AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04654

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04654.t1 MTR_7g093700 67.725 189 30 4 1 186 1 161 2.18e-70 211
MS.gene04654.t1 MTR_7g093670 90.244 82 7 1 106 186 1 82 8.72e-46 145
MS.gene04654.t1 MTR_7g093690 60.185 108 37 5 70 174 7 111 3.24e-30 108
MS.gene04654.t1 MTR_3g011210 40.000 130 50 3 71 175 7 133 3.91e-18 77.0
MS.gene04654.t1 MTR_7g093660 62.264 53 17 2 123 174 1 51 2.79e-12 60.1
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 7.3:-17096186 MS.gene04654:CDS
AATAATATTGATGGATCTTT+GGG 0.232329 7.3:-17096185 MS.gene04654:CDS
AAACTGCACAAGATCTTTCT+TGG 0.245892 7.3:-17096466 MS.gene04654:CDS
CGACCTTGATTTGAAGCTTT+AGG 0.269899 7.3:-17096063 None:intergenic
ACACAATTTGCAACATAAAT+CGG 0.316739 7.3:-17096430 MS.gene04654:CDS
CATGATTACAATAATATTGA+TGG 0.344446 7.3:-17096194 MS.gene04654:CDS
ACCGCTGGTAATTCTTCAAT+TGG 0.376621 7.3:+17096113 None:intergenic
TGTAAATCTTGTGATGTTGT+TGG 0.389716 7.3:+17096365 None:intergenic
CACAATTTGCAACATAAATC+GGG 0.419218 7.3:-17096429 MS.gene04654:CDS
TGTGATGAAGGTGGTGGAGA+TGG 0.423532 7.3:+17096314 None:intergenic
ACAATTGGAACCTCTGGTAT+AGG 0.433089 7.3:+17096230 None:intergenic
TGCAAATTGTGTATGAGCTT+TGG 0.452975 7.3:+17096441 None:intergenic
CAACCTAAAGCTTCAAATCA+AGG 0.460309 7.3:+17096060 None:intergenic
TGATGAGTACGAGAGACAAT+TGG 0.478334 7.3:+17096215 None:intergenic
CGAGAGACAATTGGAACCTC+TGG 0.486624 7.3:+17096224 None:intergenic
AAGAATTACCAGCGGTCTGG+TGG 0.491691 7.3:-17096106 MS.gene04654:CDS
TCAATTGGAGCAGAATCAAT+CGG 0.499372 7.3:+17096128 None:intergenic
TTGAAGAATTACCAGCGGTC+TGG 0.500257 7.3:-17096109 MS.gene04654:CDS
ACCATGTTGTTTCCTATGCA+TGG 0.506943 7.3:-17096290 MS.gene04654:CDS
AACCTCTGGTATAGGCCTCA+TGG 0.524083 7.3:+17096238 None:intergenic
TTACCAGCGGTCTGGTGGGA+TGG 0.524380 7.3:-17096101 MS.gene04654:CDS
GTTGGTATGAATGTTTGTGA+TGG 0.529752 7.3:+17096383 None:intergenic
TGATTGCATCGAAATTCGAT+TGG 0.532720 7.3:+17096506 None:intergenic
TTTCCATCCCACCAGACCGC+TGG 0.540570 7.3:+17096098 None:intergenic
AGATCTTCTTTGTACCACAT+TGG 0.545928 7.3:-17096341 MS.gene04654:CDS
AACAACATGGTGTGTGATGA+AGG 0.556950 7.3:+17096302 None:intergenic
TGGATCTTTGGGGAGAACAA+TGG 0.571321 7.3:-17096174 MS.gene04654:CDS
TTGTTTCCTATGCATGGAAG+TGG 0.582090 7.3:-17096284 MS.gene04654:CDS
TAGGCCTCATGGATGGATGA+AGG 0.586352 7.3:+17096249 None:intergenic
TAATTACCACTTCCATGCAT+AGG 0.590506 7.3:+17096278 None:intergenic
GTTAGAGTAAGAACAAGAGT+AGG 0.594186 7.3:+17096530 None:intergenic
GATGAAGGTGGTGGAGATGG+TGG 0.599841 7.3:+17096317 None:intergenic
TCTGGTATAGGCCTCATGGA+TGG 0.600026 7.3:+17096242 None:intergenic
GTGGAGATGGTGGTCCAATG+TGG 0.620516 7.3:+17096327 None:intergenic
ATCCATGAGGCCTATACCAG+AGG 0.624967 7.3:-17096240 MS.gene04654:CDS
AGAATTACCAGCGGTCTGGT+GGG 0.635470 7.3:-17096105 MS.gene04654:CDS
ATAATATTGATGGATCTTTG+GGG 0.673989 7.3:-17096184 MS.gene04654:CDS
ATGGTGTGTGATGAAGGTGG+TGG 0.684137 7.3:+17096308 None:intergenic
TCCAATTGAAGAATTACCAG+CGG 0.686028 7.3:-17096114 MS.gene04654:CDS
GCCTCATGGATGGATGAAGG+TGG 0.701559 7.3:+17096252 None:intergenic
ACCACCTTCATCCATCCATG+AGG 0.719012 7.3:-17096253 MS.gene04654:CDS
TCCATGCATAGGAAACAACA+TGG 0.729158 7.3:+17096289 None:intergenic
AACATGGTGTGTGATGAAGG+TGG 0.787924 7.3:+17096305 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATGATTACAATAATATTGA+TGG - chr7.3:17096472-17096491 MS.gene04654:CDS 20.0%
!!! AATAATATTGATGGATCTTT+GGG - chr7.3:17096481-17096500 MS.gene04654:CDS 20.0%
! ACACAATTTGCAACATAAAT+CGG - chr7.3:17096236-17096255 MS.gene04654:CDS 25.0%
!! ATAATATTGATGGATCTTTG+GGG - chr7.3:17096482-17096501 MS.gene04654:CDS 25.0%
!! CAATAATATTGATGGATCTT+TGG - chr7.3:17096480-17096499 MS.gene04654:CDS 25.0%
CACAATTTGCAACATAAATC+GGG - chr7.3:17096237-17096256 MS.gene04654:CDS 30.0%
TGTAAATCTTGTGATGTTGT+TGG + chr7.3:17096304-17096323 None:intergenic 30.0%
AAACTGCACAAGATCTTTCT+TGG - chr7.3:17096200-17096219 MS.gene04654:CDS 35.0%
AGATCTTCTTTGTACCACAT+TGG - chr7.3:17096325-17096344 MS.gene04654:CDS 35.0%
GTTAGAGTAAGAACAAGAGT+AGG + chr7.3:17096139-17096158 None:intergenic 35.0%
GTTGGTATGAATGTTTGTGA+TGG + chr7.3:17096286-17096305 None:intergenic 35.0%
TAATTACCACTTCCATGCAT+AGG + chr7.3:17096391-17096410 None:intergenic 35.0%
TCAATTGGAGCAGAATCAAT+CGG + chr7.3:17096541-17096560 None:intergenic 35.0%
TCCAATTGAAGAATTACCAG+CGG - chr7.3:17096552-17096571 MS.gene04654:CDS 35.0%
TGATTGCATCGAAATTCGAT+TGG + chr7.3:17096163-17096182 None:intergenic 35.0%
TGCAAATTGTGTATGAGCTT+TGG + chr7.3:17096228-17096247 None:intergenic 35.0%
!! AAGATCTTGTGCAGTTTTGA+AGG + chr7.3:17096197-17096216 None:intergenic 35.0%
AACAACATGGTGTGTGATGA+AGG + chr7.3:17096367-17096386 None:intergenic 40.0%
ACAATTGGAACCTCTGGTAT+AGG + chr7.3:17096439-17096458 None:intergenic 40.0%
ACCGCTGGTAATTCTTCAAT+TGG + chr7.3:17096556-17096575 None:intergenic 40.0%
TCCATGCATAGGAAACAACA+TGG + chr7.3:17096380-17096399 None:intergenic 40.0%
TGATGAGTACGAGAGACAAT+TGG + chr7.3:17096454-17096473 None:intergenic 40.0%
TTGTTTCCTATGCATGGAAG+TGG - chr7.3:17096382-17096401 MS.gene04654:CDS 40.0%
!! ACCATGTTGTTTCCTATGCA+TGG - chr7.3:17096376-17096395 MS.gene04654:CDS 40.0%
!!! GTGCAGTTTTGAAGGTGTTA+TGG + chr7.3:17096189-17096208 None:intergenic 40.0%
AACATGGTGTGTGATGAAGG+TGG + chr7.3:17096364-17096383 None:intergenic 45.0%
TTGAAGAATTACCAGCGGTC+TGG - chr7.3:17096557-17096576 MS.gene04654:CDS 45.0%
! TGGATCTTTGGGGAGAACAA+TGG - chr7.3:17096492-17096511 MS.gene04654:CDS 45.0%
AACCTCTGGTATAGGCCTCA+TGG + chr7.3:17096431-17096450 None:intergenic 50.0%
AAGAATTACCAGCGGTCTGG+TGG - chr7.3:17096560-17096579 MS.gene04654:CDS 50.0%
ACCACCTTCATCCATCCATG+AGG - chr7.3:17096413-17096432 MS.gene04654:CDS 50.0%
AGAATTACCAGCGGTCTGGT+GGG - chr7.3:17096561-17096580 MS.gene04654:CDS 50.0%
ATCCATGAGGCCTATACCAG+AGG - chr7.3:17096426-17096445 MS.gene04654:CDS 50.0%
ATGGTGTGTGATGAAGGTGG+TGG + chr7.3:17096361-17096380 None:intergenic 50.0%
CGAGAGACAATTGGAACCTC+TGG + chr7.3:17096445-17096464 None:intergenic 50.0%
TAGGCCTCATGGATGGATGA+AGG + chr7.3:17096420-17096439 None:intergenic 50.0%
TCTGGTATAGGCCTCATGGA+TGG + chr7.3:17096427-17096446 None:intergenic 50.0%
!! TGTGATGAAGGTGGTGGAGA+TGG + chr7.3:17096355-17096374 None:intergenic 50.0%
GCCTCATGGATGGATGAAGG+TGG + chr7.3:17096417-17096436 None:intergenic 55.0%
! GTGGAGATGGTGGTCCAATG+TGG + chr7.3:17096342-17096361 None:intergenic 55.0%
!! GATGAAGGTGGTGGAGATGG+TGG + chr7.3:17096352-17096371 None:intergenic 55.0%
TTACCAGCGGTCTGGTGGGA+TGG - chr7.3:17096565-17096584 MS.gene04654:CDS 60.0%
TTTCCATCCCACCAGACCGC+TGG + chr7.3:17096571-17096590 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 17096064 17096624 17096064 ID=MS.gene04654
chr7.3 mRNA 17096064 17096624 17096064 ID=MS.gene04654.t1;Parent=MS.gene04654
chr7.3 exon 17096064 17096624 17096064 ID=MS.gene04654.t1.exon1;Parent=MS.gene04654.t1
chr7.3 CDS 17096064 17096624 17096064 ID=cds.MS.gene04654.t1;Parent=MS.gene04654.t1
Gene Sequence

>MS.gene04654

ATGTTGTTAGATGTTCAACTCTTATCTTATGATGAGAGCAGTACTGTCAGCAGCAACAATACTAACGTTGCTCCTACTCTTGTTCTTACTCTAACTCCAATCGAATTTCGATGCAATCATTGCCATAACACCTTCAAAACTGCACAAGATCTTTCTTGGCACCAAAGCTCATACACAATTTGCAACATAAATCGGGCTTTATTGAGACATAACAACACACCATCACAAACATTCATACCAACAACATCACAAGATTTACAAAGATCTTCTTTGTACCACATTGGACCACCATCTCCACCACCTTCATCACACACCATGTTGTTTCCTATGCATGGAAGTGGTAATTATGACCACCTTCATCCATCCATGAGGCCTATACCAGAGGTTCCAATTGTCTCTCGTACTCATCATGATTACAATAATATTGATGGATCTTTGGGGAGAACAATGGATCTTATTTCTCTGATTGACAAGCCGATTGATTCTGCTCCAATTGAAGAATTACCAGCGGTCTGGTGGGATGGAAACAACAATGTCATCGACCTTGATTTGAAGCTTTAG
Protein sequence

>MS.gene04654.t1

MLLDVQLLSYDESSTVSSNNTNVAPTLVLTLTPIEFRCNHCHNTFKTAQDLSWHQSSYTICNINRALLRHNNTPSQTFIPTTSQDLQRSSLYHIGPPSPPPSSHTMLFPMHGSGNYDHLHPSMRPIPEVPIVSRTHHDYNNIDGSLGRTMDLISLIDKPIDSAPIEELPAVWWDGNNNVIDLDLKL