AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08871


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08871.t1 MTR_4g059400 99.398 166 1 0 1 166 1 166 1.89e-116 327
MS.gene08871.t1 MTR_1g064500 99.390 164 1 0 1 164 1 164 2.24e-114 321
MS.gene08871.t1 MTR_2g094300 83.537 164 27 0 1 164 1 164 1.50e-97 279
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08871.t1 AT5G60670 90.361 166 16 0 1 166 1 166 9.53e-108 305
MS.gene08871.t1 AT2G37190 89.759 166 17 0 1 166 1 166 1.20e-107 304
MS.gene08871.t1 AT3G53430 89.157 166 18 0 1 166 1 166 2.70e-107 303

Find 64 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCTTCTTGCGGTCCCTTTC+TGG 0.085933 4.2:-44277643 None:intergenic
CGGAACGGTGAAGGAGATTT+TGG 0.108347 4.2:+44277759 MS.gene08871:CDS
GGACGTAAACTTCGACGATT+TGG 0.192090 4.2:-44277402 None:intergenic
CCAATCCTTGGCGGTTTCTT+TGG 0.201986 4.2:-44277518 None:intergenic
CCAAGGATTGGAAGGGTCTT+AGG 0.217246 4.2:+44277530 MS.gene08871:CDS
ATGTCTTCTCCGATCTTCTT+TGG 0.296410 4.2:-44277493 None:intergenic
ACTAAGAACATCAAGCATAA+TGG 0.336453 4.2:+44277664 MS.gene08871:CDS
TCTGTTGGGTGTACTGTTGA+TGG 0.361476 4.2:+44277793 MS.gene08871:CDS
CTAAGAACATCAAGCATAAT+GGG 0.363010 4.2:+44277665 MS.gene08871:CDS
GACGTAAACTTCGACGATTT+GGG 0.369524 4.2:-44277401 None:intergenic
CAAAATCTCCTTCACCGTTC+CGG 0.392918 4.2:-44277758 None:intergenic
ATCTCCTGCTGCAAATCCTT+TGG 0.401059 4.2:-44277823 None:intergenic
ATTTGGGATGGATCGAGCTT+TGG 0.421723 4.2:-44277385 None:intergenic
TTGGGGACTTGTGTTTCTGT+TGG 0.422484 4.2:+44277778 MS.gene08871:CDS
TGCGGCGGCGCTGGTTATCA+AGG 0.430495 4.2:+44277609 MS.gene08871:CDS
CCAAAGAAACCGCCAAGGAT+TGG 0.444226 4.2:+44277518 MS.gene08871:CDS
TGGGGACTTGTGTTTCTGTT+GGG 0.450633 4.2:+44277779 MS.gene08871:CDS
TGTTCCGTCTGCGGCGGCGC+TGG 0.455070 4.2:+44277600 MS.gene08871:CDS
GAGACCGAGAGGACCGATCT+TGG 0.459185 4.2:-44277467 None:intergenic
GGCTTTGAAGGAACCAGAAA+GGG 0.473237 4.2:+44277630 MS.gene08871:CDS
GATCTTGGGAGCGAGGGAAC+TGG 0.475143 4.2:-44277452 None:intergenic
GAAGTTTACGTCCGCGTCAC+CGG 0.477456 4.2:+44277412 MS.gene08871:CDS
GCTGGTTATCAAGGCTTTGA+AGG 0.478691 4.2:+44277618 MS.gene08871:CDS
AGACCGAGAGGACCGATCTT+GGG 0.482147 4.2:-44277466 None:intergenic
CGCGTCACCGGCGGTGAAGT+CGG 0.482477 4.2:+44277424 MS.gene08871:CDS
AGTTCCCTCGCTCCCAAGAT+CGG 0.485343 4.2:+44277454 MS.gene08871:CDS
TCGATGGCGAAGGAGCTTGC+CGG 0.485429 4.2:+44277739 MS.gene08871:CDS
CAAGGATTGGAAGGGTCTTA+GGG 0.485831 4.2:+44277531 MS.gene08871:CDS
AAGACCCTTCCAATCCTTGG+CGG 0.491678 4.2:-44277527 None:intergenic
GATTATGAAGCCGAGGTCGA+TGG 0.494531 4.2:+44277723 MS.gene08871:CDS
CTGTTGGGTGTACTGTTGAT+GGG 0.503488 4.2:+44277794 MS.gene08871:CDS
CCTAAGACCCTTCCAATCCT+TGG 0.507224 4.2:-44277530 None:intergenic
TGGGATGGATCGAGCTTTGG+CGG 0.507491 4.2:-44277382 None:intergenic
GGCGAAGGAGCTTGCCGGAA+CGG 0.508951 4.2:+44277744 MS.gene08871:CDS
CGCTGTTGTTCCGTCTGCGG+CGG 0.521792 4.2:+44277594 MS.gene08871:CDS
GCTCCCAAGATCGGTCCTCT+CGG 0.529023 4.2:+44277463 MS.gene08871:CDS
GGAGCTTGCCGGAACGGTGA+AGG 0.535229 4.2:+44277750 MS.gene08871:CDS
AGCTCCTTCGCCATCGACCT+CGG 0.537913 4.2:-44277733 None:intergenic
AGAAACCGCCAAGGATTGGA+AGG 0.540852 4.2:+44277522 MS.gene08871:CDS
CGTTCAGAATCGTCAGGCTA+AGG 0.541896 4.2:+44277570 MS.gene08871:CDS
GTTGAGATTCCTCAGGATTG+AGG 0.542687 4.2:+44277859 MS.gene08871:CDS
GGCAGCTCCGACTTCACCGC+CGG 0.547290 4.2:-44277431 None:intergenic
GCTCACCGTTCAGAATCGTC+AGG 0.553915 4.2:+44277564 MS.gene08871:CDS
AGATCCAAAGGATTTGCAGC+AGG 0.556469 4.2:+44277819 MS.gene08871:CDS
AGGCTTTGAAGGAACCAGAA+AGG 0.556759 4.2:+44277629 MS.gene08871:CDS
TGATGTTCTTAGTCTTCTTG+CGG 0.558436 4.2:-44277654 None:intergenic
AGGACCGATCTTGGGAGCGA+GGG 0.558873 4.2:-44277458 None:intergenic
CGACTTCACCGCCGGTGACG+CGG 0.560163 4.2:-44277423 None:intergenic
TGGTGATGTTGAGATTCCTC+AGG 0.564181 4.2:+44277852 MS.gene08871:CDS
GAGGACCGATCTTGGGAGCG+AGG 0.581430 4.2:-44277459 None:intergenic
GGTCTCTCACCAAAGAAGAT+CGG 0.586947 4.2:+44277484 MS.gene08871:CDS
ATAACCAGCGCCGCCGCAGA+CGG 0.589868 4.2:-44277604 None:intergenic
TTGCAGCAGGAGATTAGTGA+TGG 0.592966 4.2:+44277832 MS.gene08871:CDS
GAAGCCGAGGTCGATGGCGA+AGG 0.599042 4.2:+44277729 MS.gene08871:CDS
GTTTACGTCCGCGTCACCGG+CGG 0.607165 4.2:+44277415 MS.gene08871:CDS
TAAACTTCGACGATTTGGGA+TGG 0.609008 4.2:-44277397 None:intergenic
TGTTGATGGGAAAGATCCAA+AGG 0.621231 4.2:+44277807 MS.gene08871:CDS
GGTCGCTGTTGTTCCGTCTG+CGG 0.635590 4.2:+44277591 MS.gene08871:CDS
TTGCGAAGATTATGAAGCCG+AGG 0.654828 4.2:+44277716 MS.gene08871:CDS
TTCTTTGGTGAGAGACCGAG+AGG 0.661014 4.2:-44277478 None:intergenic
CTTAGCCTGACGATTCTGAA+CGG 0.665775 4.2:-44277569 None:intergenic
GAAACCGCCAAGGATTGGAA+GGG 0.668035 4.2:+44277523 MS.gene08871:CDS
CATCGCCAAAGAAACCGCCA+AGG 0.687884 4.2:+44277513 MS.gene08871:CDS
CAACAACCACCTCAATCCTG+AGG 0.689306 4.2:-44277868 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACTAAGAACATCAAGCATAA+TGG + chr4.2:44277664-44277683 MS.gene08871:CDS 30.0%
CTAAGAACATCAAGCATAAT+GGG + chr4.2:44277665-44277684 MS.gene08871:CDS 30.0%
! TGATGTTCTTAGTCTTCTTG+CGG - chr4.2:44277657-44277676 None:intergenic 35.0%
ATGTCTTCTCCGATCTTCTT+TGG - chr4.2:44277496-44277515 None:intergenic 40.0%
GACGTAAACTTCGACGATTT+GGG - chr4.2:44277404-44277423 None:intergenic 40.0%
! TAAACTTCGACGATTTGGGA+TGG - chr4.2:44277400-44277419 None:intergenic 40.0%
! TGTTGATGGGAAAGATCCAA+AGG + chr4.2:44277807-44277826 MS.gene08871:CDS 40.0%
AGATCCAAAGGATTTGCAGC+AGG + chr4.2:44277819-44277838 MS.gene08871:CDS 45.0%
ATCTCCTGCTGCAAATCCTT+TGG - chr4.2:44277826-44277845 None:intergenic 45.0%
CAAAATCTCCTTCACCGTTC+CGG - chr4.2:44277761-44277780 None:intergenic 45.0%
CAAGGATTGGAAGGGTCTTA+GGG + chr4.2:44277531-44277550 MS.gene08871:CDS 45.0%
CTGTTGGGTGTACTGTTGAT+GGG + chr4.2:44277794-44277813 MS.gene08871:CDS 45.0%
CTTAGCCTGACGATTCTGAA+CGG - chr4.2:44277572-44277591 None:intergenic 45.0%
GGACGTAAACTTCGACGATT+TGG - chr4.2:44277405-44277424 None:intergenic 45.0%
GGTCTCTCACCAAAGAAGAT+CGG + chr4.2:44277484-44277503 MS.gene08871:CDS 45.0%
TCTGTTGGGTGTACTGTTGA+TGG + chr4.2:44277793-44277812 MS.gene08871:CDS 45.0%
TTGCAGCAGGAGATTAGTGA+TGG + chr4.2:44277832-44277851 MS.gene08871:CDS 45.0%
TTGCGAAGATTATGAAGCCG+AGG + chr4.2:44277716-44277735 MS.gene08871:CDS 45.0%
! ATTTGGGATGGATCGAGCTT+TGG - chr4.2:44277388-44277407 None:intergenic 45.0%
! GAACGGTGAAGGAGATTTTG+GGG + chr4.2:44277761-44277780 MS.gene08871:CDS 45.0%
! GCTGGTTATCAAGGCTTTGA+AGG + chr4.2:44277618-44277637 MS.gene08871:CDS 45.0%
! GGAACGGTGAAGGAGATTTT+GGG + chr4.2:44277760-44277779 MS.gene08871:CDS 45.0%
! TGGGGACTTGTGTTTCTGTT+GGG + chr4.2:44277779-44277798 MS.gene08871:CDS 45.0%
! TGGTGATGTTGAGATTCCTC+AGG + chr4.2:44277852-44277871 MS.gene08871:CDS 45.0%
! TTGGGGACTTGTGTTTCTGT+TGG + chr4.2:44277778-44277797 MS.gene08871:CDS 45.0%
!! AGGCTTTGAAGGAACCAGAA+AGG + chr4.2:44277629-44277648 MS.gene08871:CDS 45.0%
!! GGCTTTGAAGGAACCAGAAA+GGG + chr4.2:44277630-44277649 MS.gene08871:CDS 45.0%
AAGACCCTTCCAATCCTTGG+CGG - chr4.2:44277530-44277549 None:intergenic 50.0%
AGAAACCGCCAAGGATTGGA+AGG + chr4.2:44277522-44277541 MS.gene08871:CDS 50.0%
CCAAAGAAACCGCCAAGGAT+TGG + chr4.2:44277518-44277537 MS.gene08871:CDS 50.0%
CCAAGGATTGGAAGGGTCTT+AGG + chr4.2:44277530-44277549 MS.gene08871:CDS 50.0%
CCAATCCTTGGCGGTTTCTT+TGG - chr4.2:44277521-44277540 None:intergenic 50.0%
CCTAAGACCCTTCCAATCCT+TGG - chr4.2:44277533-44277552 None:intergenic 50.0%
CGTTCAGAATCGTCAGGCTA+AGG + chr4.2:44277570-44277589 MS.gene08871:CDS 50.0%
GAAACCGCCAAGGATTGGAA+GGG + chr4.2:44277523-44277542 MS.gene08871:CDS 50.0%
GATTATGAAGCCGAGGTCGA+TGG + chr4.2:44277723-44277742 MS.gene08871:CDS 50.0%
TTCTTTGGTGAGAGACCGAG+AGG - chr4.2:44277481-44277500 None:intergenic 50.0%
! CGGAACGGTGAAGGAGATTT+TGG + chr4.2:44277759-44277778 MS.gene08871:CDS 50.0%
AGACCGAGAGGACCGATCTT+GGG - chr4.2:44277469-44277488 None:intergenic 55.0%
AGTTCCCTCGCTCCCAAGAT+CGG + chr4.2:44277454-44277473 MS.gene08871:CDS 55.0%
CATCGCCAAAGAAACCGCCA+AGG + chr4.2:44277513-44277532 MS.gene08871:CDS 55.0%
GAAGTTTACGTCCGCGTCAC+CGG + chr4.2:44277412-44277431 MS.gene08871:CDS 55.0%
GCTCACCGTTCAGAATCGTC+AGG + chr4.2:44277564-44277583 MS.gene08871:CDS 55.0%
GTCTTCTTGCGGTCCCTTTC+TGG - chr4.2:44277646-44277665 None:intergenic 55.0%
! TGGGATGGATCGAGCTTTGG+CGG - chr4.2:44277385-44277404 None:intergenic 55.0%
AGCTCCTTCGCCATCGACCT+CGG - chr4.2:44277736-44277755 None:intergenic 60.0%
AGGACCGATCTTGGGAGCGA+GGG - chr4.2:44277461-44277480 None:intergenic 60.0%
GAGACCGAGAGGACCGATCT+TGG - chr4.2:44277470-44277489 None:intergenic 60.0%
GATCTTGGGAGCGAGGGAAC+TGG - chr4.2:44277455-44277474 None:intergenic 60.0%
GCTCCCAAGATCGGTCCTCT+CGG + chr4.2:44277463-44277482 MS.gene08871:CDS 60.0%
GGTCGCTGTTGTTCCGTCTG+CGG + chr4.2:44277591-44277610 MS.gene08871:CDS 60.0%
TCGATGGCGAAGGAGCTTGC+CGG + chr4.2:44277739-44277758 MS.gene08871:CDS 60.0%
ATAACCAGCGCCGCCGCAGA+CGG - chr4.2:44277607-44277626 None:intergenic 65.0%
CGCTGTTGTTCCGTCTGCGG+CGG + chr4.2:44277594-44277613 MS.gene08871:CDS 65.0%
GAAGCCGAGGTCGATGGCGA+AGG + chr4.2:44277729-44277748 MS.gene08871:CDS 65.0%
GAGGACCGATCTTGGGAGCG+AGG - chr4.2:44277462-44277481 None:intergenic 65.0%
GGAGCTTGCCGGAACGGTGA+AGG + chr4.2:44277750-44277769 MS.gene08871:CDS 65.0%
GGCGAAGGAGCTTGCCGGAA+CGG + chr4.2:44277744-44277763 MS.gene08871:CDS 65.0%
GTTTACGTCCGCGTCACCGG+CGG + chr4.2:44277415-44277434 MS.gene08871:CDS 65.0%
!! TGCGGCGGCGCTGGTTATCA+AGG + chr4.2:44277609-44277628 MS.gene08871:CDS 65.0%
CGACTTCACCGCCGGTGACG+CGG - chr4.2:44277426-44277445 None:intergenic 70.0%
CGCGTCACCGGCGGTGAAGT+CGG + chr4.2:44277424-44277443 MS.gene08871:CDS 70.0%
GGCAGCTCCGACTTCACCGC+CGG - chr4.2:44277434-44277453 None:intergenic 70.0%
TGTTCCGTCTGCGGCGGCGC+TGG + chr4.2:44277600-44277619 MS.gene08871:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 44277379 44277879 44277379 ID=MS.gene08871
chr4.2 mRNA 44277379 44277879 44277379 ID=MS.gene08871.t1;Parent=MS.gene08871
chr4.2 exon 44277379 44277879 44277379 ID=MS.gene08871.t1.exon1;Parent=MS.gene08871.t1
chr4.2 CDS 44277379 44277879 44277379 ID=cds.MS.gene08871.t1;Parent=MS.gene08871.t1
Gene Sequence

>MS.gene08871

ATGCCGCCAAAGCTCGATCCATCCCAAATCGTCGAAGTTTACGTCCGCGTCACCGGCGGTGAAGTCGGAGCTGCCAGTTCCCTCGCTCCCAAGATCGGTCCTCTCGGTCTCTCACCAAAGAAGATCGGAGAAGACATCGCCAAAGAAACCGCCAAGGATTGGAAGGGTCTTAGGGTGACAGTCAAGCTCACCGTTCAGAATCGTCAGGCTAAGGTCGCTGTTGTTCCGTCTGCGGCGGCGCTGGTTATCAAGGCTTTGAAGGAACCAGAAAGGGACCGCAAGAAGACTAAGAACATCAAGCATAATGGGAATATCTCTCTTGATGATGTTATTGAGATTGCGAAGATTATGAAGCCGAGGTCGATGGCGAAGGAGCTTGCCGGAACGGTGAAGGAGATTTTGGGGACTTGTGTTTCTGTTGGGTGTACTGTTGATGGGAAAGATCCAAAGGATTTGCAGCAGGAGATTAGTGATGGTGATGTTGAGATTCCTCAGGATTGA

Protein sequence

>MS.gene08871.t1

MPPKLDPSQIVEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIAKIMKPRSMAKELAGTVKEILGTCVSVGCTVDGKDPKDLQQEISDGDVEIPQD