AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52688

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52688.t1 MTR_7g093700 68.254 189 29 4 1 186 1 161 1.76e-71 213
MS.gene52688.t1 MTR_7g093670 91.463 82 6 1 106 186 1 82 4.88e-47 149
MS.gene52688.t1 MTR_7g093690 56.061 132 41 5 70 186 7 136 2.90e-31 110
MS.gene52688.t1 MTR_3g011210 40.769 130 49 4 71 175 7 133 1.12e-17 75.5
MS.gene52688.t1 MTR_7g093660 54.545 77 21 2 123 186 1 76 1.01e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 43 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATAATATTGATGGATCTT+TGG 0.189029 7.2:-15815651 MS.gene52688:CDS
AATAATATTGATGGATCTTT+GGG 0.232329 7.2:-15815650 MS.gene52688:CDS
AAACTGCACAAGATCTTTCT+TGG 0.245892 7.2:-15815931 MS.gene52688:CDS
CGACCTTGATTTGAAGCTTT+AGG 0.290526 7.2:-15815528 None:intergenic
ACACAATTTGCAACATAAAT+CGG 0.316739 7.2:-15815895 MS.gene52688:CDS
CATGATTACAATAATATTGA+TGG 0.344856 7.2:-15815659 MS.gene52688:CDS
ACCGCTGGTAATTCTTCAAT+TGG 0.376621 7.2:+15815578 None:intergenic
TGTAAATCTTGTGATGTTGT+TGG 0.389716 7.2:+15815830 None:intergenic
CACAATTTGCAACATAAATC+GGG 0.419218 7.2:-15815894 MS.gene52688:CDS
TGTGATGAAGGTGGTGGAGA+TGG 0.423532 7.2:+15815779 None:intergenic
ACAATTGGAACCTCTGGTAT+AGG 0.433089 7.2:+15815695 None:intergenic
TGCAAATTGTGTATGAGCTT+TGG 0.452975 7.2:+15815906 None:intergenic
CAACCTAAAGCTTCAAATCA+AGG 0.460309 7.2:+15815525 None:intergenic
TGACGAGTACGAGAGACAAT+TGG 0.479925 7.2:+15815680 None:intergenic
CGAGAGACAATTGGAACCTC+TGG 0.486624 7.2:+15815689 None:intergenic
AAGAATTACCAGCGGTCTGG+TGG 0.491691 7.2:-15815571 MS.gene52688:CDS
TCAATTGGAGCAGAATCAAT+CGG 0.499372 7.2:+15815593 None:intergenic
TTGAAGAATTACCAGCGGTC+TGG 0.500257 7.2:-15815574 MS.gene52688:CDS
ACCATGTTGTTTCCTATGCA+TGG 0.506943 7.2:-15815755 MS.gene52688:CDS
AACCTCTGGTATAGGCCTCA+TGG 0.524083 7.2:+15815703 None:intergenic
TTACCAGCGGTCTGGTGGGA+TGG 0.524380 7.2:-15815566 MS.gene52688:CDS
GTTGGTATGAATGTTTGTGA+TGG 0.529752 7.2:+15815848 None:intergenic
TGATTGCATCGAAATTCGAT+TGG 0.532720 7.2:+15815971 None:intergenic
TTTCCATCCCACCAGACCGC+TGG 0.540570 7.2:+15815563 None:intergenic
AGATCTTCTTTGTACCACAT+TGG 0.545928 7.2:-15815806 MS.gene52688:CDS
AACAACATGGTGTGTGATGA+AGG 0.556950 7.2:+15815767 None:intergenic
TGGATCTTTGGGGAGAACAA+TGG 0.571321 7.2:-15815639 MS.gene52688:CDS
TTGTTTCCTATGCATGGAAG+TGG 0.582090 7.2:-15815749 MS.gene52688:CDS
TAGGCCTCATGGATGGATGA+AGG 0.586352 7.2:+15815714 None:intergenic
TAATTACCACTTCCATGCAT+AGG 0.590506 7.2:+15815743 None:intergenic
GTTAGAGTAAGAACAAGAGT+AGG 0.594186 7.2:+15815995 None:intergenic
GATGAAGGTGGTGGAGATGG+TGG 0.599841 7.2:+15815782 None:intergenic
TCTGGTATAGGCCTCATGGA+TGG 0.600026 7.2:+15815707 None:intergenic
GTGGAGATGGTGGTCCAATG+TGG 0.620516 7.2:+15815792 None:intergenic
ATCCATGAGGCCTATACCAG+AGG 0.624967 7.2:-15815705 MS.gene52688:CDS
AGAATTACCAGCGGTCTGGT+GGG 0.635470 7.2:-15815570 MS.gene52688:CDS
ATAATATTGATGGATCTTTG+GGG 0.673989 7.2:-15815649 MS.gene52688:CDS
ATGGTGTGTGATGAAGGTGG+TGG 0.684137 7.2:+15815773 None:intergenic
TCCAATTGAAGAATTACCAG+CGG 0.686028 7.2:-15815579 MS.gene52688:CDS
GCCTCATGGATGGATGAAGG+TGG 0.701559 7.2:+15815717 None:intergenic
ACCACCTTCATCCATCCATG+AGG 0.719012 7.2:-15815718 MS.gene52688:CDS
TCCATGCATAGGAAACAACA+TGG 0.729158 7.2:+15815754 None:intergenic
AACATGGTGTGTGATGAAGG+TGG 0.787924 7.2:+15815770 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATGATTACAATAATATTGA+TGG - chr7.2:15815937-15815956 MS.gene52688:CDS 20.0%
!!! AATAATATTGATGGATCTTT+GGG - chr7.2:15815946-15815965 MS.gene52688:CDS 20.0%
! ACACAATTTGCAACATAAAT+CGG - chr7.2:15815701-15815720 MS.gene52688:CDS 25.0%
!! ATAATATTGATGGATCTTTG+GGG - chr7.2:15815947-15815966 MS.gene52688:CDS 25.0%
!! CAATAATATTGATGGATCTT+TGG - chr7.2:15815945-15815964 MS.gene52688:CDS 25.0%
CACAATTTGCAACATAAATC+GGG - chr7.2:15815702-15815721 MS.gene52688:CDS 30.0%
TGTAAATCTTGTGATGTTGT+TGG + chr7.2:15815769-15815788 None:intergenic 30.0%
AAACTGCACAAGATCTTTCT+TGG - chr7.2:15815665-15815684 MS.gene52688:CDS 35.0%
AGATCTTCTTTGTACCACAT+TGG - chr7.2:15815790-15815809 MS.gene52688:CDS 35.0%
GTTAGAGTAAGAACAAGAGT+AGG + chr7.2:15815604-15815623 None:intergenic 35.0%
GTTGGTATGAATGTTTGTGA+TGG + chr7.2:15815751-15815770 None:intergenic 35.0%
TAATTACCACTTCCATGCAT+AGG + chr7.2:15815856-15815875 None:intergenic 35.0%
TCAATTGGAGCAGAATCAAT+CGG + chr7.2:15816006-15816025 None:intergenic 35.0%
TCCAATTGAAGAATTACCAG+CGG - chr7.2:15816017-15816036 MS.gene52688:CDS 35.0%
TGATTGCATCGAAATTCGAT+TGG + chr7.2:15815628-15815647 None:intergenic 35.0%
TGCAAATTGTGTATGAGCTT+TGG + chr7.2:15815693-15815712 None:intergenic 35.0%
!! AAGATCTTGTGCAGTTTTGA+AGG + chr7.2:15815662-15815681 None:intergenic 35.0%
AACAACATGGTGTGTGATGA+AGG + chr7.2:15815832-15815851 None:intergenic 40.0%
ACAATTGGAACCTCTGGTAT+AGG + chr7.2:15815904-15815923 None:intergenic 40.0%
ACCGCTGGTAATTCTTCAAT+TGG + chr7.2:15816021-15816040 None:intergenic 40.0%
TCCATGCATAGGAAACAACA+TGG + chr7.2:15815845-15815864 None:intergenic 40.0%
TTGTTTCCTATGCATGGAAG+TGG - chr7.2:15815847-15815866 MS.gene52688:CDS 40.0%
!! ACCATGTTGTTTCCTATGCA+TGG - chr7.2:15815841-15815860 MS.gene52688:CDS 40.0%
!!! GTGCAGTTTTGAAGGTGTTA+TGG + chr7.2:15815654-15815673 None:intergenic 40.0%
AACATGGTGTGTGATGAAGG+TGG + chr7.2:15815829-15815848 None:intergenic 45.0%
TGACGAGTACGAGAGACAAT+TGG + chr7.2:15815919-15815938 None:intergenic 45.0%
TTGAAGAATTACCAGCGGTC+TGG - chr7.2:15816022-15816041 MS.gene52688:CDS 45.0%
! TGGATCTTTGGGGAGAACAA+TGG - chr7.2:15815957-15815976 MS.gene52688:CDS 45.0%
AACCTCTGGTATAGGCCTCA+TGG + chr7.2:15815896-15815915 None:intergenic 50.0%
AAGAATTACCAGCGGTCTGG+TGG - chr7.2:15816025-15816044 MS.gene52688:CDS 50.0%
ACCACCTTCATCCATCCATG+AGG - chr7.2:15815878-15815897 MS.gene52688:CDS 50.0%
AGAATTACCAGCGGTCTGGT+GGG - chr7.2:15816026-15816045 MS.gene52688:CDS 50.0%
ATCCATGAGGCCTATACCAG+AGG - chr7.2:15815891-15815910 MS.gene52688:CDS 50.0%
ATGGTGTGTGATGAAGGTGG+TGG + chr7.2:15815826-15815845 None:intergenic 50.0%
CGAGAGACAATTGGAACCTC+TGG + chr7.2:15815910-15815929 None:intergenic 50.0%
TAGGCCTCATGGATGGATGA+AGG + chr7.2:15815885-15815904 None:intergenic 50.0%
TCTGGTATAGGCCTCATGGA+TGG + chr7.2:15815892-15815911 None:intergenic 50.0%
!! TGTGATGAAGGTGGTGGAGA+TGG + chr7.2:15815820-15815839 None:intergenic 50.0%
GCCTCATGGATGGATGAAGG+TGG + chr7.2:15815882-15815901 None:intergenic 55.0%
! GTGGAGATGGTGGTCCAATG+TGG + chr7.2:15815807-15815826 None:intergenic 55.0%
!! GATGAAGGTGGTGGAGATGG+TGG + chr7.2:15815817-15815836 None:intergenic 55.0%
TTACCAGCGGTCTGGTGGGA+TGG - chr7.2:15816030-15816049 MS.gene52688:CDS 60.0%
TTTCCATCCCACCAGACCGC+TGG + chr7.2:15816036-15816055 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 15815529 15816089 15815529 ID=MS.gene52688
chr7.2 mRNA 15815529 15816089 15815529 ID=MS.gene52688.t1;Parent=MS.gene52688
chr7.2 exon 15815529 15816089 15815529 ID=MS.gene52688.t1.exon1;Parent=MS.gene52688.t1
chr7.2 CDS 15815529 15816089 15815529 ID=cds.MS.gene52688.t1;Parent=MS.gene52688.t1
Gene Sequence

>MS.gene52688

ATGTTGTTAGATGTTCAACTCTTATCTTATGATGAGAGCAGTACTGTCAGCAGCAACAATACTAACGTTGCTCCTACTCTTGTTCTTACTCTAACTCCAATCGAATTTCGATGCAATCATTGCCATAACACCTTCAAAACTGCACAAGATCTTTCTTGGCACCAAAGCTCATACACAATTTGCAACATAAATCGGGCTTTATTGAGACATAACAACACACCATCACAAACATTCATACCAACAACATCACAAGATTTACAAAGATCTTCTTTGTACCACATTGGACCACCATCTCCACCACCTTCATCACACACCATGTTGTTTCCTATGCATGGAAGTGGTAATTATGACCACCTTCATCCATCCATGAGGCCTATACCAGAGGTTCCAATTGTCTCTCGTACTCGTCATGATTACAATAATATTGATGGATCTTTGGGGAGAACAATGGATCTTATTTCTCTGATCGACAAGCCGATTGATTCTGCTCCAATTGAAGAATTACCAGCGGTCTGGTGGGATGGAAACAACAATGACATCGACCTTGATTTGAAGCTTTAG
Protein sequence

>MS.gene52688.t1

MLLDVQLLSYDESSTVSSNNTNVAPTLVLTLTPIEFRCNHCHNTFKTAQDLSWHQSSYTICNINRALLRHNNTPSQTFIPTTSQDLQRSSLYHIGPPSPPPSSHTMLFPMHGSGNYDHLHPSMRPIPEVPIVSRTRHDYNNIDGSLGRTMDLISLIDKPIDSAPIEELPAVWWDGNNNDIDLDLKL