AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051969


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051969.t1 MTR_2g099550 99.468 188 1 0 1 188 1 188 1.39e-137 382
MS.gene051969.t1 MTR_8g018780 75.419 179 44 0 10 188 4 182 2.49e-85 249
MS.gene051969.t1 MTR_1g081230 61.749 183 69 1 7 188 3 185 6.72e-76 226
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051969.t1 AT1G72750 67.568 185 57 1 7 188 4 188 2.31e-76 227
MS.gene051969.t1 AT1G17530 62.366 186 64 2 5 188 6 187 1.61e-74 222
MS.gene051969.t1 AT1G17530 62.295 183 63 2 4 184 5 183 3.36e-73 219
MS.gene051969.t1 AT3G04800 52.459 183 86 1 7 188 6 188 7.56e-51 162

Find 75 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAGCCGCATCCGGTGTAAA+AGG 0.316751 2.2:+3436496 None:intergenic
TGGCAGCAGGGCTTGGTACC+GGG 0.325322 2.2:-3436253 MS.gene051969:CDS
TTGGGAGCTGGTAGAGGTTT+CGG 0.328905 2.2:+3436585 None:intergenic
TAGGGATTGTAGAGACGTTT+TGG 0.331643 2.2:+3436629 None:intergenic
TTGGTACCGGGGCGTTGTAT+CGG 0.348837 2.2:-3436241 MS.gene051969:CDS
ACCTTTCTCGAACGATTTCA+CGG 0.355472 2.2:+3436430 None:intergenic
GGCTATCTCGGCGGCGCCAT+TGG 0.360134 2.2:-3436479 MS.gene051969:CDS
GTGGCAGCAGGGCTTGGTAC+CGG 0.372617 2.2:-3436254 MS.gene051969:CDS
AAGAGATGTTCAGGTGAGGT+TGG 0.384154 2.2:+3436566 None:intergenic
TCCTCGATGAAGAGATGTTC+AGG 0.386072 2.2:+3436557 None:intergenic
CAGGACACACGGGTCGGACG+TGG 0.387337 2.2:-3436367 MS.gene051969:CDS
TGGTACCGGGGCGTTGTATC+GGG 0.396607 2.2:-3436240 MS.gene051969:CDS
GTGAGATCAGCTGCTGTTGC+CGG 0.398096 2.2:-3436206 MS.gene051969:CDS
CGCATCCGGTGTAAAAGGTT+AGG 0.399415 2.2:+3436501 None:intergenic
GGGAACCGCCTTGGTGTGAT+CGG 0.402790 2.2:-3436344 MS.gene051969:CDS
TCGGAGTTTGATTCGTGATC+GGG 0.411466 2.2:+3436662 None:intergenic
CACAACACCACCAACAGCAC+CGG 0.411667 2.2:+3436187 None:intergenic
GGCGGCGCCATTGGTGGCGC+CGG 0.412036 2.2:-3436470 MS.gene051969:CDS
AACAGTGTGGCAGCAGGGCT+TGG 0.418069 2.2:-3436260 MS.gene051969:CDS
GCTGTTGGTGGTGTTGTGGC+TGG 0.423812 2.2:-3436182 MS.gene051969:CDS
GGAACCGCCTTGGTGTGATC+GGG 0.429194 2.2:-3436343 MS.gene051969:CDS
CGTTGTATCGGGCAGCGAGA+GGG 0.437956 2.2:-3436229 MS.gene051969:CDS
GTGAGGTTGGGAGCTGGTAG+AGG 0.443193 2.2:+3436579 None:intergenic
GGATTGGTACTTCGAGGTCT+TGG 0.447073 2.2:+3436606 None:intergenic
CTCAACGCAAACATCGTTCC+TGG 0.447403 2.2:-3436532 MS.gene051969:CDS
GTGGCTGGAGTGGCTATCGC+GGG 0.448335 2.2:-3436167 MS.gene051969:CDS
AGTGGCTATCGCGGGGAAGC+AGG 0.450298 2.2:-3436159 MS.gene051969:CDS
TATCTCGGCGGCGCCATTGG+TGG 0.452807 2.2:-3436476 MS.gene051969:CDS
AAAGGTTAGGGTTTCTCCCC+AGG 0.463183 2.2:+3436514 None:intergenic
GCCATTGGTGGCGCCGGCGT+AGG 0.463542 2.2:-3436464 MS.gene051969:CDS
GCTGCTGTTGCCGGTGCTGT+TGG 0.465020 2.2:-3436197 MS.gene051969:CDS
GGACACACGGGTCGGACGTG+GGG 0.487258 2.2:-3436365 MS.gene051969:CDS
GCATCCGGTGTAAAAGGTTA+GGG 0.487745 2.2:+3436502 None:intergenic
AACAAGATTCTGAATTCGTC+AGG 0.489468 2.2:-3436386 MS.gene051969:CDS
AGAGATGTTCAGGTGAGGTT+GGG 0.491614 2.2:+3436567 None:intergenic
ATCGGAGTTTGATTCGTGAT+CGG 0.492854 2.2:+3436661 None:intergenic
TGGTACTTCGAGGTCTTGGT+AGG 0.496614 2.2:+3436610 None:intergenic
GCCGTGAAATCGTTCGAGAA+AGG 0.498953 2.2:-3436431 MS.gene051969:CDS
GCCGCCGAGATAGCCGCATC+CGG 0.504343 2.2:+3436487 None:intergenic
GCTGTTGCCGGTGCTGTTGG+TGG 0.505954 2.2:-3436194 MS.gene051969:CDS
GGTTTCGGATTGGTACTTCG+AGG 0.508805 2.2:+3436600 None:intergenic
GTTGTATCGGGCAGCGAGAG+GGG 0.520290 2.2:-3436228 MS.gene051969:CDS
ACCTACGCCGGCGCCACCAA+TGG 0.521262 2.2:+3436463 None:intergenic
GCGTTGTATCGGGCAGCGAG+AGG 0.529365 2.2:-3436230 MS.gene051969:CDS
TACACCGGATGCGGCTATCT+CGG 0.531450 2.2:-3436491 MS.gene051969:CDS
TCAACGCAAACATCGTTCCT+GGG 0.532503 2.2:-3436531 MS.gene051969:CDS
AGGACACACGGGTCGGACGT+GGG 0.534760 2.2:-3436366 MS.gene051969:CDS
GGCAGCAGGGCTTGGTACCG+GGG 0.541292 2.2:-3436252 MS.gene051969:CDS
TGGAATTGAAAGCGGGATCA+CGG 0.541386 2.2:-3436309 MS.gene051969:CDS
CGGTGCTGTTGGTGGTGTTG+TGG 0.552191 2.2:-3436186 MS.gene051969:CDS
GATCACGGCGGCGAGAGATA+CGG 0.553451 2.2:-3436294 MS.gene051969:CDS
GTGATCGGGTTGTTATTCGC+TGG 0.562580 2.2:-3436329 MS.gene051969:CDS
GTTCAGGTGAGGTTGGGAGC+TGG 0.563872 2.2:+3436573 None:intergenic
TGTGGCTGGAGTGGCTATCG+CGG 0.570123 2.2:-3436168 MS.gene051969:CDS
TCTGAATTCGTCAGGACACA+CGG 0.572872 2.2:-3436378 MS.gene051969:CDS
TGGTGGTGTTGTGGCTGGAG+TGG 0.577673 2.2:-3436177 MS.gene051969:CDS
GACACACGGGTCGGACGTGG+GGG 0.579942 2.2:-3436364 MS.gene051969:CDS
CGGAGTTTGATTCGTGATCG+GGG 0.580921 2.2:+3436663 None:intergenic
GGTACTTCGAGGTCTTGGTA+GGG 0.582086 2.2:+3436611 None:intergenic
TATTCGCTGGAATTGAAAGC+GGG 0.588545 2.2:-3436316 MS.gene051969:CDS
AGCTGGTAGAGGTTTCGGAT+TGG 0.594257 2.2:+3436590 None:intergenic
CTGAATTCGTCAGGACACAC+GGG 0.613772 2.2:-3436377 MS.gene051969:CDS
ACCGGATGCGGCTATCTCGG+CGG 0.633488 2.2:-3436488 MS.gene051969:CDS
CGCTGCCCGATACAACGCCC+CGG 0.635857 2.2:+3436235 None:intergenic
TTATTCGCTGGAATTGAAAG+CGG 0.641254 2.2:-3436317 MS.gene051969:CDS
GGAGTTTGATTCGTGATCGG+GGG 0.642744 2.2:+3436664 None:intergenic
TGGCTGGAGTGGCTATCGCG+GGG 0.652115 2.2:-3436166 MS.gene051969:CDS
ATTCGTCAGGACACACGGGT+CGG 0.661517 2.2:-3436373 MS.gene051969:CDS
CAACGCAAACATCGTTCCTG+GGG 0.671475 2.2:-3436530 MS.gene051969:CDS
GGCTTCGACGAAACCTACGC+CGG 0.685279 2.2:+3436451 None:intergenic
GATGAAGAGATGTTCAGGTG+AGG 0.693036 2.2:+3436562 None:intergenic
ACCTGAACATCTCTTCATCG+AGG 0.710068 2.2:-3436558 MS.gene051969:CDS
ATAACAACCCGATCACACCA+AGG 0.726478 2.2:+3436336 None:intergenic
AATTGAAAGCGGGATCACGG+CGG 0.736385 2.2:-3436306 MS.gene051969:CDS
ACAACCCGATCACACCAAGG+CGG 0.775839 2.2:+3436339 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAAGATTCTGAATTCGTC+AGG - chr2.2:3436424-3436443 MS.gene051969:CDS 35.0%
TTATTCGCTGGAATTGAAAG+CGG - chr2.2:3436493-3436512 MS.gene051969:CDS 35.0%
ACCTTTCTCGAACGATTTCA+CGG + chr2.2:3436383-3436402 None:intergenic 40.0%
TATTCGCTGGAATTGAAAGC+GGG - chr2.2:3436494-3436513 MS.gene051969:CDS 40.0%
! ATCGGAGTTTGATTCGTGAT+CGG + chr2.2:3436152-3436171 None:intergenic 40.0%
! GAAACCCTAACCTTTTACAC+CGG - chr2.2:3436304-3436323 MS.gene051969:CDS 40.0%
! TAGGGATTGTAGAGACGTTT+TGG + chr2.2:3436184-3436203 None:intergenic 40.0%
!! GATTGTAGAGACGTTTTGGA+GGG + chr2.2:3436180-3436199 None:intergenic 40.0%
AAGAGATGTTCAGGTGAGGT+TGG + chr2.2:3436247-3436266 None:intergenic 45.0%
ACCTGAACATCTCTTCATCG+AGG - chr2.2:3436252-3436271 MS.gene051969:CDS 45.0%
AGAGATGTTCAGGTGAGGTT+GGG + chr2.2:3436246-3436265 None:intergenic 45.0%
ATAACAACCCGATCACACCA+AGG + chr2.2:3436477-3436496 None:intergenic 45.0%
GATGAAGAGATGTTCAGGTG+AGG + chr2.2:3436251-3436270 None:intergenic 45.0%
GCATCCGGTGTAAAAGGTTA+GGG + chr2.2:3436311-3436330 None:intergenic 45.0%
TCAACGCAAACATCGTTCCT+GGG - chr2.2:3436279-3436298 MS.gene051969:CDS 45.0%
TCCTCGATGAAGAGATGTTC+AGG + chr2.2:3436256-3436275 None:intergenic 45.0%
TCTGAATTCGTCAGGACACA+CGG - chr2.2:3436432-3436451 MS.gene051969:CDS 45.0%
TGGAATTGAAAGCGGGATCA+CGG - chr2.2:3436501-3436520 MS.gene051969:CDS 45.0%
! CTAACCTTTTACACCGGATG+CGG - chr2.2:3436310-3436329 MS.gene051969:CDS 45.0%
! GGACGATGTTTTCAACAGTG+TGG - chr2.2:3436537-3436556 MS.gene051969:CDS 45.0%
! GGATTGTAGAGACGTTTTGG+AGG + chr2.2:3436181-3436200 None:intergenic 45.0%
! TCGGAGTTTGATTCGTGATC+GGG + chr2.2:3436151-3436170 None:intergenic 45.0%
! TTTTCAACAGTGTGGCAGCA+GGG - chr2.2:3436545-3436564 MS.gene051969:CDS 45.0%
!!! ACGTTTTGGAGGGTTGGAAT+CGG + chr2.2:3436170-3436189 None:intergenic 45.0%
AAAGGTTAGGGTTTCTCCCC+AGG + chr2.2:3436299-3436318 None:intergenic 50.0%
AATTGAAAGCGGGATCACGG+CGG - chr2.2:3436504-3436523 MS.gene051969:CDS 50.0%
AGCTGGTAGAGGTTTCGGAT+TGG + chr2.2:3436223-3436242 None:intergenic 50.0%
ATAGCCGCATCCGGTGTAAA+AGG + chr2.2:3436317-3436336 None:intergenic 50.0%
CAACGCAAACATCGTTCCTG+GGG - chr2.2:3436280-3436299 MS.gene051969:CDS 50.0%
CGCATCCGGTGTAAAAGGTT+AGG + chr2.2:3436312-3436331 None:intergenic 50.0%
CTCAACGCAAACATCGTTCC+TGG - chr2.2:3436278-3436297 MS.gene051969:CDS 50.0%
CTGAATTCGTCAGGACACAC+GGG - chr2.2:3436433-3436452 MS.gene051969:CDS 50.0%
GCCGTGAAATCGTTCGAGAA+AGG - chr2.2:3436379-3436398 MS.gene051969:CDS 50.0%
GGTACTTCGAGGTCTTGGTA+GGG + chr2.2:3436202-3436221 None:intergenic 50.0%
TGGTACTTCGAGGTCTTGGT+AGG + chr2.2:3436203-3436222 None:intergenic 50.0%
TTGGGAGCTGGTAGAGGTTT+CGG + chr2.2:3436228-3436247 None:intergenic 50.0%
! CGGAGTTTGATTCGTGATCG+GGG + chr2.2:3436150-3436169 None:intergenic 50.0%
! GGAGTTTGATTCGTGATCGG+GGG + chr2.2:3436149-3436168 None:intergenic 50.0%
! GGATTGGTACTTCGAGGTCT+TGG + chr2.2:3436207-3436226 None:intergenic 50.0%
! GTGATCGGGTTGTTATTCGC+TGG - chr2.2:3436481-3436500 MS.gene051969:CDS 50.0%
! GTTTTCAACAGTGTGGCAGC+AGG - chr2.2:3436544-3436563 MS.gene051969:CDS 50.0%
!! GGTTTCGGATTGGTACTTCG+AGG + chr2.2:3436213-3436232 None:intergenic 50.0%
!!! GTAGAGACGTTTTGGAGGGT+TGG + chr2.2:3436176-3436195 None:intergenic 50.0%
ACAACCCGATCACACCAAGG+CGG + chr2.2:3436474-3436493 None:intergenic 55.0%
ATTCGTCAGGACACACGGGT+CGG - chr2.2:3436437-3436456 MS.gene051969:CDS 55.0%
CACAACACCACCAACAGCAC+CGG + chr2.2:3436626-3436645 None:intergenic 55.0%
GTGAGATCAGCTGCTGTTGC+CGG - chr2.2:3436604-3436623 MS.gene051969:CDS 55.0%
TACACCGGATGCGGCTATCT+CGG - chr2.2:3436319-3436338 MS.gene051969:CDS 55.0%
!! TTGGTACCGGGGCGTTGTAT+CGG - chr2.2:3436569-3436588 MS.gene051969:CDS 55.0%
AACAGTGTGGCAGCAGGGCT+TGG - chr2.2:3436550-3436569 MS.gene051969:CDS 60.0%
CGTTGTATCGGGCAGCGAGA+GGG - chr2.2:3436581-3436600 MS.gene051969:CDS 60.0%
GATCACGGCGGCGAGAGATA+CGG - chr2.2:3436516-3436535 MS.gene051969:CDS 60.0%
GGCTTCGACGAAACCTACGC+CGG + chr2.2:3436362-3436381 None:intergenic 60.0%
GTGAGGTTGGGAGCTGGTAG+AGG + chr2.2:3436234-3436253 None:intergenic 60.0%
GTTCAGGTGAGGTTGGGAGC+TGG + chr2.2:3436240-3436259 None:intergenic 60.0%
GTTGTATCGGGCAGCGAGAG+GGG - chr2.2:3436582-3436601 MS.gene051969:CDS 60.0%
TGTGGCTGGAGTGGCTATCG+CGG - chr2.2:3436642-3436661 MS.gene051969:CDS 60.0%
! GGAACCGCCTTGGTGTGATC+GGG - chr2.2:3436467-3436486 MS.gene051969:CDS 60.0%
! GGGAACCGCCTTGGTGTGAT+CGG - chr2.2:3436466-3436485 MS.gene051969:CDS 60.0%
!! CGGTGCTGTTGGTGGTGTTG+TGG - chr2.2:3436624-3436643 MS.gene051969:CDS 60.0%
!! GCTGTTGGTGGTGTTGTGGC+TGG - chr2.2:3436628-3436647 MS.gene051969:CDS 60.0%
!! TGGTACCGGGGCGTTGTATC+GGG - chr2.2:3436570-3436589 MS.gene051969:CDS 60.0%
!! TGGTGGTGTTGTGGCTGGAG+TGG - chr2.2:3436633-3436652 MS.gene051969:CDS 60.0%
ACCGGATGCGGCTATCTCGG+CGG - chr2.2:3436322-3436341 MS.gene051969:CDS 65.0%
AGGACACACGGGTCGGACGT+GGG - chr2.2:3436444-3436463 MS.gene051969:CDS 65.0%
AGTGGCTATCGCGGGGAAGC+AGG - chr2.2:3436651-3436670 MS.gene051969:CDS 65.0%
GCGTTGTATCGGGCAGCGAG+AGG - chr2.2:3436580-3436599 MS.gene051969:CDS 65.0%
GTGGCTGGAGTGGCTATCGC+GGG - chr2.2:3436643-3436662 MS.gene051969:CDS 65.0%
TATCTCGGCGGCGCCATTGG+TGG - chr2.2:3436334-3436353 MS.gene051969:CDS 65.0%
TGGCTGGAGTGGCTATCGCG+GGG - chr2.2:3436644-3436663 MS.gene051969:CDS 65.0%
! GTGGCAGCAGGGCTTGGTAC+CGG - chr2.2:3436556-3436575 MS.gene051969:CDS 65.0%
! TGGCAGCAGGGCTTGGTACC+GGG - chr2.2:3436557-3436576 MS.gene051969:CDS 65.0%
!! GCTGCTGTTGCCGGTGCTGT+TGG - chr2.2:3436613-3436632 MS.gene051969:CDS 65.0%
!! GCTGTTGCCGGTGCTGTTGG+TGG - chr2.2:3436616-3436635 MS.gene051969:CDS 65.0%
ACCTACGCCGGCGCCACCAA+TGG + chr2.2:3436350-3436369 None:intergenic 70.0%
CAGGACACACGGGTCGGACG+TGG - chr2.2:3436443-3436462 MS.gene051969:CDS 70.0%
CGCTGCCCGATACAACGCCC+CGG + chr2.2:3436578-3436597 None:intergenic 70.0%
GACACACGGGTCGGACGTGG+GGG - chr2.2:3436446-3436465 MS.gene051969:CDS 70.0%
GCCGCCGAGATAGCCGCATC+CGG + chr2.2:3436326-3436345 None:intergenic 70.0%
GGACACACGGGTCGGACGTG+GGG - chr2.2:3436445-3436464 MS.gene051969:CDS 70.0%
GGCTATCTCGGCGGCGCCAT+TGG - chr2.2:3436331-3436350 MS.gene051969:CDS 70.0%
! GGCAGCAGGGCTTGGTACCG+GGG - chr2.2:3436558-3436577 MS.gene051969:CDS 70.0%
CGGACGTGGGGGAACCGCCT+TGG - chr2.2:3436457-3436476 MS.gene051969:CDS 75.0%
!! GCCATTGGTGGCGCCGGCGT+AGG - chr2.2:3436346-3436365 MS.gene051969:CDS 75.0%
!!! GGCGGCGCCATTGGTGGCGC+CGG - chr2.2:3436340-3436359 MS.gene051969:CDS 80.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 3436133 3436699 3436133 ID=MS.gene051969
chr2.2 mRNA 3436133 3436699 3436133 ID=MS.gene051969.t1;Parent=MS.gene051969
chr2.2 exon 3436133 3436699 3436133 ID=MS.gene051969.t1.exon1;Parent=MS.gene051969.t1
chr2.2 CDS 3436133 3436699 3436133 ID=cds.MS.gene051969.t1;Parent=MS.gene051969.t1
Gene Sequence

>MS.gene051969

ATGGCGTTTCACTCCCCCGATCACGAATCAAACTCCGATTCCAACCCTCCAAAACGTCTCTACAATCCCTACCAAGACCTCGAAGTACCAATCCGAAACCTCTACCAGCTCCCAACCTCACCTGAACATCTCTTCATCGAGGAAGCTCAACGCAAACATCGTTCCTGGGGAGAAACCCTAACCTTTTACACCGGATGCGGCTATCTCGGCGGCGCCATTGGTGGCGCCGGCGTAGGTTTCGTCGAAGCCGTGAAATCGTTCGAGAAAGGTGATACTAATAAGCTCAGACTCAACAAGATTCTGAATTCGTCAGGACACACGGGTCGGACGTGGGGGAACCGCCTTGGTGTGATCGGGTTGTTATTCGCTGGAATTGAAAGCGGGATCACGGCGGCGAGAGATACGGACGATGTTTTCAACAGTGTGGCAGCAGGGCTTGGTACCGGGGCGTTGTATCGGGCAGCGAGAGGGGTGAGATCAGCTGCTGTTGCCGGTGCTGTTGGTGGTGTTGTGGCTGGAGTGGCTATCGCGGGGAAGCAGGCTTTGAAACGCTATGTGCCTATATGA

Protein sequence

>MS.gene051969.t1

MAFHSPDHESNSDSNPPKRLYNPYQDLEVPIRNLYQLPTSPEHLFIEEAQRKHRSWGETLTFYTGCGYLGGAIGGAGVGFVEAVKSFEKGDTNKLRLNKILNSSGHTGRTWGNRLGVIGLLFAGIESGITAARDTDDVFNSVAAGLGTGALYRAARGVRSAAVAGAVGGVVAGVAIAGKQALKRYVPI