTTGTTCCAGTGCTTGAGAT+CGG 0.515525 7.1:-68124580 None:intergenic
GGAACATACAGAATCGGTCT+GGG 0.519029 7.1:-68124476 None:intergenic
AATTTCTTTGAGAAGCGCGT+TGG 0.523856 7.1:+68125323 MS.gene071292:CDS
TTCTTCGGCGGTCCAGAATG+AGG 0.524296 7.1:-68124544 None:intergenic
TTCGAGGACAATTCCGTCTG+AGG 0.536756 7.1:-68124655 None:intergenic
TTTCCTCCGATCTCAAGCAC+TGG 0.537267 7.1:+68124574 MS.gene071292:CDS
TGAAATAAGCTCGTTTGAGA+AGG 0.538441 7.1:-68125012 None:intergenic
TCTGGGTTTGGTGCGAGAAG+TGG 0.546005 7.1:-68124459 None:intergenic
TGCGCGTTGGTTGGTATGAA+CGG 0.549799 7.1:+68125173 MS.gene071292:CDS
TGGAATTGATTTCGCTTCAA+GGG 0.551257 7.1:+68125294 MS.gene071292:CDS
CAAGGACGTGTGAGATGAAG+TGG 0.552828 7.1:-68124620 None:intergenic
GGATTGGGAACATACAGAAT+CGG 0.556653 7.1:-68124482 None:intergenic
AATCCAATACCCCAAAATCT+GGG 0.556684 7.1:+68124500 MS.gene071292:CDS
TCGTTTGAGAAGGTTAGTCC+TGG 0.559472 7.1:-68125002 None:intergenic
ATTGTCCTCGAAAATCTCGC+TGG 0.568595 7.1:+68124666 MS.gene071292:CDS
CACTGGAACAACCTCACAGA+CGG 0.586656 7.1:+68124591 MS.gene071292:CDS
CTGAGGCGGCGAAGAAGGCA+AGG 0.588500 7.1:-68124638 None:intergenic
TTTCTTTGAGAAGCGCGTTG+GGG 0.598671 7.1:+68125325 MS.gene071292:CDS
TTCATACCAACCAACGCGCA+AGG 0.601918 7.1:-68125170 None:intergenic
GAGGACAATTCCGTCTGAGG+CGG 0.603534 7.1:-68124652 None:intergenic
ATGAATAGCTTGAATGGGAA+TGG 0.603815 7.1:+68125368 MS.gene071292:CDS
ACTAACTTCAGAGCGTGTGA+AGG 0.618034 7.1:+68125094 MS.gene071292:CDS
GTTCCAGTGCTTGAGATCGG+AGG 0.623496 7.1:-68124577 None:intergenic
GGAAAGATCGACTTCTTCGG+CGG 0.687608 7.1:-68124556 None:intergenic
AGTGGCGTTCGCCGTCTGTG+AGG 0.694180 7.1:-68124602 None:intergenic
GCGTTGGTTGGTATGAACGG+TGG 0.700772 7.1:+68125176 MS.gene071292:CDS
GAAGTGAATACATCTCAGAG+TGG 0.738238 7.1:-68124761 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTTGTTGCTGATAGATTATT+GGG + chr7.1:68125221-68125240 MS.gene071292:CDS 25.0%
AATCGCTTATATACGTTTCA+AGG - chr7.1:68124788-68124807 None:intergenic 30.0%
ATCAATTCCATCCAATCAAA+CGG - chr7.1:68125284-68125303 None:intergenic 30.0%
CTGTTATGAATAGCTTGAAT+GGG + chr7.1:68125363-68125382 MS.gene071292:CDS 30.0%
TCTGTTATGAATAGCTTGAA+TGG + chr7.1:68125362-68125381 MS.gene071292:CDS 30.0%
! GTTTGTTGCTGATAGATTAT+TGG + chr7.1:68125220-68125239 MS.gene071292:CDS 30.0%
! TTGTACATTTCCCAGATTTT+GGG - chr7.1:68124513-68124532 None:intergenic 30.0%
! TTTGTACATTTCCCAGATTT+TGG - chr7.1:68124514-68124533 None:intergenic 30.0%
!!! ATTTTCTGGTTGAAAAAACG+CGG + chr7.1:68124972-68124991 MS.gene071292:CDS 30.0%
!!! TGCTGATTTTTGCTTTAGTT+TGG + chr7.1:68125394-68125413 MS.gene071292:CDS 30.0%
AATCCAATACCCCAAAATCT+GGG + chr7.1:68124500-68124519 MS.gene071292:CDS 35.0%
ATGAATAGCTTGAATGGGAA+TGG + chr7.1:68125368-68125387 MS.gene071292:CDS 35.0%
ATGTTCAGAATCCGTTTGAT+TGG + chr7.1:68125270-68125289 MS.gene071292:CDS 35.0%
CATTCCATGTATTGCGAAAA+AGG + chr7.1:68124845-68124864 MS.gene071292:CDS 35.0%
GATAGATTATTGGGTGAACT+TGG + chr7.1:68125230-68125249 MS.gene071292:CDS 35.0%
TATTGCGAAAAAGGCTGATT+GGG + chr7.1:68124854-68124873 MS.gene071292:CDS 35.0%
TGAAATAAGCTCGTTTGAGA+AGG - chr7.1:68125015-68125034 None:intergenic 35.0%
! ATGGAATTGATTTCGCTTCA+AGG + chr7.1:68125293-68125312 MS.gene071292:CDS 35.0%
! GGATGTTTTCAATTGCAATC+TGG - chr7.1:68124743-68124762 None:intergenic 35.0%
! GTAGAAGGAATTTTCTTCTC+CGG + chr7.1:68124936-68124955 MS.gene071292:CDS 35.0%
! TGGAATTGATTTCGCTTCAA+GGG + chr7.1:68125294-68125313 MS.gene071292:CDS 35.0%
! TGTACATTTCCCAGATTTTG+GGG - chr7.1:68124512-68124531 None:intergenic 35.0%
!! CTTTTTCGCAATACATGGAA+TGG - chr7.1:68124847-68124866 None:intergenic 35.0%
!!! AGATTTTGGGGTATTGGATT+GGG - chr7.1:68124500-68124519 None:intergenic 35.0%
AAAAAACGCGGTTTAATGCC+AGG + chr7.1:68124984-68125003 MS.gene071292:CDS 40.0%
CAATCCAATACCCCAAAATC+TGG + chr7.1:68124499-68124518 MS.gene071292:CDS 40.0%
GAAGTGAATACATCTCAGAG+TGG - chr7.1:68124764-68124783 None:intergenic 40.0%
GAGCTTATTTCACGTGATGA+AGG + chr7.1:68125023-68125042 MS.gene071292:CDS 40.0%
GGATTGGGAACATACAGAAT+CGG - chr7.1:68124485-68124504 None:intergenic 40.0%
GTATTGCGAAAAAGGCTGAT+TGG + chr7.1:68124853-68124872 MS.gene071292:CDS 40.0%
GTTGCATTTGCTTGTGTAGA+AGG + chr7.1:68124921-68124940 MS.gene071292:CDS 40.0%
TCAGAATCCGTTTGATTGGA+TGG + chr7.1:68125274-68125293 MS.gene071292:CDS 40.0%
! AATTTCTTTGAGAAGCGCGT+TGG + chr7.1:68125323-68125342 MS.gene071292:CDS 40.0%
! ATTTCTTTGAGAAGCGCGTT+GGG + chr7.1:68125324-68125343 MS.gene071292:CDS 40.0%
!! TCAGCCTTTTTCGCAATACA+TGG - chr7.1:68124852-68124871 None:intergenic 40.0%
!!! CAGATTTTGGGGTATTGGAT+TGG - chr7.1:68124501-68124520 None:intergenic 40.0%
!!! TTTCCCAGATTTTGGGGTAT+TGG - chr7.1:68124506-68124525 None:intergenic 40.0%
AAAAAGCCGAAGCCTCATTC+TGG + chr7.1:68124532-68124551 MS.gene071292:CDS 45.0%
ACTAACTTCAGAGCGTGTGA+AGG + chr7.1:68125094-68125113 MS.gene071292:CDS 45.0%
ATACAGAATCGGTCTGGGTT+TGG - chr7.1:68124474-68124493 None:intergenic 45.0%
ATTGTCCTCGAAAATCTCGC+TGG + chr7.1:68124666-68124685 MS.gene071292:CDS 45.0%
GGAACATACAGAATCGGTCT+GGG - chr7.1:68124479-68124498 None:intergenic 45.0%
GGGTGAACTTGGTTGTGAAA+AGG + chr7.1:68125241-68125260 MS.gene071292:CDS 45.0%
GTTGTTCCAGTGCTTGAGAT+CGG - chr7.1:68124583-68124602 None:intergenic 45.0%
! AGTGGTTCTTCTGGAAAAGC+AGG - chr7.1:68124444-68124463 None:intergenic 45.0%
! ATCTTCCAGCGAGATTTTCG+AGG - chr7.1:68124674-68124693 None:intergenic 45.0%
! GGAGGAAAGATCGACTTCTT+CGG - chr7.1:68124562-68124581 None:intergenic 45.0%
! TCGTTTGAGAAGGTTAGTCC+TGG - chr7.1:68125005-68125024 None:intergenic 45.0%
! TCTGAAGCACGTGCTTTCTA+CGG + chr7.1:68124714-68124733 MS.gene071292:CDS 45.0%
! TTTCTTTGAGAAGCGCGTTG+GGG + chr7.1:68125325-68125344 MS.gene071292:CDS 45.0%
AGGCTGATTGGGCGATGAAA+TGG + chr7.1:68124865-68124884 MS.gene071292:CDS 50.0%
CAAGGACGTGTGAGATGAAG+TGG - chr7.1:68124623-68124642 None:intergenic 50.0%
CACTGGAACAACCTCACAGA+CGG + chr7.1:68124591-68124610 MS.gene071292:CDS 50.0%
GAAAATCGCGCAGAAGCTTC+CGG - chr7.1:68124958-68124977 None:intergenic 50.0%
GGGAACATACAGAATCGGTC+TGG - chr7.1:68124480-68124499 None:intergenic 50.0%
TTCATACCAACCAACGCGCA+AGG - chr7.1:68125173-68125192 None:intergenic 50.0%
TTCGAGGACAATTCCGTCTG+AGG - chr7.1:68124658-68124677 None:intergenic 50.0%
TTTCCTCCGATCTCAAGCAC+TGG + chr7.1:68124574-68124593 MS.gene071292:CDS 50.0%
! GAAGCTTCTGCGCGATTTTC+TGG + chr7.1:68124958-68124977 MS.gene071292:CDS 50.0%
! GGAAAGATCGACTTCTTCGG+CGG - chr7.1:68124559-68124578 None:intergenic 50.0%
!! TGCGCGTTGGTTGGTATGAA+CGG + chr7.1:68125173-68125192 MS.gene071292:CDS 50.0%
GAGGACAATTCCGTCTGAGG+CGG - chr7.1:68124655-68124674 None:intergenic 55.0%
GGTGCGAGAAGTGGTTCTTC+TGG - chr7.1:68124453-68124472 None:intergenic 55.0%
GTTCCAGTGCTTGAGATCGG+AGG - chr7.1:68124580-68124599 None:intergenic 55.0%
TTCTTCGGCGGTCCAGAATG+AGG - chr7.1:68124547-68124566 None:intergenic 55.0%
!! GCGTTGGTTGGTATGAACGG+TGG + chr7.1:68125176-68125195 MS.gene071292:CDS 55.0%
!! TCTGGGTTTGGTGCGAGAAG+TGG - chr7.1:68124462-68124481 None:intergenic 55.0%
GGCGGTCCAGAATGAGGCTT+CGG - chr7.1:68124541-68124560 None:intergenic 60.0%
AGTGGCGTTCGCCGTCTGTG+AGG - chr7.1:68124605-68124624 None:intergenic 65.0%
CTGAGGCGGCGAAGAAGGCA+AGG - chr7.1:68124641-68124660 None:intergenic 65.0%
GCCTTCTTCGCCGCCTCAGA+CGG + chr7.1:68124642-68124661 MS.gene071292:CDS 65.0%
! GCGCTTCCTTGCGCGTTGGT+TGG + chr7.1:68125164-68125183 MS.gene071292:CDS 65.0%
! TCCGTCTGAGGCGGCGAAGA+AGG - chr7.1:68124646-68124665 None:intergenic 65.0%
CGACGCGCTTCCTTGCGCGT+TGG + chr7.1:68125160-68125179 MS.gene071292:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 68124438 68125430 68124438 ID=MS.gene071292
chr7.1 mRNA 68124438 68125430 68124438 ID=MS.gene071292.t1;Parent=MS.gene071292
chr7.1 exon 68124438 68125430 68124438 ID=MS.gene071292.t1.exon1;Parent=MS.gene071292.t1
chr7.1 CDS 68124438 68125430 68124438 ID=cds.MS.gene071292.t1;Parent=MS.gene071292.t1
Gene Sequence

>MS.gene071292

ATGCCTGCTTTTCCAGAAGAACCACTTCTCGCACCAAACCCAGACCGATTCTGTATGTTCCCAATCCAATACCCCAAAATCTGGGAAATGTACAAAAAAGCCGAAGCCTCATTCTGGACCGCCGAAGAAGTCGATCTTTCCTCCGATCTCAAGCACTGGAACAACCTCACAGACGGCGAACGCCACTTCATCTCACACGTCCTTGCCTTCTTCGCCGCCTCAGACGGAATTGTCCTCGAAAATCTCGCTGGAAGATTCATGAAAGAAGTTCAAGTCTCTGAAGCACGTGCTTTCTACGGTTTCCAGATTGCAATTGAAAACATCCACTCTGAGATGTATTCACTTCTCCTTGAAACGTATATAAGCGATTCTGCTGAAAAGAATCGCTTATTTCACGCAATTGAAACCATTCCATGTATTGCGAAAAAGGCTGATTGGGCGATGAAATGGATTGATTCAAGCGATTCTTTTGCTGAAAGAATCGTTGCATTTGCTTGTGTAGAAGGAATTTTCTTCTCCGGAAGCTTCTGCGCGATTTTCTGGTTGAAAAAACGCGGTTTAATGCCAGGACTAACCTTCTCAAACGAGCTTATTTCACGTGATGAAGGTCTGCATTGTGATTTCGCTTGTTTGTTATACTCGCTTCTACGCAAGAAACTAACTTCAGAGCGTGTGAAGGAAATTGTATGCAATGCTGTTGAAATTGAACGTGAATTTGTCTGCGACGCGCTTCCTTGCGCGTTGGTTGGTATGAACGGTGGATTGATGAGTACTTATATTGAGTTTGTTGCTGATAGATTATTGGGTGAACTTGGTTGTGAAAAGGTTTATAATGTTCAGAATCCGTTTGATTGGATGGAATTGATTTCGCTTCAAGGGAAGACGAATTTCTTTGAGAAGCGCGTTGGGGAGTATCAGAAAGCTTCTGTTATGAATAGCTTGAATGGGAATGGTGCTGCTGATTTTTGCTTTAGTTTGGATGAAGATTTTTAG
Protein sequence

>MS.gene071292.t1

MPAFPEEPLLAPNPDRFCMFPIQYPKIWEMYKKAEASFWTAEEVDLSSDLKHWNNLTDGERHFISHVLAFFAASDGIVLENLAGRFMKEVQVSEARAFYGFQIAIENIHSEMYSLLLETYISDSAEKNRLFHAIETIPCIAKKADWAMKWIDSSDSFAERIVAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSLLRKKLTSERVKEIVCNAVEIEREFVCDALPCALVGMNGGLMSTYIEFVADRLLGELGCEKVYNVQNPFDWMELISLQGKTNFFEKRVGEYQKASVMNSLNGNGAADFCFSLDEDF